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Conserved domains on  [gi|1039796985|ref|XP_017173950|]
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lysine-specific demethylase 6A isoform X3 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
JmjC pfam02373
JmjC domain, hydroxylase; The JmjC domain belongs to the Cupin superfamily. JmjC-domain ...
 1152-1260 1.20e-36

JmjC domain, hydroxylase; The JmjC domain belongs to the Cupin superfamily. JmjC-domain proteins may be protein hydroxylases that catalyze a novel histone modification. This is confirmed to be a hydroxylase: the human JmjC protein named Tyw5p unexpectedly acts in the biosynthesis of a hypermodified nucleoside, hydroxy-wybutosine, in tRNA-Phe by catalysing hydroxylation.


:

Pssm-ID: 396791  Cd Length: 114  Bit Score: 134.35  E-value: 1.20e-36
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985 1152 QLYMKVPGSRTPGHQENNNFCSVNINIGPGDCEWFVVPEGYWGVLNDFCEKNN-------LNFLMGSWWPnlEDLYEANV 1224
Cdd:pfam02373    1 WLYLGMPFSTTPWHIEDQGLYSINYLHFGAPKVWYIIPPEYAEKFEKVLSDHFggeqpddLLHLNTIISP--KQLRENGI 78

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 1039796985 1225 PVYRFIQRPGDLVWINAGTVHWVQAIGWCNNIAWNV 1260
Cdd:pfam02373   79 PVYRFVQKPGEFVFTFPGWYHQVFNLGFNIAEAVNF 114
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 100-369 3.13e-24

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


:

Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 104.04  E-value: 3.13e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  100 QLGHFNLLLEDYPKALSAYQRYYSLQSDywkNAAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPsfcRAKEIHLRLGLMF 179
Cdd:COG2956     13 FKGLNYLLNGQPDKAIDLLEEALELDPE---TVEAHLALGNLYRRRGEYDRAIRIHQKLLERDP---DRAEALLELAQDY 86

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  180 KVNTDYESSLKHFQlALVDCNPctlSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQTENLSAQV---KATILQQlgwmhh 256
Cdd:COG2956     87 LKAGLLDRAEELLE-KLLELDP---DDAEALRLLAEIYEQEGDWEKAIEVLERLLKLGPENAHAyceLAELYLE------ 156

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  257 tvdlLGDKATkesyAIQYLQKSLEADPNSGQSWYFLGSvLYQQQNQPMDALQAYICAVQLDHGHAAAWMDLGTLYESCNQ 336
Cdd:COG2956    157 ----QGDYDE----AIEALEKALKLDPDCARALLLLAE-LYLEQGDYEEAIAALERALEQDPDYLPALPRLAELYEKLGD 227

                          250       260       270
                   ....*....|....*....|....*....|...
gi 1039796985  337 PQDAIKcYLNATRSKNCSNTSGLAARIKYLQAQ 369
Cdd:COG2956    228 PEEALE-LLRKALELDPSDDLLLALADLLERKE 259
JmjC smart00558
A domain family that is part of the cupin metalloenzyme superfamily; Probable enzymes, but of ...
 1118-1182 5.03e-08

A domain family that is part of the cupin metalloenzyme superfamily; Probable enzymes, but of unknown functions, that regulate chromatin reorganisation processes (Clissold and Ponting, in press).


:

Pssm-ID: 214721  Cd Length: 58  Bit Score: 50.71  E-value: 5.03e-08
                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1039796985  1118 QLHELTKLPafvrvvSAGNLLSHVGHTILGMNT-VQLYMKVPGSRTPGHQENNNfcSVNINIGPGD 1182
Cdd:smart00558    1 QLWNLAKLP------FKLNLLSDLPEDIPGPDVgPYLYMGMAGSTTPWHIDDYD--LVNYLHQGAG 58
 
Name Accession Description Interval E-value
JmjC pfam02373
JmjC domain, hydroxylase; The JmjC domain belongs to the Cupin superfamily. JmjC-domain ...
 1152-1260 1.20e-36

JmjC domain, hydroxylase; The JmjC domain belongs to the Cupin superfamily. JmjC-domain proteins may be protein hydroxylases that catalyze a novel histone modification. This is confirmed to be a hydroxylase: the human JmjC protein named Tyw5p unexpectedly acts in the biosynthesis of a hypermodified nucleoside, hydroxy-wybutosine, in tRNA-Phe by catalysing hydroxylation.


Pssm-ID: 396791  Cd Length: 114  Bit Score: 134.35  E-value: 1.20e-36
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985 1152 QLYMKVPGSRTPGHQENNNFCSVNINIGPGDCEWFVVPEGYWGVLNDFCEKNN-------LNFLMGSWWPnlEDLYEANV 1224
Cdd:pfam02373    1 WLYLGMPFSTTPWHIEDQGLYSINYLHFGAPKVWYIIPPEYAEKFEKVLSDHFggeqpddLLHLNTIISP--KQLRENGI 78

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 1039796985 1225 PVYRFIQRPGDLVWINAGTVHWVQAIGWCNNIAWNV 1260
Cdd:pfam02373   79 PVYRFVQKPGEFVFTFPGWYHQVFNLGFNIAEAVNF 114
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 100-369 3.13e-24

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 104.04  E-value: 3.13e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  100 QLGHFNLLLEDYPKALSAYQRYYSLQSDywkNAAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPsfcRAKEIHLRLGLMF 179
Cdd:COG2956     13 FKGLNYLLNGQPDKAIDLLEEALELDPE---TVEAHLALGNLYRRRGEYDRAIRIHQKLLERDP---DRAEALLELAQDY 86

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  180 KVNTDYESSLKHFQlALVDCNPctlSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQTENLSAQV---KATILQQlgwmhh 256
Cdd:COG2956     87 LKAGLLDRAEELLE-KLLELDP---DDAEALRLLAEIYEQEGDWEKAIEVLERLLKLGPENAHAyceLAELYLE------ 156

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  257 tvdlLGDKATkesyAIQYLQKSLEADPNSGQSWYFLGSvLYQQQNQPMDALQAYICAVQLDHGHAAAWMDLGTLYESCNQ 336
Cdd:COG2956    157 ----QGDYDE----AIEALEKALKLDPDCARALLLLAE-LYLEQGDYEEAIAALERALEQDPDYLPALPRLAELYEKLGD 227

                          250       260       270
                   ....*....|....*....|....*....|...
gi 1039796985  337 PQDAIKcYLNATRSKNCSNTSGLAARIKYLQAQ 369
Cdd:COG2956    228 PEEALE-LLRKALELDPSDDLLLALADLLERKE 259
JmjC smart00558
A domain family that is part of the cupin metalloenzyme superfamily; Probable enzymes, but of ...
 1118-1182 5.03e-08

A domain family that is part of the cupin metalloenzyme superfamily; Probable enzymes, but of unknown functions, that regulate chromatin reorganisation processes (Clissold and Ponting, in press).


Pssm-ID: 214721  Cd Length: 58  Bit Score: 50.71  E-value: 5.03e-08
                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1039796985  1118 QLHELTKLPafvrvvSAGNLLSHVGHTILGMNT-VQLYMKVPGSRTPGHQENNNfcSVNINIGPGD 1182
Cdd:smart00558    1 QLWNLAKLP------FKLNLLSDLPEDIPGPDVgPYLYMGMAGSTTPWHIDDYD--LVNYLHQGAG 58
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 87-301 1.63e-07

putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.


