|
Name |
Accession |
Description |
Interval |
E-value |
| DEXXQc_SETX |
cd18042 |
DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in ... |
1934-2259 |
3.38e-78 |
|
DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in transcription, neurogenesis, and antiviral response. SEXT is an R-loop-associated protein that is thought to function as an RNA/DNA helicase. R-loops consist of RNA/DNA hybrids, formed during transcription when nascent RNA hybridizes to the DNA template strand, displacing the non-template DNA strand. Mutations in SETX are linked to two neurodegenerative disorders: ataxia with oculomotor apraxia type 2 (AOA2) and amyotrophic lateral sclerosis type 4 (ALS4). S. cerevisiae homolog splicing endonuclease 1 (Sen1) is an exclusively nuclear protein, important for nucleolar organization. S. cerevisiae Sen1 and its ortholog, the Schizosaccharomyces pombe Sen1, share conserved domains and belong to the family I class of helicases. Both proteins translocate 5' to 3' and unwind both DNA and RNA duplexes and also RNA/DNA hybrids in vitro. SETX is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 438712 [Multi-domain] Cd Length: 218 Bit Score: 258.30 E-value: 3.38e-78
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1934 FNEDQKKAIETAYAMVKhspsvaKICLIHGPPGTGKSKTIVGLLYRLLTENQRKGHSD---------ENSNAKIKQNRVL 2004
Cdd:cd18042 1 LNESQLEAIASALQNSP------GITLIQGPPGTGKTKTIVGILSVLLAGKYRKYYEKvkkklrklqRNLNNKKKKNRIL 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2005 VCAPSNAAVDELMKKIILEFKEKCKdkknplGNCGDINLVRLGPeksinsevlkfsldsqvnhrmkkelpshvqamhkrk 2084
Cdd:cd18042 75 VCAPSNAAVDEIVLRLLSEGFLDGD------GRSYKPNVVRVGR------------------------------------ 112
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2085 efldyqldelsrqralcrggreiqrqeldeniskvskerqelaskikevqgrpQKTQSIIILESHIICCTLSTSGGLLLE 2164
Cdd:cd18042 113 -----------------------------------------------------QELRASILNEADIVCTTLSSSGSDLLE 139
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2165 SafrgqGGVPFSCVIVDEAGQSCEIETLTPLIHRCNKLILVGDPKQLPPTVISMKAQEYGYDQSMMARFCRlleenvehn 2244
Cdd:cd18042 140 S-----LPRGFDTVIIDEAAQAVELSTLIPLRLGCKRLILVGDPKQLPATVFSKVAQKLGYDRSLFERLQL--------- 205
|
330
....*....|....*
gi 1191017961 2245 miSRLPILQLTVQYR 2259
Cdd:cd18042 206 --AGYPVLMLTTQYR 218
|
|
| AAA_11 |
pfam13086 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
1937-2218 |
5.98e-72 |
|
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.
Pssm-ID: 404072 [Multi-domain] Cd Length: 248 Bit Score: 241.48 E-value: 5.98e-72
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1937 DQKKAIETAYamvKHSPsvakICLIHGPPGTGKSKTIVGLLYRLLTENQrkghsdensNAKIKQNRVLVCAPSNAAVDEL 2016
Cdd:pfam13086 1 SQREAIRSAL---SSSH----FTLIQGPPGTGKTTTIVELIRQLLSYPA---------TSAAAGPRILVCAPSNAAVDNI 64
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2017 MKKIILEfkekckdkknplGNCGDINLVRLGPEKSINSEVLKFSLDSQVNHRMKKE-LPSHVQAMHKRKEFLDYQLDELS 2095
Cdd:pfam13086 65 LERLLRK------------GQKYGPKIVRIGHPAAISEAVLPVSLDYLVESKLNNEeDAQIVKDISKELEKLAKALRAFE 132
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2096 RQRA--LCRGGREIQRQELDENISKVSKERQELASKIKEVQgrpQKTQSIIILESHIICCTLSTSGGLLLESAFrgqggv 2173
Cdd:pfam13086 133 KEIIveKLLKSRNKDKSKLEQERRKLRSERKELRKELRRRE---QSLEREILDEAQIVCSTLSGAGSRLLSSLA------ 203
|
250 260 270 280
....*....|....*....|....*....|....*....|....*
gi 1191017961 2174 PFSCVIVDEAGQSCEIETLTPLIHRCNKLILVGDPKQLPPTVISM 2218
Cdd:pfam13086 204 NFDVVIIDEAAQALEPSTLIPLLRGPKKVVLVGDPKQLPPTVISK 248
|
|
| AAA_12 |
pfam13087 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
2225-2424 |
3.94e-67 |
|
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.
Pssm-ID: 463780 [Multi-domain] Cd Length: 196 Bit Score: 225.51 E-value: 3.94e-67
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2225 YDQSMMARFCRLLEEnvehnmisrlPILQLTVQYRMHPDICLFPSNYVYNRNLKTNRQTEAIRCSSDW----PFQPYLVF 2300
Cdd:pfam13087 1 LDRSLFERLQELGPS----------AVVMLDTQYRMHPEIMEFPSKLFYGGKLKDGPSVAERPLPDDFhlpdPLGPLVFI 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2301 DVGDGSERRDN--DSYINVQEIKLVMEIIKLIKdKRKDVSFRNIGIITHYKAQKTMIQKDLDKEFDRKGPAEVDTVDAFQ 2378
Cdd:pfam13087 71 DVDGSEEEESDggTSYSNEAEAELVVQLVEKLI-KSGPEEPSDIGVITPYRAQVRLIRKLLKRKLGGKLEIEVNTVDGFQ 149
|
170 180 190 200
....*....|....*....|....*....|....*....|....*.
gi 1191017961 2379 GRQKDCVIVTCVRANSiQGSIGFLASLQRLNVTITRAKYSLFILGH 2424
Cdd:pfam13087 150 GREKDVIIFSCVRSNE-KGGIGFLSDPRRLNVALTRAKRGLIIVGN 194
|
|
| TIGR00376 |
TIGR00376 |
DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of ... |
1935-2445 |
1.45e-59 |
|
DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273041 [Multi-domain] Cd Length: 636 Bit Score: 218.53 E-value: 1.45e-59
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1935 NEDQKKAIETAYamvkhspSVAKICLIHGPPGTGKSKTIVGLLYRLLTENQrkghsdensnakikqnRVLVCAPSNAAVD 2014
Cdd:TIGR00376 159 NESQKEAVLFAL-------SSKDLFLIHGPPGTGKTRTVVELIRQLVKRGL----------------RVLVTAPSNIAVD 215
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2015 ELMKKIILEfkekckdkknplgncgDINLVRLGPEKSINSEVLKFSLDSQV-NHrmkkelpshvqamHKRKEFLDYQ--L 2091
Cdd:TIGR00376 216 NLLERLALC----------------DQKIVRLGHPARLLKSNKQHSLDYLIeNH-------------PKYQIVADIRekI 266
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2092 DELSRQR-ALCRGGREIQRQELDENISKVSKERQE---LASKI----KEVQGRPQKTQSIIIL----ESHIICCTLSTSG 2159
Cdd:TIGR00376 267 DELIEERnKKTKPSPQKRRGLSDIKILRKALKKREargIESLKiasmAEWIETNKSIDRLLKLlpesEERIMNEILAESD 346
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2160 GLLLESAFRGQGGVPFSCVIVDEAGQSCEIETLTPLIhRCNKLILVGDPKQLPPTVISMKAQEygydqsmmarfcrlLEE 2239
Cdd:TIGR00376 347 ATNSMAGSEILNGQYFDVAVIDEASQAMEPSCLIPLL-KARKLILAGDHKQLPPTILSHDAEE--------------LSL 411
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2240 NVEHNMISRLP--ILQLTVQYRMHPDICLFPSNYVYNRNLKTNRQTEAI-------------RCSSDWPfQPYLVFDVG- 2303
Cdd:TIGR00376 412 TLFERLIKEYPerSRTLNVQYRMNQKIMEFPSREFYNGKLTAHESVANIllrdlpkveatesEDDLETG-IPLLFIDTSg 490
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2304 -DGSERRDND--SYINVQEIKLVMEIIKliKDKRKDVSFRNIGIITHYKAQKTMIQKDLDkefDRKGPAEVDTVDAFQGR 2380
Cdd:TIGR00376 491 cELFELKEADstSKYNPGEAELVSEIIQ--ALVKMGVPANDIGVITPYDAQVDLLRQLLE---HRHIDIEVSSVDGFQGR 565
|
490 500 510 520 530 540
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1191017961 2381 QKDCVIVTCVRANSiQGSIGFLASLQRLNVTITRAKYSLFILGHLRTLMENQHWNQLIQDAQKRG 2445
Cdd:TIGR00376 566 EKEVIIISFVRSNR-KGEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSNHKFYKRLIEWCKQHG 629
|
|
| DNA2 |
COG1112 |
Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]; |
2105-2428 |
4.73e-59 |
|
Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];
Pssm-ID: 440729 [Multi-domain] Cd Length: 819 Bit Score: 221.16 E-value: 4.73e-59
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2105 REIQRQELDENISKVSKERQELASKIKEVQGRPQKTQSIIILESHIICCTLSTSGGLLLEsafrgqGGVPFSCVIVDEAG 2184
Cdd:COG1112 492 HPEELEKLIAELREAARLRRALRRELKKRRELRKLLWDALLELAPVVGMTPASVARLLPL------GEGSFDLVIIDEAS 565
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2185 QSCEIETLtPLIHRCNKLILVGDPKQLPPTVIS---MKAQEYGYDQSMMARFCRLLEENVehnmisrlpiLQLTVQYRMH 2261
Cdd:COG1112 566 QATLAEAL-GALARAKRVVLVGDPKQLPPVVFGeeaEEVAEEGLDESLLDRLLARLPERG----------VMLREHYRMH 634
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2262 PDICLFPSNYVYNRNLKTNRQTEAIRCssDWPFQPYLVFDVgDGSERRDNDSYINVQEIKLVMEIIKLIKDKRKDVsfRN 2341
Cdd:COG1112 635 PEIIAFSNRLFYDGKLVPLPSPKARRL--ADPDSPLVFIDV-DGVYERRGGSRTNPEEAEAVVELVRELLEDGPDG--ES 709
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2342 IGIITHYKAQKTMIQKDLDKEFDRKG-PAEVDTVDAFQGRQKDCVIVTCVRANS--IQGSIGFLAS-LQRLNVTITRAKY 2417
Cdd:COG1112 710 IGVITPYRAQVALIRELLREALGDGLePVFVGTVDRFQGDERDVIIFSLVYSNDedVPRNFGFLNGgPRRLNVAVSRARR 789
|
330
....*....|.
gi 1191017961 2418 SLFILGHLRTL 2428
Cdd:COG1112 790 KLIVVGSRELL 800
|
|
| SF1_C_Upf1 |
cd18808 |
C-terminal helicase domain of Upf1-like family helicases; The Upf1-like helicase family ... |
2260-2442 |
1.10e-58 |
|
C-terminal helicase domain of Upf1-like family helicases; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), and similar proteins. They are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.
Pssm-ID: 350195 [Multi-domain] Cd Length: 184 Bit Score: 200.92 E-value: 1.10e-58
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2260 MHPDICLFPSNYVYNRNLKTNRQTEAIRCSSDWP--FQPYLVFDVGDGSERRDND-SYINVQEIKLVMEIIKLIKdkRKD 2336
Cdd:cd18808 1 MHPEISEFPSKLFYEGKLKAGVSVAARLNPPPLPgpSKPLVFVDVSGGEEREESGtSKSNEAEAELVVELVKYLL--KSG 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2337 VSFRNIGIITHYKAQKTMIQKDLDKEFDRKGPAEVDTVDAFQGRQKDCVIVTCVRANSIQGSIGFLASLQRLNVTITRAK 2416
Cdd:cd18808 79 VKPSSIGVITPYRAQVALIRELLRKRGGLLEDVEVGTVDNFQGREKDVIILSLVRSNESGGSIGFLSDPRRLNVALTRAK 158
|
170 180
....*....|....*....|....*.
gi 1191017961 2417 YSLFILGHLRTLMENQHWNQLIQDAQ 2442
Cdd:cd18808 159 RGLIIVGNPDTLSKDPLWKKLLEYLE 184
|
|
| SEN1_N |
pfam12726 |
SEN1 N terminal; This domain is found at the N terminal of the helicase SEN1. SEN1 is a Pol II ... |
37-351 |
7.09e-08 |
|
SEN1 N terminal; This domain is found at the N terminal of the helicase SEN1. SEN1 is a Pol II termination factor for noncoding RNA genes. The N terminal of SEN1, unlike the C terminal, is not required for growth.