Pssm-ID: 274350 [Multi-domain]  Cd Length: 899  Bit Score: 56.25  E-value: 1.63e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985   87 LKAEGKVESDFF-CQLGHFNLLLEDyPKALSAYQRYYSLQSDYWKNAAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPS- 164
Cdd:TIGR02917  658 LKRALELKPDNTeAQIGLAQLLLAA-KRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSs 736

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  165 --FCRAKEIHLRLGLMFKVNTDYESSLKHfqlalvdcNPctlSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQtenlSAQ 242
Cdd:TIGR02917  737 qnAIKLHRALLASGNTAEAVKTLEAWLKT--------HP---NDAVLRTALAELYLAQKDYDKAIKHYQTVVK----KAP 801

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1039796985  243 VKATILQQLGWmhhtvdLLGDKatKESYAIQYLQKSLEADPNSGQSWYFLGSVLYQQQN 301
Cdd:TIGR02917  802 DNAVVLNNLAW------LYLEL--KDPRALEYAERALKLAPNIPAILDTLGWLLVEKGE 852
TPR_15 pfam13429
Tetratricopeptide repeat;
173-329 2.25e-06

Tetratricopeptide repeat;


Pssm-ID: 433199 [Multi-domain]  Cd Length: 279  Bit Score: 50.82  E-value: 2.25e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  173 LRLGLMFKVNTDYESSLKhfqlALV-DCNPCTLSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQTENLSAQV-------- 243
Cdd:pfam13429   12 YALATLLYGQGDPRKALA----ALKeGAQTAPASDTEFWRTLADLAWALQQDDDARRAYRQLLASGKARADDyerlilll 87

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  244 ------KATILQQLGWMH-HTVDLL------GDKAtKESYAIQYLQKSLEADPNSGQSWYFLG--SVLYQQQNQPMDALQ 308
Cdd:pfam13429   88 ydarpkDAARLSELGWRRfRSPRHLysalylYERA-GDYDRLARLLASLEELPAAEQSPAFWLarAEYYRQTGEPDAALR 166

                          170       180
                   ....*....|....*....|....*...
gi 1039796985  309 AYICAVQLDHGHAAA-----WM--DLGT 329
Cdd:pfam13429  167 DYRRALALAPASTELraallWFliDLGR 194
Mgr3-like cd24145
Mitochondrial inner membrane i-AAA protease supercomplex subunit Mgr3 and similar proteins; ...
 172-412 1.01e-04

Mitochondrial inner membrane i-AAA protease supercomplex subunit Mgr3 and similar proteins; Mgr3 (also called mitochondrial genome-required protein 3) is a component of the mitochondrial inner membrane i-AAA protease supercomplex, which degrades misfolded mitochondrial proteins. The supercomplex is composed of Mgr1, Mgr3, and Yme1. Mgr3, together with Mgr1, functions in an adapter complex that targets substrates to the i-AAA protease for degradation.


Pssm-ID: 467945 [Multi-domain]  Cd Length: 307  Bit Score: 46.19  E-value: 1.01e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  172 HLRLGLMFK-VNTDYESSLKHFQLALVDCNPCTLS--NAE---IQFHIAHLYEtqrKYHSAKEAYEQLLQtenlsaqvka 245
Cdd:cd24145     10 ILRKALYYEsDKPDPQKALKYYKEALEQADELGMDpfSDEvtgIRIKIAEMLE---KLGMYKAAYEVLER---------- 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  246 TILQQLGWmhhtvdllgDKATKESYAIQYLQKSLEADPNSGQswyflgsvLYQQQNQPMDAL--QAYICAVQLDHGHAAA 323
Cdd:cd24145     77 LYLDCLRW---------TLKDDESERGHLIKRDLRISIKLGE--------LNKDSELGKWELreRLLKKAVEILLKLGEL 139

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  324 WM----------DLGTLYESCNQPQDAIKCYLNATRSK--------NCsntsglaARIKYLQA-QLCNLPQgslqnktKL 384
Cdd:cd24145    140 WMspsevgafleELATAYDLYGRFCLALPLYMQALSLKgqillsqaNC-------HSLVLMNNeAAELALH-------AL 205

                          250       260
                   ....*....|....*....|....*...
gi 1039796985  385 LPSIEEAWSLPIPAELTSRQGAMNTAQQ 412
Cdd:cd24145    206 RKPLSSTLIEASRLPQKSRDQLLEAALK 233
TPR smart00028
Tetratricopeptide repeats; Repeats present in 4 or more copies in proteins. Contain a minimum ...
 132-165 4.46e-03

Tetratricopeptide repeats; Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.


Pssm-ID: 197478 [Multi-domain]  Cd Length: 34  Bit Score: 36.27  E-value: 4.46e-03
                            10        20        30
                    ....*....|....*....|....*....|....
gi 1039796985   132 AAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPSF 165
Cdd:smart00028    1 AEALYNLGNAYLKLGDYDEALEYYEKALELDPNN 34
 
Name Accession Description Interval E-value
JmjC pfam02373
JmjC domain, hydroxylase; The JmjC domain belongs to the Cupin superfamily. JmjC-domain ...
 1152-1260 1.20e-36

JmjC domain, hydroxylase; The JmjC domain belongs to the Cupin superfamily. JmjC-domain proteins may be protein hydroxylases that catalyze a novel histone modification. This is confirmed to be a hydroxylase: the human JmjC protein named Tyw5p unexpectedly acts in the biosynthesis of a hypermodified nucleoside, hydroxy-wybutosine, in tRNA-Phe by catalysing hydroxylation.


Pssm-ID: 396791  Cd Length: 114  Bit Score: 134.35  E-value: 1.20e-36
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985 1152 QLYMKVPGSRTPGHQENNNFCSVNINIGPGDCEWFVVPEGYWGVLNDFCEKNN-------LNFLMGSWWPnlEDLYEANV 1224
Cdd:pfam02373    1 WLYLGMPFSTTPWHIEDQGLYSINYLHFGAPKVWYIIPPEYAEKFEKVLSDHFggeqpddLLHLNTIISP--KQLRENGI 78

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 1039796985 1225 PVYRFIQRPGDLVWINAGTVHWVQAIGWCNNIAWNV 1260
Cdd:pfam02373   79 PVYRFVQKPGEFVFTFPGWYHQVFNLGFNIAEAVNF 114
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 100-369 3.13e-24

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 104.04  E-value: 3.13e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  100 QLGHFNLLLEDYPKALSAYQRYYSLQSDywkNAAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPsfcRAKEIHLRLGLMF 179
Cdd:COG2956     13 FKGLNYLLNGQPDKAIDLLEEALELDPE---TVEAHLALGNLYRRRGEYDRAIRIHQKLLERDP---DRAEALLELAQDY 86

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  180 KVNTDYESSLKHFQlALVDCNPctlSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQTENLSAQV---KATILQQlgwmhh 256
Cdd:COG2956     87 LKAGLLDRAEELLE-KLLELDP---DDAEALRLLAEIYEQEGDWEKAIEVLERLLKLGPENAHAyceLAELYLE------ 156

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  257 tvdlLGDKATkesyAIQYLQKSLEADPNSGQSWYFLGSvLYQQQNQPMDALQAYICAVQLDHGHAAAWMDLGTLYESCNQ 336
Cdd:COG2956    157 ----QGDYDE----AIEALEKALKLDPDCARALLLLAE-LYLEQGDYEEAIAALERALEQDPDYLPALPRLAELYEKLGD 227

                          250       260       270
                   ....*....|....*....|....*....|...
gi 1039796985  337 PQDAIKcYLNATRSKNCSNTSGLAARIKYLQAQ 369
Cdd:COG2956    228 PEEALE-LLRKALELDPSDDLLLALADLLERKE 259
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 132-412 4.01e-24

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 103.66  E-value: 4.01e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  132 AAFLYG---LGLVYFHYNAFQWAIKAFQEVLYVDPSfcrAKEIHLRLGLMFKVNTDYESSLKHFQlALVDCNPctlSNAE 208
Cdd:COG2956      5 VAAALGwyfKGLNYLLNGQPDKAIDLLEEALELDPE---TVEAHLALGNLYRRRGEYDRAIRIHQ-KLLERDP---DRAE 77

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  209 IQFHIAHLYETQRKYHSAKEAYEQLLQTE--NLSAQVK-ATILQQLG-WmhhtvdllgDKAtkesyaIQYLQKSLEADPN 284
Cdd:COG2956     78 ALLELAQDYLKAGLLDRAEELLEKLLELDpdDAEALRLlAEIYEQEGdW---------EKA------IEVLERLLKLGPE 142

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  285 SGQSWYFLGsVLYQQQNQPMDALQAYICAVQLDHGHAAAWMDLGTLYESCNQPQDAIKCYLNATRSKncSNTSGLAARIK 364
Cdd:COG2956    143 NAHAYCELA-ELYLEQGDYDEAIEALEKALKLDPDCARALLLLAELYLEQGDYEEAIAALERALEQD--PDYLPALPRLA 219

                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|
gi 1039796985  365 YLQAQLCNLPQG--SLQNKTKLLPSIEEAWSLpipAELTSRQGAMNTAQQ 412
Cdd:COG2956    220 ELYEKLGDPEEAleLLRKALELDPSDDLLLAL---ADLLERKEGLEAALA 266
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
170-344 6.47e-19

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 87.75  E-value: 6.47e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  170 EIHLRLGLMFKVNTDYESSLKHFQLALvDCNPctlSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQTENLSAQV---KAT 246
Cdd:COG0457      9 EAYNNLGLAYRRLGRYEEAIEDYEKAL-ELDP---DDAEALYNLGLAYLRLGRYEEALADYEQALELDPDDAEAlnnLGL 84

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  247 ILQQLGwmhhtvdllgdkatKESYAIQYLQKSLEADPNSGQSWYFLGSVLYQQQNQPmDALQAYICAVQLDHGHAAAWMD 326
Cdd:COG0457     85 ALQALG--------------RYEEALEDYDKALELDPDDAEALYNLGLALLELGRYD-EAIEAYERALELDPDDADALYN 149

                          170
                   ....*....|....*...
gi 1039796985  327 LGTLYESCNQPQDAIKCY 344
Cdd:COG0457    150 LGIALEKLGRYEEALELL 167
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
130-310 1.32e-17

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 83.90  E-value: 1.32e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  130 KNAAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPSFCRAkeiHLRLGLMFKVNTDYESSLKHFQLALvDCNPctlSNAEI 209
Cdd:COG0457      6 DDAEAYNNLGLAYRRLGRYEEAIEDYEKALELDPDDAEA---LYNLGLAYLRLGRYEEALADYEQAL-ELDP---DDAEA 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  210 QFHIAHLYETQRKYHSAKEAYEQLLQTENLSAQvkatILQQLGWMHHtvdLLGDKATkesyAIQYLQKSLEADPNSGQSW 289
Cdd:COG0457     79 LNNLGLALQALGRYEEALEDYDKALELDPDDAE----ALYNLGLALL---ELGRYDE----AIEAYERALELDPDDADAL 147

                          170       180
                   ....*....|....*....|.
gi 1039796985  290 YFLGsVLYQQQNQPMDALQAY 310
Cdd:COG0457    148 YNLG-IALEKLGRYEEALELL 167
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
206-347 1.24e-16

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 81.21  E-value: 1.24e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  206 NAEIQFHIAHLYETQRKYHSAKEAYEQLLQTENLSAQVkatiLQQLGWMHHtvdLLGDKATkesyAIQYLQKSLEADPNS 285
Cdd:COG0457      7 DAEAYNNLGLAYRRLGRYEEAIEDYEKALELDPDDAEA----LYNLGLAYL---RLGRYEE----ALADYEQALELDPDD 75

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1039796985  286 GQSWYFLGsVLYQQQNQPMDALQAYICAVQLDHGHAAAWMDLGTLYESCNQPQDAIKCYLNA 347
Cdd:COG0457     76 AEALNNLG-LALQALGRYEEALEDYDKALELDPDDAEALYNLGLALLELGRYDEAIEAYERA 136
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
77-308 4.48e-14

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 73.50  E-value: 4.48e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985   77 KAVRCYESLILKAEGKVESdfFCQLGHFNLLLEDYPKALSAYQRYYSLQSDywkNAAFLYGLGLVYFHYNAFQWAIKAFQ 156
Cdd:COG0457     26 EAIEDYEKALELDPDDAEA--LYNLGLAYLRLGRYEEALADYEQALELDPD---DAEALNNLGLALQALGRYEEALEDYD 100

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  157 EVLYVDPSFCRAK----EIHLRLGlmfkvntDYESSLKHFQLALvDCNPctlSNAEIQFHIAHLYETQRKYHSAKEAYEQ 232
Cdd:COG0457    101 KALELDPDDAEALynlgLALLELG-------RYDEAIEAYERAL-ELDP---DDADALYNLGIALEKLGRYEEALELLEK 169

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1039796985  233 LLQTENLSAQVKATILQQLGWMHHTVDLLGDKATKESYAIQYLQKSLEADPNSGQSWYFLGSVLYQQQNQPMDALQ 308
Cdd:COG0457    170 LEAAALAALLAAALGEAALALAAAEVLLALLLALEQALRKKLAILTLAALAELLLLALALLLALRLAALALYQYRA 245
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
245-349 1.17e-13

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 72.35  E-value: 1.17e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  245 ATILQQLGWMHHtvdLLGDKATkesyAIQYLQKSLEADPNSGQSWYFLGSVlYQQQNQPMDALQAYICAVQLDHGHAAAW 324
Cdd:COG0457      8 AEAYNNLGLAYR---RLGRYEE----AIEDYEKALELDPDDAEALYNLGLA-YLRLGRYEEALADYEQALELDPDDAEAL 79

                           90       100
                   ....*....|....*....|....*
gi 1039796985  325 MDLGTLYESCNQPQDAIKCYLNATR 349
Cdd:COG0457     80 NNLGLALQALGRYEEALEDYDKALE 104
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 204-444 2.40e-13

Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 75.03  E-value: 2.40e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  204 LSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQTENLSAQVKATILQQLgwmhhtvdLLGDKATkesyAIQYLQKSLEADP 283
Cdd:COG3914     42 GLALLLLAALAEAAAAALLALAAGEAAAAAAALLLLAALLELAALLLQ--------ALGRYEE----ALALYRRALALNP 109

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  284 NSGQSWYFLGsVLYQQQNQPMDALQAYICAVQLDHGHAAAWMDLGTLYESCNQPQDAIKCYLNATRskncsntsgLAARI 363
Cdd:COG3914    110 DNAEALFNLG-NLLLALGRLEEALAALRRALALNPDFAEAYLNLGEALRRLGRLEEAIAALRRALE---------LDPDN 179

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  364 KYLQAQLCNLpQGSLQNKTKLLPSIEEAWSLPiPAELTSRQGAMNTAQQACK--PHHPNTEPVLGLSQTPISQQSLPLHM 441
Cdd:COG3914    180 AEALNNLGNA-LQDLGRLEEAIAAYRRALELD-PDNADAHSNLLFALRQACDweVYDRFEELLAALARGPSELSPFALLY 257


                   ...
gi 1039796985  442 IPP 444
Cdd:COG3914    258 LPD 260
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 71-282 6.01e-13

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 70.91  E-value: 6.01e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985   71 MKA-LLGKAVRCYESLILKAEGKVESdfFCQLGHFNLLLEDYPKALSAYQRYYSLQSDywkNAAFLYGLGLVYFHYNAFQ 149
Cdd:COG2956     87 LKAgLLDRAEELLEKLLELDPDDAEA--LRLLAEIYEQEGDWEKAIEVLERLLKLGPE---NAHAYCELAELYLEQGDYD 161

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  150 WAIKAFQEVLYVDPSFCRAK----EIHLRLGlmfkvntDYESSLKHFQLALVDcNPctlSNAEIQFHIAHLYETQRKYHS 225
Cdd:COG2956    162 EAIEALEKALKLDPDCARALlllaELYLEQG-------DYEEAIAALERALEQ-DP---DYLPALPRLAELYEKLGDPEE 230