Pssm-ID: 432746 Cd Length: 744 Bit Score: 58.10 E-value: 7.09e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 37 LCYCLECVAEYHKARDEL------PFLHEVL---------WELEtlRLINHFEKSMKaeigdddelyIVDNNGEMPLFDI 101
Cdd:pfam12726 9 LSSCDKCVRNFHRGKKELrqtfaeRFPEETVaqfldkldeWDIE--RILPGLDKAKE----------ILEKRGIFSKSSL 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 102 TGQDfeNKLRVPLLEILKYP-YLLLHERVNELcVEALCRMEQANcsfQVFDKH----PGIYLFLVHPNEMVRRWAILTAR 176
Cdd:pfam12726 77 SSHL--KEVLLALYEALCCPpYLRSDPELRAL-FDYVFKLLQTK---KKPLRLgtllPGMTYFLFDGDPEERRWARRQLE 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 177 NLGKVDRDDYYDLQevllclfkvIELGLLESPDIYTSSVLEKGKLILLpshmydttnyksyWLGICMLLTILEEQAMDSL 256
Cdd:pfam12726 151 RLKRSLTPEEFDWA---------VHDLLEEAIVHLSNIQLDPSFIERF-------------WSGFSLILRLLDKDLITHR 208
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 257 LLGSDKQNDFmQSILHTMEREADDDSVDPFWPALHCFMVILDRLGSKVWGQLMD--PIVAFQTIINNASYNREIRHIRNS 334
Cdd:pfam12726 209 LRALEVNPPI-EDIYRLLLNHLSSTLDPPLPDLLRALSLLLEKSGKAFWDAMGPisPQVVLDQIFDNPAFAKLLAQSLEE 287
|
330
....*....|....*..
gi 1191017961 335 svRTKLEPESYLDDMVT 351
Cdd:pfam12726 288 --EMDPPDDDSLSDLLS 302
|
|
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
1868-2023 |
2.42e-04 |
|
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];
Pssm-ID: 440273 [Multi-domain] Cd Length: 514 Bit Score: 46.51 E-value: 2.42e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1868 PANLNELVNCIVISSLVTTQRKLKAMSLLGSRNQLARAVLNPNPMDFCTKDLLTTTSERIIAYLRDFNEDQKKAIETAYA 1947
Cdd:COG0507 59 AEDIEAALAALVESGPLVLDGRRYLTRLLEAEQRLARRLRRLARPALDEADVEAALAALEPRAGITLSDEQREAVALALT 138
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1191017961 1948 MvkhspsvAKICLIHGPPGTGKSKTIVGLLyRLLTENQRkghsdensnakikqnRVLVCAPSNAAVDELMKKIILE 2023
Cdd:COG0507 139 T-------RRVSVLTGGAGTGKTTTLRALL-AALEALGL---------------RVALAAPTGKAAKRLSESTGIE 191
|
|
| hsdR |
PRK11448 |
type I restriction enzyme EcoKI subunit R; Provisional |
1895-1982 |
8.88e-04 |
|
type I restriction enzyme EcoKI subunit R; Provisional
Pssm-ID: 236912 [Multi-domain] Cd Length: 1123 Bit Score: 44.94 E-value: 8.88e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1895 LLGSRNQLARAVLNPNPMDFCTKdlltttseriiayLRDFNEDQKKAIETAYAMVKhspsvaKICLIHGPPGTGKSKTIV 1974
Cdd:PRK11448 391 LLESDIEAANQWLADEPFDYGLG-------------LRYYQEDAIQAVEKAIVEGQ------REILLAMATGTGKTRTAI 451
|
....*...
gi 1191017961 1975 GLLYRLLT 1982
Cdd:PRK11448 452 ALMYRLLK 459
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| DEXXQc_SETX |
cd18042 |
DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in ... |
1934-2259 |
3.38e-78 |
|
DEXXQ-box helicase domain of SETX; The RNA/DNA helicase senataxin (SETX) plays a role in transcription, neurogenesis, and antiviral response. SEXT is an R-loop-associated protein that is thought to function as an RNA/DNA helicase. R-loops consist of RNA/DNA hybrids, formed during transcription when nascent RNA hybridizes to the DNA template strand, displacing the non-template DNA strand. Mutations in SETX are linked to two neurodegenerative disorders: ataxia with oculomotor apraxia type 2 (AOA2) and amyotrophic lateral sclerosis type 4 (ALS4). S. cerevisiae homolog splicing endonuclease 1 (Sen1) is an exclusively nuclear protein, important for nucleolar organization. S. cerevisiae Sen1 and its ortholog, the Schizosaccharomyces pombe Sen1, share conserved domains and belong to the family I class of helicases. Both proteins translocate 5' to 3' and unwind both DNA and RNA duplexes and also RNA/DNA hybrids in vitro. SETX is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 438712 [Multi-domain] Cd Length: 218 Bit Score: 258.30 E-value: 3.38e-78
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1934 FNEDQKKAIETAYAMVKhspsvaKICLIHGPPGTGKSKTIVGLLYRLLTENQRKGHSD---------ENSNAKIKQNRVL 2004
Cdd:cd18042 1 LNESQLEAIASALQNSP------GITLIQGPPGTGKTKTIVGILSVLLAGKYRKYYEKvkkklrklqRNLNNKKKKNRIL 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2005 VCAPSNAAVDELMKKIILEFKEKCKdkknplGNCGDINLVRLGPeksinsevlkfsldsqvnhrmkkelpshvqamhkrk 2084
Cdd:cd18042 75 VCAPSNAAVDEIVLRLLSEGFLDGD------GRSYKPNVVRVGR------------------------------------ 112
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2085 efldyqldelsrqralcrggreiqrqeldeniskvskerqelaskikevqgrpQKTQSIIILESHIICCTLSTSGGLLLE 2164
Cdd:cd18042 113 -----------------------------------------------------QELRASILNEADIVCTTLSSSGSDLLE 139
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2165 SafrgqGGVPFSCVIVDEAGQSCEIETLTPLIHRCNKLILVGDPKQLPPTVISMKAQEYGYDQSMMARFCRlleenvehn 2244
Cdd:cd18042 140 S-----LPRGFDTVIIDEAAQAVELSTLIPLRLGCKRLILVGDPKQLPATVFSKVAQKLGYDRSLFERLQL--------- 205
|
330
....*....|....*
gi 1191017961 2245 miSRLPILQLTVQYR 2259
Cdd:cd18042 206 --AGYPVLMLTTQYR 218
|
|
| AAA_11 |
pfam13086 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
1937-2218 |
5.98e-72 |
|
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.