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1039796985  226 AKEAYEQLLQTENLSAQV--KATILQQLGwmhhtvdllGDKAtkesyAIQYLQKSLEAD 282
Cdd:COG2956    231 ALELLRKALELDPSDDLLlaLADLLERKE---------GLEA-----ALALLERQLRRH 275
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 271-347 7.39e-13

Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443378 [Multi-domain]  Cd Length: 131  Bit Score: 66.95  E-value: 7.39e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1039796985  271 AIQYLQKSLEADPNSGQSWYFLGsVLYQQQNQPMDALQAYICAVQLDHGHAAAWMDLGTLYESCNQPQDAIKCYLNA 347
Cdd:COG4235      2 AIARLRQALAANPNDAEGWLLLG-RAYLRLGRYDEALAAYEKALRLDPDNADALLDLAEALLAAGDTEEAEELLERA 77
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 207-347 2.80e-12

Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell wall/membrane/envelope biogenesis, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443813 [Multi-domain]  Cd Length: 139  Bit Score: 65.60  E-value: 2.80e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  207 AEIQFHIAHLYETQRKYHSAKEAYEQLLQT--ENLSAQV-KATILQQLGwmhhtvdllgdkatKESYAIQYLQKSLEADP 283
Cdd:COG4783      4 AEALYALAQALLLAGDYDEAEALLEKALELdpDNPEAFAlLGEILLQLG--------------DLDEAIVLLHEALELDP 69

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1039796985  284 NSGQSWYFLGsVLYQQQNQPMDALQAYICAVQLDHGHAAAWMDLGTLYESCNQPQDAIKCYLNA 347
Cdd:COG4783     70 DEPEARLNLG-LALLKAGDYDEALALLEKALKLDPEHPEAYLRLARAYRALGRPDEAIAALEKA 132
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 100-235 7.15e-12

Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell wall/membrane/envelope biogenesis, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443813 [Multi-domain]  Cd Length: 139  Bit Score: 64.44  E-value: 7.15e-12
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  100 QLGHFNLLLEDYPKALSAYQRYYSLQSDywkNAAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPSFcraKEIHLRLGLMF 179
Cdd:COG4783      9 ALAQALLLAGDYDEAEALLEKALELDPD---NPEAFALLGEILLQLGDLDEAIVLLHEALELDPDE---PEARLNLGLAL 82

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 1039796985  180 KVNTDYESSLKHFQLALvDCNPctlSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQ 235
Cdd:COG4783     83 LKAGDYDEALALLEKAL-KLDP---EHPEAYLRLARAYRALGRPDEAIAALEKALE 134
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 100-196 6.11e-10

Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443378 [Multi-domain]  Cd Length: 131  Bit Score: 58.48  E-value: 6.11e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  100 QLGHFNLLLEDYPKALSAYQRYYSLQSDywkNAAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPSFCRAkeiHLRLGLMF 179
Cdd:COG4235     22 LLGRAYLRLGRYDEALAAYEKALRLDPD---NADALLDLAEALLAAGDTEEAEELLERALALDPDNPEA---LYLLGLAA 95

                           90
                   ....*....|....*..
gi 1039796985  180 KVNTDYESSLKHFQLAL 196
Cdd:COG4235     96 FQQGDYAEAIAAWQKLL 112
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 271-347 1.40e-09

Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 444034 [Multi-domain]  Cd Length: 155  Bit Score: 58.43  E-value: 1.40e-09
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1039796985  271 AIQYLQKSLEADPNSGQSWYFLGsVLYQQQNQPMDALQAYICAVQLDHGHAAAWMDLGTLYESCNQPQDAIKCYLNA 347
Cdd:COG5010     73 SLALLEQALQLDPNNPELYYNLA-LLYSRSGDKDEAKEYYEKALALSPDNPNAYSNLAALLLSLGQDDEAKAALQRA 148
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 271-344 1.77e-09

Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443378 [Multi-domain]  Cd Length: 131  Bit Score: 57.32  E-value: 1.77e-09
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1039796985  271 AIQYLQKSLEADPNSGQSWYFLGSVLYQQQNQPmDALQAYICAVQLDHGHAAAWMDLGTLYESCNQPQDAIKCY 344
Cdd:COG4235     36 ALAAYEKALRLDPDNADALLDLAEALLAAGDTE-EAEELLERALALDPDNPEALYLLGLAAFQQGDYAEAIAAW 108
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
271-344 7.37e-09

Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 54.41  E-value: 7.37e-09
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1039796985  271 AIQYLQKSLEADPNSGQSWYFLGSVLYqQQNQPMDALQaYICAVQLDHGHAAAWMDLGTLYESCNQPQDAIKCY 344
Cdd:COG3063     11 AEEYYEKALELDPDNADALNNLGLLLL-EQGRYDEAIA-LEKALKLDPNNAEALLNLAELLLELGDYDEALAYL 82
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 69-196 1.63e-08

Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell wall/membrane/envelope biogenesis, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443813 [Multi-domain]  Cd Length: 139  Bit Score: 54.81  E-value: 1.63e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985   69 ARMKALLG---KAVRCYESLIlkAEGKVESDFFCQLGHFNLLLEDYPKALSAYQRYYSLQSDywkNAAFLYGLGLVYFHY 145
Cdd:COG4783     11 AQALLLAGdydEAEALLEKAL--ELDPDNPEAFALLGEILLQLGDLDEAIVLLHEALELDPD---EPEARLNLGLALLKA 85

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1039796985  146 NAFQWAIKAFQEVLYVDPSFcraKEIHLRLGLMFKVNTDYESSLKHFQLAL 196
Cdd:COG4783     86 GDYDEALALLEKALKLDPEH---PEAYLRLARAYRALGRPDEAIAALEKAL 133
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 206-310 1.98e-08

Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443378 [Multi-domain]  Cd Length: 131  Bit Score: 54.24  E-value: 1.98e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  206 NAEIQFHIAHLYETQRKYHSAKEAYEQLLQTENLSAQVKATILQQLGWMHHTVDllgdkatkesyAIQYLQKSLEADPNS 285
Cdd:COG4235     16 DAEGWLLLGRAYLRLGRYDEALAAYEKALRLDPDNADALLDLAEALLAAGDTEE-----------AEELLERALALDPDN 84

                           90       100
                   ....*....|....*....|....*
gi 1039796985  286 GQSWYFLGSVLYQQQnQPMDALQAY 310
Cdd:COG4235     85 PEALYLLGLAAFQQG-DYAEAIAAW 108
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
279-347 3.56e-08

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 56.17  E-value: 3.56e-08
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1039796985  279 LEADPNSGQSWYFLGSVlYQQQNQPMDALQAYICAVQLDHGHAAAWMDLGTLYESCNQPQDAIKCYLNA 347
Cdd:COG0457      1 LELDPDDAEAYNNLGLA-YRRLGRYEEAIEDYEKALELDPDDAEALYNLGLAYLRLGRYEEALADYEQA 68
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 271-349 3.84e-08

Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell wall/membrane/envelope biogenesis, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443813 [Multi-domain]  Cd Length: 139  Bit Score: 53.66  E-value: 3.84e-08
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1039796985  271 AIQYLQKSLEADPNSGQSWYFLGsVLYQQQNQPMDALQAYICAVQLDHGHAAAWMDLGTLYESCNQPQDAIKCYLNATR 349
Cdd:COG4783     23 AEALLEKALELDPDNPEAFALLG-EILLQLGDLDEAIVLLHEALELDPDEPEARLNLGLALLKAGDYDEALALLEKALK 100
JmjC smart00558
A domain family that is part of the cupin metalloenzyme superfamily; Probable enzymes, but of ...
 1118-1182 5.03e-08

A domain family that is part of the cupin metalloenzyme superfamily; Probable enzymes, but of unknown functions, that regulate chromatin reorganisation processes (Clissold and Ponting, in press).


Pssm-ID: 214721  Cd Length: 58  Bit Score: 50.71  E-value: 5.03e-08
                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1039796985  1118 QLHELTKLPafvrvvSAGNLLSHVGHTILGMNT-VQLYMKVPGSRTPGHQENNNfcSVNINIGPGD 1182
Cdd:smart00558    1 QLWNLAKLP------FKLNLLSDLPEDIPGPDVgPYLYMGMAGSTTPWHIDDYD--LVNYLHQGAG 58
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 132-285 6.91e-08

Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell wall/membrane/envelope biogenesis, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443813 [Multi-domain]  Cd Length: 139  Bit Score: 52.89  E-value: 6.91e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  132 AAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPSFCRAkeiHLRLGLMFKVNTDYESSLKHFQLALVDcNPctlSNAEIQF 211
Cdd:COG4783      4 AEALYALAQALLLAGDYDEAEALLEKALELDPDNPEA---FALLGEILLQLGDLDEAIVLLHEALEL-DP---DEPEARL 76

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1039796985  212 HIAHLYETQRKYHSAKEAYEQLLQTENLSAQV---KATILQQLGwmhhtvdllgdkatKESYAIQYLQKSLEADPNS 285
Cdd:COG4783     77 NLGLALLKAGDYDEALALLEKALKLDPEHPEAylrLARAYRALG--------------RPDEAIAALEKALELDPDD 139
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 87-301 1.63e-07

putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.


Pssm-ID: 274350 [Multi-domain]  Cd Length: 899  Bit Score: 56.25  E-value: 1.63e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985   87 LKAEGKVESDFF-CQLGHFNLLLEDyPKALSAYQRYYSLQSDYWKNAAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPS- 164
Cdd:TIGR02917  658 LKRALELKPDNTeAQIGLAQLLLAA-KRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSs 736

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  165 --FCRAKEIHLRLGLMFKVNTDYESSLKHfqlalvdcNPctlSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQtenlSAQ 242
Cdd:TIGR02917  737 qnAIKLHRALLASGNTAEAVKTLEAWLKT--------HP---NDAVLRTALAELYLAQKDYDKAIKHYQTVVK----KAP 801

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1039796985  243 VKATILQQLGWmhhtvdLLGDKatKESYAIQYLQKSLEADPNSGQSWYFLGSVLYQQQN 301
Cdd:TIGR02917  802 DNAVVLNNLAW------LYLEL--KDPRALEYAERALKLAPNIPAILDTLGWLLVEKGE 852
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 106-240 1.54e-06

Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 444034 [Multi-domain]  Cd Length: 155  Bit Score: 49.57  E-value: 1.54e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  106 LLLEDYPKALSAYQRYYSLQSDYWKNAAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPSFcraKEIHLRLGLMFKVNTDY 185
Cdd:COG5010     28 EAALAGANNTKEDELAAAGRDKLAKAFAIESPSDNLYNKLGDFEESLALLEQALQLDPNN---PELYYNLALLYSRSGDK 104

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1039796985  186 ESSLKHFQLALvDCNPctlSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQTENLS 240
Cdd:COG5010    105 DEAKEYYEKAL-ALSP---DNPNAYSNLAALLLSLGQDDEAKAALQRALGTSPLK 155
TPR_15 pfam13429
Tetratricopeptide repeat;
173-329 2.25e-06

Tetratricopeptide repeat;


Pssm-ID: 433199 [Multi-domain]  Cd Length: 279  Bit Score: 50.82  E-value: 2.25e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  173 LRLGLMFKVNTDYESSLKhfqlALV-DCNPCTLSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQTENLSAQV-------- 243
Cdd:pfam13429   12 YALATLLYGQGDPRKALA----ALKeGAQTAPASDTEFWRTLADLAWALQQDDDARRAYRQLLASGKARADDyerlilll 87

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  244 ------KATILQQLGWMH-HTVDLL------GDKAtKESYAIQYLQKSLEADPNSGQSWYFLG--SVLYQQQNQPMDALQ 308
Cdd:pfam13429   88 ydarpkDAARLSELGWRRfRSPRHLysalylYERA-GDYDRLARLLASLEELPAAEQSPAFWLarAEYYRQTGEPDAALR 166

                          170       180
                   ....*....|....*....|....*...
gi 1039796985  309 AYICAVQLDHGHAAA-----WM--DLGT 329
Cdd:pfam13429  167 DYRRALALAPASTELraallWFliDLGR 194
CpoB COG1729
Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane ...
 110-196 3.13e-06

Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane constriction [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441335 [Multi-domain]  Cd Length: 113  Bit Score: 47.29  E-value: 3.13e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  110 DYPKALSAYQRYYSL--QSDYWKNAafLYGLGLVYFHYNAFQWAIKAFQEVLYVDPSFCRAKEIHLRLGLMFKVNTDYES 187
Cdd:COG1729      8 DYDEAIAAFKAFLKRypNSPLAPDA--LYWLGEAYYALGDYDEAAEAFEKLLKRYPDSPKAPDALLKLGLSYLELGDYDK 85


                   ....*....
gi 1039796985  188 SLKHFQLAL 196
Cdd:COG1729     86 ARATLEELI 94
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
141-235 4.43e-06

Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 46.32  E-value: 4.43e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  141 VYFHYNAFQWAIKAFQEVLYVDPSFCRAkeiHLRLGLMFKVNTDYESSLKhFQLALvDCNPctlSNAEIQFHIAHLYETQ 220
Cdd:COG3063      1 LYLKLGDLEEAEEYYEKALELDPDNADA---LNNLGLLLLEQGRYDEAIA-LEKAL-KLDP---NNAEALLNLAELLLEL 72

                           90
                   ....*....|....*
gi 1039796985  221 RKYHSAKEAYEQLLQ 235
Cdd:COG3063     73 GDYDEALAYLERALE 87
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 130-236 5.89e-06

Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443378 [Multi-domain]  Cd Length: 131  Bit Score: 47.31  E-value: 5.89e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  130 KNAAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPSFcraKEIHLRLGLMFKVNTDYESSLKHFQLALvDCNPctlSNAEI 209
Cdd:COG4235     15 NDAEGWLLLGRAYLRLGRYDEALAAYEKALRLDPDN---ADALLDLAEALLAAGDTEEAEELLERAL-ALDP---DNPEA 87

                           90       100
                   ....*....|....*....|....*..
gi 1039796985  210 QFHIAHLYETQRKYHSAKEAYEQLLQT 236
Cdd:COG4235     88 LYLLGLAAFQQGDYAEAIAAWQKLLAL 114
NlpI COG4785
Lipoprotein NlpI, contains TPR repeats [Cell wall/membrane/envelope biogenesis];
263-342 6.48e-06

Lipoprotein NlpI, contains TPR repeats [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 443815 [Multi-domain]  Cd Length: 223  Bit Score: 48.76  E-value: 6.48e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  263 DKATKESYAIQYLQKSLEADPNSGQSWYFLGSVLYQQQNQPmDALQAYICAVQLDHGHAAAWMDLGTLYESCNQPQDAIK 342
Cdd:COG4785     84 DSLGDYDLAIADFDQALELDPDLAEAYNNRGLAYLLLGDYD-AALEDFDRALELDPDYAYAYLNRGIALYYLGRYELAIA 162
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 241-349 1.46e-05

Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 444034 [Multi-domain]  Cd Length: 155  Bit Score: 46.88  E-value: 1.46e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  241 AQVKATILQQLGWMHHTVDLLGDKATKESYAIQYLQKSLEADPNSGQSWYFLGSVLYQQQNQPMDALQAYICAVQLDHGH 320
Cdd:COG5010      8 DRLPLYLLLLTKLRTLVEKYEAALAGANNTKEDELAAAGRDKLAKAFAIESPSDNLYNKLGDFEESLALLEQALQLDPNN 87

                           90       100
                   ....*....|....*....|....*....
gi 1039796985  321 AAAWMDLGTLYESCNQPQDAIKCYLNATR 349
Cdd:COG5010     88 PELYYNLALLYSRSGDKDEAKEYYEKALA 116
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 77-163 1.75e-05

Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 444034 [Multi-domain]  Cd Length: 155  Bit Score: 46.49  E-value: 1.75e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985   77 KAVRCYESLILKAEGkvESDFFCQLGHFNLLLEDYPKALSAYQRYYSLQSDywkNAAFLYGLGLVYFHYNAFQWAIKAFQ 156
Cdd:COG5010     72 ESLALLEQALQLDPN--NPELYYNLALLYSRSGDKDEAKEYYEKALALSPD---NPNAYSNLAALLLSLGQDDEAKAALQ 146


                   ....*..
gi 1039796985  157 EVLYVDP 163
Cdd:COG5010    147 RALGTSP 153
NlpI COG4785
Lipoprotein NlpI, contains TPR repeats [Cell wall/membrane/envelope biogenesis];
98-168 1.92e-05

Lipoprotein NlpI, contains TPR repeats [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 443815 [Multi-domain]  Cd Length: 223  Bit Score: 47.60  E-value: 1.92e-05
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1039796985   98 FCQLGHFNLLLEDYPKALSAYQRYYSLQSDYwknAAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPSFCRA 168
Cdd:COG4785    110 YNNRGLAYLLLGDYDAALEDFDRALELDPDY---AYAYLNRGIALYYLGRYELAIADLEKALELDPNDPER 177
TadD COG5010
Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, ...
 113-283 2.03e-05

Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 444034 [Multi-domain]  Cd Length: 155  Bit Score: 46.11  E-value: 2.03e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  113 KALSAYQRYYSLQSDYWKNAAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPSFCRAKEIHLRLGlmfkvntDYESSLKHF 192
Cdd:COG5010      5 EGFDRLPLYLLLLTKLRTLVEKYEAALAGANNTKEDELAAAGRDKLAKAFAIESPSDNLYNKLG-------DFEESLALL 77

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  193 QLALvDCNPctlSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQTENLSAQvkatILQQLGWMHHtvdLLGDKATkesyAI 272
Cdd:COG5010     78 EQAL-QLDP---NNPELYYNLALLYSRSGDKDEAKEYYEKALALSPDNPN----AYSNLAALLL---SLGQDDE----AK 142

                          170
                   ....*....|.
gi 1039796985  273 QYLQKSLEADP 283
Cdd:COG5010    143 AALQRALGTSP 153
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 167-370 4.48e-05

putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.


Pssm-ID: 274350 [Multi-domain]  Cd Length: 899  Bit Score: 48.16  E-value: 4.48e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  167 RAKEIHLRLGLMFKVNTDYESSLKHFQlALVDCNPctlSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQTE--NLSAQVk 244
Cdd:TIGR02917  599 DSPEAWLMLGRAQLAAGDLNKAVSSFK-KLLALQP---DSALALLLLADAYAVMKNYAKAITSLKRALELKpdNTEAQI- 673

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  245 atILQQLgwmhhtvdLLGDKATKESYAI-QYLQKsleADPNSGQSWYFLGSvLYQQQNQPMDALQAYICAVQLDHGHAAA 323
Cdd:TIGR02917  674 --GLAQL--------LLAAKRTESAKKIaKSLQK---QHPKAALGFELEGD-LYLRQKDYPAAIQAYRKALKRAPSSQNA 739

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*..
gi 1039796985  324 wMDLGTLYESCNQPQDAIKcYLNATRSKNCSNtsglaARIKYLQAQL 370
Cdd:TIGR02917  740 -IKLHRALLASGNTAEAVK-TLEAWLKTHPND-----AVLRTALAEL 779
TPR COG0790
TPR repeat [General function prediction only];
111-333 5.72e-05

TPR repeat [General function prediction only];


Pssm-ID: 440553 [Multi-domain]  Cd Length: 241  Bit Score: 46.46  E-value: 5.72e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  111 YPKALSAYQRYYSLQSDYWKNAAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPSFCRAkeiHLRLGLMFK----VNTDYE 186
Cdd:COG0790      8 AAAAAAAAAALAAAAAAAGAAAAAAAAAAAAAALAAAAGAAAAAAAAAAAAAAGGAEA---QYNLGLMYAegrgVPKDYE 84

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  187 SSLKHFQLAlvdcnpCTLSNAEIQFHIAHLYE----TQRKYHSAKEAYEQLLQTENLSAQVkatilqQLGWMHHTVDLL- 261
Cdd:COG0790     85 KALEWFEKA------AEQGDAEAQYNLGLMYEeglgVPQDYAKALEWYEKAAEQGDADAQY------NLGLLYLNGEGVp 152

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1039796985  262 GDKATkesyAIQYLQKSLEAdpNSGQSWYFLGSVLYQQQNQPMD---ALQAYICAVqlDHGHAAAWMDLGTLYES 333
Cdd:COG0790    153 KDPAK----AAEWYRKAAEQ--GDADAQYNLGVLYENGRGVPKDpakALEWYRKAA--EQGDADAQYNLGRLYLN 219
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
106-196 9.58e-05

Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 42.85  E-value: 9.58e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  106 LLLEDYPKALSAYQRYYSLQSDywkNAAFLYGLGLVYFHYNAFQWAIkAFQEVLYVDPSFCRAkeiHLRLGLMFKVNTDY 185
Cdd:COG3063      3 LKLGDLEEAEEYYEKALELDPD---NADALNNLGLLLLEQGRYDEAI-ALEKALKLDPNNAEA---LLNLAELLLELGDY 75

                           90
                   ....*....|.
gi 1039796985  186 ESSLKHFQLAL 196
Cdd:COG3063     76 DEALAYLERAL 86
Mgr3-like cd24145
Mitochondrial inner membrane i-AAA protease supercomplex subunit Mgr3 and similar proteins; ...
 172-412 1.01e-04

Mitochondrial inner membrane i-AAA protease supercomplex subunit Mgr3 and similar proteins; Mgr3 (also called mitochondrial genome-required protein 3) is a component of the mitochondrial inner membrane i-AAA protease supercomplex, which degrades misfolded mitochondrial proteins. The supercomplex is composed of Mgr1, Mgr3, and Yme1. Mgr3, together with Mgr1, functions in an adapter complex that targets substrates to the i-AAA protease for degradation.


Pssm-ID: 467945 [Multi-domain]  Cd Length: 307  Bit Score: 46.19  E-value: 1.01e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  172 HLRLGLMFK-VNTDYESSLKHFQLALVDCNPCTLS--NAE---IQFHIAHLYEtqrKYHSAKEAYEQLLQtenlsaqvka 245
Cdd:cd24145     10 ILRKALYYEsDKPDPQKALKYYKEALEQADELGMDpfSDEvtgIRIKIAEMLE---KLGMYKAAYEVLER---------- 76

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  246 TILQQLGWmhhtvdllgDKATKESYAIQYLQKSLEADPNSGQswyflgsvLYQQQNQPMDAL--QAYICAVQLDHGHAAA 323
Cdd:cd24145     77 LYLDCLRW---------TLKDDESERGHLIKRDLRISIKLGE--------LNKDSELGKWELreRLLKKAVEILLKLGEL 139

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  324 WM----------DLGTLYESCNQPQDAIKCYLNATRSK--------NCsntsglaARIKYLQA-QLCNLPQgslqnktKL 384
Cdd:cd24145    140 WMspsevgafleELATAYDLYGRFCLALPLYMQALSLKgqillsqaNC-------HSLVLMNNeAAELALH-------AL 205

                          250       260
                   ....*....|....*....|....*...
gi 1039796985  385 LPSIEEAWSLPIPAELTSRQGAMNTAQQ 412
Cdd:cd24145    206 RKPLSSTLIEASRLPQKSRDQLLEAALK 233
TPR_1 pfam00515
Tetratricopeptide repeat;
132-165 1.88e-04

Tetratricopeptide repeat;


Pssm-ID: 459840 [Multi-domain]  Cd Length: 34  Bit Score: 40.10  E-value: 1.88e-04
                           10        20        30
                   ....*....|....*....|....*....|....
gi 1039796985  132 AAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPSF 165
Cdd:pfam00515    1 AKALYNLGNAYFKLGKYDEALEYYEKALELNPNN 34
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
77-167 3.51e-04

Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 40.92  E-value: 3.51e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985   77 KAVRCYESLILKAEGkvESDFFCQLGHFNLLLEDYPKALsAYQRYYSLQSDywkNAAFLYGLGLVYFHYNAFQWAIKAFQ 156
Cdd:COG3063     10 EAEEYYEKALELDPD--NADALNNLGLLLLEQGRYDEAI-ALEKALKLDPN---NAEALLNLAELLLELGDYDEALAYLE 83

                           90
                   ....*....|.
gi 1039796985  157 EVLYVDPSFCR 167
Cdd:COG3063     84 RALELDPSALR 94
CpoB COG1729
Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane ...
 271-344 5.08e-04

Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane constriction [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441335 [Multi-domain]  Cd Length: 113  Bit Score: 41.13  E-value: 5.08e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  271 AIQYLQKSLEADPNS---GQSWYFLGSVLYQQQNQPmDALQAYICAVQL--DHGHAA-AWMDLGTLYESCNQPQDAIKCY 344
Cdd:COG1729     12 AIAAFKAFLKRYPNSplaPDALYWLGEAYYALGDYD-EAAEAFEKLLKRypDSPKAPdALLKLGLSYLELGDYDKARATL 90
ACL4-like cd24142
Assembly chaperone of ribosomal protein L4 and similar proteins; Assembly chaperone of RPL4 ...
 271-372 6.54e-04

Assembly chaperone of ribosomal protein L4 and similar proteins; Assembly chaperone of RPL4 (ACL4) acts as a chaperone for the L4 ribosomal subunit, encoded by RPL4A and RPL4B, and is required for hierarchical ribosome assembly. It is required for the soluble expression of newly synthesized RPL4 and for the protection of RPL4 from the Tom1-dependent cellular degradation machinery. ACL4 shields ribosomal protein L4 until timely release and insertion into the pre-ribosome is possible, once ribosomal protein L18 is present.


Pssm-ID: 467942 [Multi-domain]  Cd Length: 306  Bit Score: 43.39  E-value: 6.54e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  271 AIQYLQKSLEADPNSGQSWYFLGSvLYQQQNQPMDALQAYICAVQLD-HGHAAAWMDLGTLyescNQPQDAIKCY----- 344
Cdd:cd24142     19 ALKFLQRALELEPNNVEALELLGE-ILLELGDVEEAREVLLRAIELDpDGGYEKYLYLGQL----SGGEEALQYYekgie 93

                           90       100
                   ....*....|....*....|....*....
gi 1039796985  345 -LNATRSKNCSNTSGLAARIKYLQAQLCN 372
Cdd:cd24142     94 iLEEELQALQAASAEAEEEAEELKRKLSS 122
CpoB COG1729
Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane ...
 100-159 8.40e-04

Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane constriction [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441335 [Multi-domain]  Cd Length: 113  Bit Score: 40.36  E-value: 8.40e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  100 QLGHFNLLLEDYPKALSAYQRYYSLQSDYWKNAAFLYGLGLVYFHYNAFQWAIKAFQEVL 159
Cdd:COG1729     35 WLGEAYYALGDYDEAAEAFEKLLKRYPDSPKAPDALLKLGLSYLELGDYDKARATLEELI 94
TPR_16 pfam13432
Tetratricopeptide repeat; This family is found predominantly at the C-terminus of ...
 101-164 8.64e-04

Tetratricopeptide repeat; This family is found predominantly at the C-terminus of transglutaminase enzyme core regions.


Pssm-ID: 433202 [Multi-domain]  Cd Length: 68  Bit Score: 39.24  E-value: 8.64e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1039796985  101 LGHFNLLLE--DYPKALSAYQRYYSLQSDYWKNAAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPS 164
Cdd:pfam13432    1 LALARAALRagDYDDAAAALEAALARFPESPDAAAALLLLGLAALRQGRLAEAAAAYRAALRAAPG 66
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 151-285 1.02e-03

Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443378 [Multi-domain]  Cd Length: 131  Bit Score: 40.76  E-value: 1.02e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  151 AIKAFQEVLYVDPSFcraKEIHLRLGLMFKVNTDYESSLKHFQLALvDCNPctlSNAEIQFHIAHLYETQRKYHSAKEAY 230
Cdd:COG4235      2 AIARLRQALAANPND---AEGWLLLGRAYLRLGRYDEALAAYEKAL-RLDP---DNADALLDLAEALLAAGDTEEAEELL 74

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1039796985  231 EQLLQTENLSAQVkatiLQQLGWMHHtvdLLGDKATkesyAIQYLQKSLEADPNS 285
Cdd:COG4235     75 ERALALDPDNPEA----LYLLGLAAF---QQGDYAE----AIAAWQKLLALLPAD 118
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 89-341 1.05e-03

putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.


Pssm-ID: 274350 [Multi-domain]  Cd Length: 899  Bit Score: 43.53  E-value: 1.05e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985   89 AEGKVESD--FFCQLGHFNLLLEDYPKALSAYQRYYSLQSdywKNAAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPSFC 166
Cdd:TIGR02917  355 ALGLDPDDpaALSLLGEAYLALGDFEKAAEYLAKATELDP---ENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELG 431

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  167 RAKEI----HLRLGLMFKVNTDYESSLKHfqlalvdcnpcTLSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQTEnlSAQ 242
Cdd:TIGR02917  432 RADLLlilsYLRSGQFDKALAAAKKLEKK-----------QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE--PDF 498

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  243 VKATILQQlgwmhhTVDLLGDKATKesyAIQYLQKSLEADPNSGQSWYFLGSvLYQQQNQPMDALQAYICAVQLDHGHAA 322
Cdd:TIGR02917  499 FPAAANLA------RIDIQEGNPDD---AIQRFEKVLTIDPKNLRAILALAG-LYLRTGNEEEAVAWLEKAAELNPQEIE 568

                          250
                   ....*....|....*....
gi 1039796985  323 AWMDLGTLYESCNQPQDAI 341
Cdd:TIGR02917  569 PALALAQYYLGKGQLKKAL 587
PEP_TPR_lipo TIGR02917
putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly ...
 100-300 1.10e-03

putative PEP-CTERM system TPR-repeat lipoprotein; This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.


Pssm-ID: 274350 [Multi-domain]  Cd Length: 899  Bit Score: 43.53  E-value: 1.10e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  100 QLGHFNLLLEDYPKALSAYQRyySLQSDYWKNAAFLYgLGLVYFHYNAFQWAIKAFQEVlYVDPSFCRAkEIHLRLGLMF 179
Cdd:TIGR02917   61 LLGKIYLALGDYAAAEKELRK--ALSLGYPKNQVLPL-LARAYLLQGKFQQVLDELPGK-TLLDDEGAA-ELLALRGLAY 135

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  180 KVNTDYESSLKHFQLALVDcNPctlSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQTEnlSAQVKATILQQlgwmhhtvD 259
Cdd:TIGR02917  136 LGLGQLELAQKSYEQALAI-DP---RSLYAKLGLAQLALAENRFDEARALIDEVLTAD--PGNVDALLLKG--------D 201

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|.
gi 1039796985  260 LLGDKATKESyAIQYLQKSLEADPNSGQSWYFLGSVLYQQQ 300
Cdd:TIGR02917  202 LLLSLGNIEL-ALAAYRKAIALRPNNIAVLLALATILIEAG 241
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
171-284 1.17e-03

Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 39.77  E-value: 1.17e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  171 IHLRLGlmfkvntDYESSLKHFQLALvDCNPctlSNAEIQFHIAHLYETQRKYHSAkEAYEQLLQTENLSAQvkatILQQ 250
Cdd:COG3063      1 LYLKLG-------DLEEAEEYYEKAL-ELDP---DNADALNNLGLLLLEQGRYDEA-IALEKALKLDPNNAE----ALLN 64