Pssm-ID: 404072 [Multi-domain] Cd Length: 248 Bit Score: 241.48 E-value: 5.98e-72
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1937 DQKKAIETAYamvKHSPsvakICLIHGPPGTGKSKTIVGLLYRLLTENQrkghsdensNAKIKQNRVLVCAPSNAAVDEL 2016
Cdd:pfam13086 1 SQREAIRSAL---SSSH----FTLIQGPPGTGKTTTIVELIRQLLSYPA---------TSAAAGPRILVCAPSNAAVDNI 64
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2017 MKKIILEfkekckdkknplGNCGDINLVRLGPEKSINSEVLKFSLDSQVNHRMKKE-LPSHVQAMHKRKEFLDYQLDELS 2095
Cdd:pfam13086 65 LERLLRK------------GQKYGPKIVRIGHPAAISEAVLPVSLDYLVESKLNNEeDAQIVKDISKELEKLAKALRAFE 132
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2096 RQRA--LCRGGREIQRQELDENISKVSKERQELASKIKEVQgrpQKTQSIIILESHIICCTLSTSGGLLLESAFrgqggv 2173
Cdd:pfam13086 133 KEIIveKLLKSRNKDKSKLEQERRKLRSERKELRKELRRRE---QSLEREILDEAQIVCSTLSGAGSRLLSSLA------ 203
|
250 260 270 280
....*....|....*....|....*....|....*....|....*
gi 1191017961 2174 PFSCVIVDEAGQSCEIETLTPLIHRCNKLILVGDPKQLPPTVISM 2218
Cdd:pfam13086 204 NFDVVIIDEAAQALEPSTLIPLLRGPKKVVLVGDPKQLPPTVISK 248
|
|
| AAA_12 |
pfam13087 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
2225-2424 |
3.94e-67 |
|
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins.
Pssm-ID: 463780 [Multi-domain] Cd Length: 196 Bit Score: 225.51 E-value: 3.94e-67
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2225 YDQSMMARFCRLLEEnvehnmisrlPILQLTVQYRMHPDICLFPSNYVYNRNLKTNRQTEAIRCSSDW----PFQPYLVF 2300
Cdd:pfam13087 1 LDRSLFERLQELGPS----------AVVMLDTQYRMHPEIMEFPSKLFYGGKLKDGPSVAERPLPDDFhlpdPLGPLVFI 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2301 DVGDGSERRDN--DSYINVQEIKLVMEIIKLIKdKRKDVSFRNIGIITHYKAQKTMIQKDLDKEFDRKGPAEVDTVDAFQ 2378
Cdd:pfam13087 71 DVDGSEEEESDggTSYSNEAEAELVVQLVEKLI-KSGPEEPSDIGVITPYRAQVRLIRKLLKRKLGGKLEIEVNTVDGFQ 149
|
170 180 190 200
....*....|....*....|....*....|....*....|....*.
gi 1191017961 2379 GRQKDCVIVTCVRANSiQGSIGFLASLQRLNVTITRAKYSLFILGH 2424
Cdd:pfam13087 150 GREKDVIIFSCVRSNE-KGGIGFLSDPRRLNVALTRAKRGLIIVGN 194
|
|
| TIGR00376 |
TIGR00376 |
DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of ... |
1935-2445 |
1.45e-59 |
|
DNA helicase, putative; The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273041 [Multi-domain] Cd Length: 636 Bit Score: 218.53 E-value: 1.45e-59
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1935 NEDQKKAIETAYamvkhspSVAKICLIHGPPGTGKSKTIVGLLYRLLTENQrkghsdensnakikqnRVLVCAPSNAAVD 2014
Cdd:TIGR00376 159 NESQKEAVLFAL-------SSKDLFLIHGPPGTGKTRTVVELIRQLVKRGL----------------RVLVTAPSNIAVD 215
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2015 ELMKKIILEfkekckdkknplgncgDINLVRLGPEKSINSEVLKFSLDSQV-NHrmkkelpshvqamHKRKEFLDYQ--L 2091
Cdd:TIGR00376 216 NLLERLALC----------------DQKIVRLGHPARLLKSNKQHSLDYLIeNH-------------PKYQIVADIRekI 266
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2092 DELSRQR-ALCRGGREIQRQELDENISKVSKERQE---LASKI----KEVQGRPQKTQSIIIL----ESHIICCTLSTSG 2159
Cdd:TIGR00376 267 DELIEERnKKTKPSPQKRRGLSDIKILRKALKKREargIESLKiasmAEWIETNKSIDRLLKLlpesEERIMNEILAESD 346
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2160 GLLLESAFRGQGGVPFSCVIVDEAGQSCEIETLTPLIhRCNKLILVGDPKQLPPTVISMKAQEygydqsmmarfcrlLEE 2239
Cdd:TIGR00376 347 ATNSMAGSEILNGQYFDVAVIDEASQAMEPSCLIPLL-KARKLILAGDHKQLPPTILSHDAEE--------------LSL 411
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2240 NVEHNMISRLP--ILQLTVQYRMHPDICLFPSNYVYNRNLKTNRQTEAI-------------RCSSDWPfQPYLVFDVG- 2303
Cdd:TIGR00376 412 TLFERLIKEYPerSRTLNVQYRMNQKIMEFPSREFYNGKLTAHESVANIllrdlpkveatesEDDLETG-IPLLFIDTSg 490
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2304 -DGSERRDND--SYINVQEIKLVMEIIKliKDKRKDVSFRNIGIITHYKAQKTMIQKDLDkefDRKGPAEVDTVDAFQGR 2380
Cdd:TIGR00376 491 cELFELKEADstSKYNPGEAELVSEIIQ--ALVKMGVPANDIGVITPYDAQVDLLRQLLE---HRHIDIEVSSVDGFQGR 565
|
490 500 510 520 530 540
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1191017961 2381 QKDCVIVTCVRANSiQGSIGFLASLQRLNVTITRAKYSLFILGHLRTLMENQHWNQLIQDAQKRG 2445
Cdd:TIGR00376 566 EKEVIIISFVRSNR-KGEVGFLKDLRRLNVALTRARRKLIVIGDSRTLSNHKFYKRLIEWCKQHG 629
|
|
| DNA2 |
COG1112 |
Superfamily I DNA and/or RNA helicase [Replication, recombination and repair]; |
2105-2428 |
4.73e-59 |
|
Superfamily I DNA and/or RNA helicase [Replication, recombination and repair];
Pssm-ID: 440729 [Multi-domain] Cd Length: 819 Bit Score: 221.16 E-value: 4.73e-59
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2105 REIQRQELDENISKVSKERQELASKIKEVQGRPQKTQSIIILESHIICCTLSTSGGLLLEsafrgqGGVPFSCVIVDEAG 2184
Cdd:COG1112 492 HPEELEKLIAELREAARLRRALRRELKKRRELRKLLWDALLELAPVVGMTPASVARLLPL------GEGSFDLVIIDEAS 565
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2185 QSCEIETLtPLIHRCNKLILVGDPKQLPPTVIS---MKAQEYGYDQSMMARFCRLLEENVehnmisrlpiLQLTVQYRMH 2261
Cdd:COG1112 566 QATLAEAL-GALARAKRVVLVGDPKQLPPVVFGeeaEEVAEEGLDESLLDRLLARLPERG----------VMLREHYRMH 634
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2262 PDICLFPSNYVYNRNLKTNRQTEAIRCssDWPFQPYLVFDVgDGSERRDNDSYINVQEIKLVMEIIKLIKDKRKDVsfRN 2341
Cdd:COG1112 635 PEIIAFSNRLFYDGKLVPLPSPKARRL--ADPDSPLVFIDV-DGVYERRGGSRTNPEEAEAVVELVRELLEDGPDG--ES 709
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2342 IGIITHYKAQKTMIQKDLDKEFDRKG-PAEVDTVDAFQGRQKDCVIVTCVRANS--IQGSIGFLAS-LQRLNVTITRAKY 2417
Cdd:COG1112 710 IGVITPYRAQVALIRELLREALGDGLePVFVGTVDRFQGDERDVIIFSLVYSNDedVPRNFGFLNGgPRRLNVAVSRARR 789
|
330
....*....|.