                           90       100       110
                   ....*....|....*....|....*....|....
gi 1039796985  251 LGWMHHtvdLLGDKATkesyAIQYLQKSLEADPN 284
Cdd:COG3063     65 LAELLL---ELGDYDE----ALAYLERALELDPS 91
COG4700 COG4700
Uncharacterized conserved protein ECs_4300, contains TPR-like domain [Function unknown];
106-236 1.23e-03

Uncharacterized conserved protein ECs_4300, contains TPR-like domain [Function unknown];


Pssm-ID: 443735 [Multi-domain]  Cd Length: 249  Bit Score: 42.18  E-value: 1.23e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  106 LLLEDYPKALSAYQryYSLQSDYWKNAAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPSFcRAKEIHLRLGLMFKVNTDY 185
Cdd:COG4700    100 LELGRYDEAIELYE--EALTGIFADDPHILLGLAQALFELGRYAEALETLEKLIAKNPDF-KSSDAHLLYARALEALGDL 176

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 1039796985  186 ESSLKHFQLALVdcnpcTLSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQT 236
Cdd:COG4700    177 EAAEAELEALAR-----RYSGPEARYRYAKFLARQGRTAEAKELLEEILDE 222
Spy COG3914
Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational ...
 75-218 1.32e-03

Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443119 [Multi-domain]  Cd Length: 658  Bit Score: 43.06  E-value: 1.32e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985   75 LGKAVRCYESLILKAEGKVEsdFFCQLGHFNLLLEDYPKALSAYQRYYSLQSDywkNAAFLYGLGLVYFHYNAFQWAIKA 154
Cdd:COG3914    128 LEEALAALRRALALNPDFAE--AYLNLGEALRRLGRLEEAIAALRRALELDPD---NAEALNNLGNALQDLGRLEEAIAA 202

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1039796985  155 FQEVLYVDPSFCRAkeIHLRLGLMFKVNTDYESSLKHFQLALVDCNPCTLSNaeiqFHIAHLYE 218
Cdd:COG3914    203 YRRALELDPDNADA--HSNLLFALRQACDWEVYDRFEELLAALARGPSELSP----FALLYLPD 260
type_IV_pilW TIGR02521
type IV pilus biogenesis/stability protein PilW; Members of this family are designated PilF ...
 138-310 1.69e-03

type IV pilus biogenesis/stability protein PilW; Members of this family are designated PilF and PilW. This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.


Pssm-ID: 131573 [Multi-domain]  Cd Length: 234  Bit Score: 41.55  E-value: 1.69e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  138 LGLVYFHYNAFQWAIKAFQEVLYVDPSFCRAkeiHLRLGLMFKVNTDYESSLKHFQLALvdcnpcTLSNAEIQFHI---A 214
Cdd:TIGR02521   37 LALGYLEQGDLEVAKENLDKALEHDPDDYLA---YLALALYYQQLGELEKAEDSFRRAL------TLNPNNGDVLNnygT 107

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  215 HLYEtQRKYHSAKEAYEQLLQTENLSAQVKAtiLQQLGwmhhtvdLLGDKATKESYAIQYLQKSLEADPNSGQSWYFLGS 294
Cdd:TIGR02521  108 FLCQ-QGKYEQAMQQFEQAIEDPLYPQPARS--LENAG-------LCALKAGDFDKAEKYLTRALQIDPQRPESLLELAE 177

                          170
                   ....*....|....*...
gi 1039796985  295 VLYQQQN--QPMDALQAY 310
Cdd:TIGR02521  178 LYYLRGQykDARAYLERY 195
NrfG COG4235
Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, ...
 77-163 1.93e-03

Cytochrome c-type biogenesis protein CcmH/NrfG [Energy production and conversion, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443378 [Multi-domain]  Cd Length: 131  Bit Score: 39.99  E-value: 1.93e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985   77 KAVRCYESLI-LKAEgkvESDFFCQLGHFNLLLEDYPKALSAYQRYYSLQSDywkNAAFLYGLGLVYFHYNAFQWAIKAF 155
Cdd:COG4235     35 EALAAYEKALrLDPD---NADALLDLAEALLAAGDTEEAEELLERALALDPD---NPEALYLLGLAAFQQGDYAEAIAAW 108


                   ....*...
gi 1039796985  156 QEVLYVDP 163
Cdd:COG4235    109 QKLLALLP 116
PilF COG3063
Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];
296-342 2.26e-03

Type IV pilus assembly protein PilF/PilW [Cell motility, Extracellular structures];


Pssm-ID: 442297 [Multi-domain]  Cd Length: 94  Bit Score: 38.61  E-value: 2.26e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 1039796985  296 LYQQQNQPMDALQAYICAVQLDHGHAAAWMDLGTLYESCNQPQDAIK 342
Cdd:COG3063      1 LYLKLGDLEEAEEYYEKALELDPDNADALNNLGLLLLEQGRYDEAIA 47
TPR_17 pfam13431
Tetratricopeptide repeat;
274-308 2.65e-03

Tetratricopeptide repeat;


Pssm-ID: 433201 [Multi-domain]  Cd Length: 34  Bit Score: 36.75  E-value: 2.65e-03
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 1039796985  274 YLQKSLEADPNSGQSWYFLGsVLYQQQNQPMDALQ 308
Cdd:pfam13431    1 LYLKALELDPNNADAYYNLA-VLLLELGQSETALQ 34
CpoB COG1729
Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane ...
 184-285 4.40e-03

Cell division protein CpoB, coordinates peptidoglycan biosynthesis and outer membrane constriction [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441335 [Multi-domain]  Cd Length: 113  Bit Score: 38.43  E-value: 4.40e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  184 DYESSLKHFQlALVDCNPCTLSNAEIQFHIAHLYETQRKYHSAKEAYEQLLQTENLSAQVkATILQQLGWMHHTvdlLGD 263
Cdd:COG1729      8 DYDEAIAAFK-AFLKRYPNSPLAPDALYWLGEAYYALGDYDEAAEAFEKLLKRYPDSPKA-PDALLKLGLSYLE---LGD 82

                           90       100
                   ....*....|....*....|..
gi 1039796985  264 KATkesyAIQYLQKSLEADPNS 285
Cdd:COG1729     83 YDK----ARATLEELIKKYPDS 100
TPR smart00028
Tetratricopeptide repeats; Repeats present in 4 or more copies in proteins. Contain a minimum ...
 132-165 4.46e-03

Tetratricopeptide repeats; Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.


Pssm-ID: 197478 [Multi-domain]  Cd Length: 34  Bit Score: 36.27  E-value: 4.46e-03
                            10        20        30
                    ....*....|....*....|....*....|....
gi 1039796985   132 AAFLYGLGLVYFHYNAFQWAIKAFQEVLYVDPSF 165
Cdd:smart00028    1 AEALYNLGNAYLKLGDYDEALEYYEKALELDPNN 34
HemYx COG3071
Uncharacterized protein HemY, contains HemY_N domain and TPR repeats (unrelated to ...
 206-344 4.52e-03

Uncharacterized protein HemY, contains HemY_N domain and TPR repeats (unrelated to protoporphyrinogen oxidase HemY) [Function unknown];


Pssm-ID: 442305 [Multi-domain]  Cd Length: 323  Bit Score: 41.05  E-value: 4.52e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1039796985  206 NAEIQFHIAHLYETQRKYHSAkeayEQLLQtENLSAQVKATILQQLGwmhhtvDLLGDKATKesyAIQYLQKSLEADPNS 285
Cdd:COG3071    192 DPELAAAYARALIALGDHDEA----ERLLR-EALKRQWDPRLVRLYG------RLQGGDPAK---QLKRAEKWLKKHPND 257

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1039796985  286 GQSWYFLGsVLYQQQNQPMDALQAYICAVQLDHGhAAAWMDLGTLYESCNQPQDAIKCY 344
Cdd:COG3071    258 PDLLLALG-RLCLRNQLWGKAREYLEAALALRPS-AEAYAELARLLEQLGDPEEAAEHY 314
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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