gi 1191017961 2418 SLFILGHLRTL 2428
Cdd:COG1112 790 KLIVVGSRELL 800
|
|
| SF1_C_Upf1 |
cd18808 |
C-terminal helicase domain of Upf1-like family helicases; The Upf1-like helicase family ... |
2260-2442 |
1.10e-58 |
|
C-terminal helicase domain of Upf1-like family helicases; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), and similar proteins. They are DEAD-like helicases belonging to superfamily (SF)1, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF2 helicases, SF1 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.
Pssm-ID: 350195 [Multi-domain] Cd Length: 184 Bit Score: 200.92 E-value: 1.10e-58
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2260 MHPDICLFPSNYVYNRNLKTNRQTEAIRCSSDWP--FQPYLVFDVGDGSERRDND-SYINVQEIKLVMEIIKLIKdkRKD 2336
Cdd:cd18808 1 MHPEISEFPSKLFYEGKLKAGVSVAARLNPPPLPgpSKPLVFVDVSGGEEREESGtSKSNEAEAELVVELVKYLL--KSG 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2337 VSFRNIGIITHYKAQKTMIQKDLDKEFDRKGPAEVDTVDAFQGRQKDCVIVTCVRANSIQGSIGFLASLQRLNVTITRAK 2416
Cdd:cd18808 79 VKPSSIGVITPYRAQVALIRELLRKRGGLLEDVEVGTVDNFQGREKDVIILSLVRSNESGGSIGFLSDPRRLNVALTRAK 158
|
170 180
....*....|....*....|....*.
gi 1191017961 2417 YSLFILGHLRTLMENQHWNQLIQDAQ 2442
Cdd:cd18808 159 RGLIIVGNPDTLSKDPLWKKLLEYLE 184
|
|
| DEXXQc_UPF1 |
cd18039 |
DEXXQ-box helicase domain of UPF1; UPF1 (also called RNA Helicase And ATPase, Regulator Of ... |
1933-2259 |
4.00e-41 |
|
DEXXQ-box helicase domain of UPF1; UPF1 (also called RNA Helicase And ATPase, Regulator Of Nonsense Transcripts, or ATP-Dependent Helicase RENT1) is an RNA-dependent helicase and ATPase required for nonsense-mediated decay (NMD) of mRNAs containing premature stop codons. It is recruited to mRNAs upon translation termination and undergoes a cycle of phosphorylation and dephosphorylation; its phosphorylation appears to be a key step in NMD. It is recruited by release factors to stalled ribosomes together with the SMG1C protein kinase complex to form the transient SURF (SMG1-UPF1-eRF1-eRF3) complex. In EJC-dependent NMD, the SURF complex associates with the exon junction complex (EJC) located downstream from the termination codon through UPF2 and allows the formation of an UPF1-UPF2-UPF3 surveillance complex which is believed to activate NMD. Diseases associated with UPF1 include juvenile amyotrophic lateral sclerosis and epidermolysis bullosa, junctional, non-Herlitz type. UPF1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350797 [Multi-domain] Cd Length: 234 Bit Score: 152.40 E-value: 4.00e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1933 DFNEDQKKAIETAYAmvkhspsvAKICLIHGPPGTGKSKTIVGLLYRLltenqrkghsdensnAKIKQNRVLVCAPSNAA 2012
Cdd:cd18039 1 ELNHSQVDAVKTALQ--------RPLSLIQGPPGTGKTVTSATIVYHL---------------VKQGNGPVLVCAPSNVA 57
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2013 VDELMKKIilefkekckdkkNPLGncgdINLVRLgPEKS---INSEVLKFSLDSQVNHRMKKELpshvqamHKRKEFLDY 2089
Cdd:cd18039 58 VDQLTEKI------------HQTG----LKVVRL-CAKSreaVESPVSFLALHNQVRNLDSAEK-------LELLKLLKL 113
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2090 QLDELSrqralcrggreiqrqELDENISKVSKERQElaskiKEvqgrpqktqsiIILESHIICCTLSTSGGLLLesafrg 2169
Cdd:cd18039 114 ETGELS---------------SADEKRYRKLKRKAE-----RE-----------LLRNADVICCTCVGAGDPRL------ 156
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2170 qGGVPFSCVIVDEAGQSCEIETLTPLIHRCNKLILVGDPKQLPPTVISMKAQEYGYDQSMMARFcrlleenVEHNMIsrl 2249
Cdd:cd18039 157 -SKMKFRTVLIDEATQATEPECLIPLVHGAKQVILVGDHCQLGPVVMCKKAAKAGLSQSLFERL-------VQLGIR--- 225
|
330
....*....|
gi 1191017961 2250 PILqLTVQYR 2259
Cdd:cd18039 226 PIR-LQVQYR 234
|
|
| DEXXQc_SMUBP2 |
cd18044 |
DEXXQ-box helicase domain of SMUBP2; SMUBP2 (also called immunoglobulin mu-binding protein 2, ... |
1934-2259 |
4.46e-36 |
|
DEXXQ-box helicase domain of SMUBP2; SMUBP2 (also called immunoglobulin mu-binding protein 2, or IGHMBP2) is a 5' to 3' helicase that unwinds RNA and DNA duplexes in an ATP-dependent reaction. It is a DNA-binding protein specific to 5'-phosphorylated single-stranded guanine-rich sequence (5'-GGGCT-3') related to the immunoglobulin mu chain switch region. The IGHMBP2 gene is responsible for Charcot-Marie-Tooth disease (CMT) type 2S and spinal muscular atrophy with respiratory distress type 1 (SMARD1). It is also thought to play a role in frontotemporal dementia (FTD) with amyotrophic lateral sclerosis (ALS) and major depressive disorder (MDD). SMUBP2 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350802 [Multi-domain] Cd Length: 191 Bit Score: 136.59 E-value: 4.46e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1934 FNEDQKKAIETAYAmvkhSPSVAkicLIHGPPGTGKSKTIVGLLYRLLTENQRkghsdensnakikqnrVLVCAPSNAAV 2013
Cdd:cd18044 2 LNDSQKEAVKFALS----QKDVA---LIHGPPGTGKTTTVVEIILQAVKRGEK----------------VLACAPSNIAV 58
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2014 DELMKKIIlefkekckdkknplgNCGdINLVRLGPEKSINSEVLKFSLDSQVnhrmkkelpshvqamhkrkefldyqlde 2093
Cdd:cd18044 59 DNLVERLV---------------ALK-VKVVRIGHPARLLESVLDHSLDALV---------------------------- 94
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2094 lsrqralcrggreiqrqeldeniskvskerqelaskikevqgrpqktqsiiilESHIICCTLSTSGGLLLesafrgQGGV 2173
Cdd:cd18044 95 -----------------------------------------------------AAQVVLATNTGAGSRQL------LPNE 115
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2174 PFSCVIVDEAGQSCEIETLTPLIhRCNKLILVGDPKQLPPTVISMKAQEYGYDQSMMARFcrlleENVEHNMISRLpilq 2253
Cdd:cd18044 116 LFDVVVIDEAAQALEASCWIPLL-KARRCILAGDHKQLPPTILSDKAARGGLGVTLFERL-----VNLYGESVVRM---- 185
|
....*.
gi 1191017961 2254 LTVQYR 2259
Cdd:cd18044 186 LTVQYR 191
|
|
| DEXXQc_Helz-like |
cd18038 |
DEXXQ/H-box helicase domain of Helz-like helicase; This subfamily contains HELZ, Mov10L1, and ... |
1935-2259 |
1.39e-28 |
|
DEXXQ/H-box helicase domain of Helz-like helicase; This subfamily contains HELZ, Mov10L1, and similar proteins. Helicase with zinc finger (HELZ) acts as a helicase that plays a role in RNA metabolism during development. Moloney leukemia virus 10-like protein 1 (Mov10L1) binds Piwi-interacting RNA (piRNA) precursors to initiate piRNA processing. All are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350796 [Multi-domain] Cd Length: 229 Bit Score: 116.18 E-value: 1.39e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1935 NEDQKKAIETAYAMVKHSPSVakicLIHGPPGTGKSKTIVGLLYRLLTENQrkghsdensnakikQNRVLVCAPSNAAVD 2014
Cdd:cd18038 3 NDEQKLAVRNIVTGTSRPPPY----IIFGPPGTGKTVTLVEAILQVLRQPP--------------EARILVCAPSNSAAD 64
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2015 ELMKKIILEFKEKckdkknplgncgdINLVRLgpeksinsevlkfsLDSQvnhRMKKELPSHVQAMHKRKEFLDYQLDEL 2094
Cdd:cd18038 65 LLAERLLNALVTK-------------REILRL--------------NAPS---RDRASVPPELLPYCNSKAEGTFRLPSL 114
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2095 SRqralcrggreiqrqeldeniskvskerqelaskikevqgrpqktqsiiILESHIICCTLSTSGglLLESAFRGQGGvp 2174
Cdd:cd18038 115 EE------------------------------------------------LKKYRIVVCTLMTAG--RLVQAGVPNGH-- 142
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2175 FSCVIVDEAGQSCEIETLTPLIHRCNK---LILVGDPKQLPPTVISMKAQEYGYDQSMMArfcRLLEENVEHNMISRLP- 2250
Cdd:cd18038 143 FTHIFIDEAGQATEPEALIPLSELASKntqIVLAGDPKQLGPVVRSPLARKYGLGKSLLE---RLMERPLYYKDGEYNPs 219
|
330
....*....|
gi 1191017961 2251 -ILQLTVQYR 2259
Cdd:cd18038 220 yITKLLKNYR 229
|
|
| DEXXQc_DNA2 |
cd18041 |
DEXXQ-box helicase domain of DNA2; DNA2 (DNA Replication Helicase/Nuclease 2) possesses ... |
1935-2259 |
3.78e-24 |
|
DEXXQ-box helicase domain of DNA2; DNA2 (DNA Replication Helicase/Nuclease 2) possesses different enzymatic activities, such as single-stranded DNA (ssDNA)-dependent ATPase, 5-3 helicase, and endonuclease activities, and is involved in DNA replication and DNA repair in the nucleus and mitochondrion. It is involved in Okazaki fragment processing by cleaving long flaps that escape FEN1: flaps that are longer than 27 nucleotides are coated by replication protein A complex (RPA), leading to recruit DNA2 which cleaves the flap until it is too short to bind RPA and becomes a substrate for FEN1. It is also involved in 5-end resection of DNA during double-strand break (DSB) repair; it is recruited by BLM and mediates the cleavage of 5-ssDNA, while the 3-ssDNA cleavage is prevented by the presence of RPA. DNA2 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350799 [Multi-domain] Cd Length: 203 Bit Score: 102.70 E-value: 3.78e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1935 NEDQKKAIETAYamvkhspsVAK-ICLIHGPPGTGKSKTIVGLLYRLLTENqrkghsdensnakikqNRVLVCAPSNAAV 2013
Cdd:cd18041 3 NKDQRQAIKKVL--------NAKdYALILGMPGTGKTTTIAALVRILVALG----------------KSVLLTSYTHSAV 58
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2014 DelmkKIILEFKEKckdkknplgncgDINLVRLGPEKSINSEVLKFSLdsqvnhrmkkelpshvqamhkrkefldyqlde 2093
Cdd:cd18041 59 D----NILLKLKKF------------GVNFLRLGRLKKIHPDVQEFTL-------------------------------- 90
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2094 lsrqralcrggreiqrqeldENISKVSKERQELASKIKEVQgrpqktqsiiileshIICCTLSTsgglLLESAFRGQggv 2173
Cdd:cd18041 91 --------------------EAILKSCKSVEELESKYESVS---------------VVATTCLG----INHPIFRRR--- 128
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2174 PFSCVIVDEAGQSCEIETLTPLIHrCNKLILVGDPKQLPPTVISMKAQEYGYDQSMMARFCrlleeNVEHNMISrlpilQ 2253
Cdd:cd18041 129 TFDYCIVDEASQITLPICLGPLRL-AKKFVLVGDHYQLPPLVKSREARELGMDESLFKRLS-----EAHPDAVV-----Q 197
|
....*.
gi 1191017961 2254 LTVQYR 2259
Cdd:cd18041 198 LTIQYR 203
|
|
| DEXXc_HELZ2-C |
cd18040 |
C-terminal DEXX-box helicase domain of HELZ2; Helicase with zinc finger 2 (HELZ2, also known ... |
1935-2233 |
1.72e-23 |
|
C-terminal DEXX-box helicase domain of HELZ2; Helicase with zinc finger 2 (HELZ2, also known as PPAR-alpha-interacting complex protein 285 or PRIC285 and PPAR-gamma DBD-interacting protein 1 or PDIP1) acts as a transcriptional coactivator for a number of nuclear receptors including PPARA, PPARG, THRA, THRB and RXRA. It belongs to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350798 [Multi-domain] Cd Length: 271 Bit Score: 102.60 E-value: 1.72e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1935 NEDQKKAIETAYAmvkhspsvAKICLIHGPPGTGKSKTIVGLLYRLLTENQRKGHSDENSNAKikqNRVLVCAPSNAAVD 2014
Cdd:cd18040 3 NPSQNHAVRTALT--------KPFTLIQGPPGTGKTVTGVHIAYWFAKQNREIQSVSGEGDGG---PCVLYCGPSNKSVD 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2015 ---ELMK-----KIILEFKEKCKDKKNPLGNCGDINLVRLGPEKSINSEVLKFSLdsqvNHRMKKELPSHVQAMhkrKEF 2086
Cdd:cd18040 72 vvaELLLkvpglKILRVYSEQIETTEYPIPNEPRHPNKKSERESKPNSELSSITL----HHRIRQPSNPHSQQI---KAF 144
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2087 ldyqldelsrQRALCRGGREIQRQELDENISKVSKER-QELASKikevqgrpqktqsiiilesHIICCTLSTSGGLLLES 2165
Cdd:cd18040 145 ----------EARFERTQEKITEEDIKTYKILIWEARfEELETV-------------------DVILCTCSEAASQKMRT 195
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2166 AfrgqggVPFSCVIVDEAGQSCEIETLTPLI--HRCNKLILVGDPKQLPPTVISMKAQEYGYDQSMMARF 2233
Cdd:cd18040 196 H------ANVKQCIVDECGMCTEPESLIPIVsaPRAEQVVLIGDHKQLRPVVQNKEAQKLGLGRSLFERY 259
|
|
| DEXXQc_Mov10L1 |
cd18078 |
DEXXQ-box helicase domain of Mov10L1; Moloney leukemia virus 10-like protein 1 (Mov10L1) binds ... |
1933-2259 |
4.26e-17 |
|
DEXXQ-box helicase domain of Mov10L1; Moloney leukemia virus 10-like protein 1 (Mov10L1) binds Piwi-interacting RNA (piRNA) precursors to initiate piRNA processing. Mov10L1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350836 [Multi-domain] Cd Length: 230 Bit Score: 82.80 E-value: 4.26e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1933 DFNEDQKKAIETAYAMV-KHSPSVakiclIHGPPGTGKSKTIVGLLYRLLTEnqrkghsdensnakIKQNRVLVCAPSNA 2011
Cdd:cd18078 1 DLNELQKEAVKRILGGEcRPLPYI-----LFGPPGTGKTVTIIEAILQVVYN--------------LPRSRILVCAPSNS 61
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2012 AVDELMKKIIlefkekckdkknplgncgDINLVRLGPEKSINSevlkfsldsqVNHRMKKELPshvqamhkrkEFLDYql 2091
Cdd:cd18078 62 AADLVTSRLH------------------ESKVLKPGDMVRLNA----------VNRFESTVID----------ARKLY-- 101
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2092 delsrqralCRGGreiqrqeldENISKVSKERqelaskikevqgrpqktqsiiileshIICCTLSTSGGLLlesafrgQG 2171
Cdd:cd18078 102 ---------CRLG---------EDLSKASRHR--------------------------IVISTCSTAGLLY-------QM 130
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2172 GVP---FSCVIVDEAGQSCEIETLTPL--IH-RCNKLILVGDPKQLPPTVISMKAQEYGYDQSMMARF------CRLLEE 2239
Cdd:cd18078 131 GLPvghFTHVFVDEAGQATEPESLIPLglISsRDGQIILAGDPMQLGPVIKSRLASAYGLGVSFLERLmnrplyLRDPNR 210
|
330 340
....*....|....*....|
gi 1191017961 2240 NVEHNMISRLPILQLTVQYR 2259
Cdd:cd18078 211 FGESGGYNPLLVTKLVDNYR 230
|
|
| DEXXQc_Upf1-like |
cd17934 |
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, ... |
2178-2259 |
3.18e-15 |
|
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), coronavirus Nsp13, and similar proteins. They belong to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 438708 [Multi-domain] Cd Length: 121 Bit Score: 74.19 E-value: 3.18e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2178 VIVDEAGQSCEIETLtPLIHRCNKLILVGDPKQLPPTVISMKAQEYGydqsMMARFCRLLEENVEHNMIsrlPILQLTVQ 2257
Cdd:cd17934 48 VIIDEASQITEPELL-IALIRAKKVVLVGDPKQLPPVVQEDHAALLG----LSFILSLLLLFRLLLPGS---PKVMLDTQ 119
|
..
gi 1191017961 2258 YR 2259
Cdd:cd17934 120 YR 121
|
|
| EEXXQc_AQR |
cd17935 |
EEXXQ-box helicase domain of AQR; Aquarius (AQR) is a multifunctional RNA helicase that binds ... |
2147-2271 |
3.44e-14 |
|
EEXXQ-box helicase domain of AQR; Aquarius (AQR) is a multifunctional RNA helicase that binds precursor-mRNA introns at a defined position and is part of a pentameric intron-binding complex (IBC). It is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350693 [Multi-domain] Cd Length: 207 Bit Score: 74.00 E-value: 3.44e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2147 ESHIICCT---LSTSGGLLLESAFRgqggvpFSCVIVDEAGQSCEIETLTPLI--------HRCNKLILVGDPKQLPPTV 2215
Cdd:cd17935 86 GAKIIAMTcthAALKRGELVELGFK------YDNILMEEAAQILEIETFIPLLlqnpedgpNRLKRLIMIGDHHQLPPVI 159
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*...
gi 1191017961 2216 ISMKAQEYGY-DQSMMARFCRLleenvehnmisRLPILQLTVQYRMHPDIC-LFPSNY 2271
Cdd:cd17935 160 KNMAFQKYSNmEQSLFTRLVRL-----------GVPTVDLDAQGRARASISsLYNWRY 206
|
|
| SF1_C |
cd18786 |
C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family ... |
2342-2423 |
2.13e-09 |
|
C-terminal helicase domain of superfamily 1 DEAD/H-box helicases; Superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Similar to SF2 helicases, they do not form toroidal, predominantly hexameric structures like SF3-6. SF1 helicases are a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Their helicase core is surrounded by C- and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains, or domains engaged in protein-protein interactions. The core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.
Pssm-ID: 350173 [Multi-domain] Cd Length: 89 Bit Score: 56.68 E-value: 2.13e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2342 IGIITHYKAQKTMIQKDLDKE-FDRKGPAEVD--TVDAFQGRQKDCVIVTCVRANSIqgsigflaSLQRLNVTITRAKYS 2418
Cdd:cd18786 13 GVVLTPYHRDRAYLNQYLQGLsLDEFDLQLVGaiTIDSSQGLTFDVVTLYLPTANSL--------TPRRLYVALTRARKR 84
|
....*
gi 1191017961 2419 LFILG 2423
Cdd:cd18786 85 LVIYD 89
|
|
| CoV_Nsp13-helicase |
cd21718 |
helicase domain of coronavirus non-structural protein 13; This model represents the helicase ... |
2198-2422 |
1.32e-08 |
|
helicase domain of coronavirus non-structural protein 13; This model represents the helicase domain of non-structural protein 13 (Nsp13) from alpha-, beta-, gamma-, and deltacoronavirus, including pathogenic human viruses such as Severe acute respiratory syndrome coronavirus (SARS-CoV), SARS-CoV2 (also called 2019 novel CoV or 2019-nCoV), and Middle East respiratory syndrome-related (MERS) CoV. Helicases catalyze NTP-dependent unwinding of nucleic acid duplexes into single strands and are classified based on the arrangement of conserved motifs into six superfamilies. CoV Nsp13 is a member of the helicase superfamily 1 (SF1); SF1 and SF2 helicases do not form toroidal structures, while SF3-6 helicases do. Nsp13 is a component of the viral RNA synthesis replication and transcription complex (RTC). It is a multidomain protein containing a Cys/His rich zinc-binding domain (CH/ZBD), a stalk domain, a 1B domain involved in nucleic acid substrate binding, and a SF1 helicase core.
Pssm-ID: 409652 [Multi-domain] Cd Length: 341 Bit Score: 59.47 E-value: 1.32e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2198 RCNKLILVGDPKQLP-PTVI----SMKAQEYGydqsmmaRFCRLleenvehnMISRLPILQLTVQYRMHPDICLFPSNYV 2272
Cdd:cd21718 142 KYKHIVYVGDPAQLPaPRTLltegSLEPKDYN-------VVTRL--------MVGSGPDVFLSKCYRCPKEIVDTVSKLV 206
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2273 YNRNLKtnrqteAIRCSSDwpfQPYLVFdvGDGSERRDNDSYINVQEIKLVMEIIKLIKDKRKDVsfrnigIITHYKAQK 2352
Cdd:cd21718 207 YDNKLK------AIKPKSR---QCFKTF--GKGDVRHDNGSAINRPQLEFVKRFLDRNPRWRKAV------FISPYNAMN 269
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2353 TMIQKDLDkefdrkgpAEVDTVDAFQGRQKDCVIVtCVRANSIQGSigflaSLQRLNVTITRAKYSLFIL 2422
Cdd:cd21718 270 NRASRLLG--------LSTQTVDSSQGSEYDYVIF-CQTTDTAHAL-----NINRFNVAITRAKHGILVI 325
|
|
| EEXXEc_NFX1 |
cd17936 |
EEXXE-box helicase domain of NFX1; Human NFX1 protein was identified as a protein that ... |
2141-2247 |
1.98e-08 |
|
EEXXE-box helicase domain of NFX1; Human NFX1 protein was identified as a protein that represses class II MHC (major histocompatibility complex) gene expression. NFX1 binds a conserved cis-acting element, termed the X-box, in promoters of human class II MHC genes. The Cys-rich region contains several NFX1-type zinc finger domains. Frequently, a R3H domain is present in the C-terminus, and a RING finger domain and a PAM2 motif are present in the N-terminus. The lack of R3H and PAM2 motifs in the plant proteins indicates functional differences. Plant NFX1-like proteins are proposed to modulate growth and survival by coordinating reactive oxygen species, salicylic acid, further biotic stress and abscisic acid responses. A common feature of all members may be E3 ubiquitin ligase, due to the presence of a RING finger domain, as well as DNA binding. NFX1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350694 [Multi-domain] Cd Length: 178 Bit Score: 56.40 E-value: 1.98e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2141 QSIIILESHIICCTlsTSGGLLLESAFRGQGgvpFSCVIVDEAGQSCEIETLTPLIHRCNKLILVGDPKQLPPTVISMK- 2219
Cdd:cd17936 75 TKIVRLGARVIGMT--TTGAAKYRELLQALG---PKVVIVEEAAEVLEAHILAALTPSTEHLILIGDHKQLRPKVNVYEl 149
|
90 100
....*....|....*....|....*....
gi 1191017961 2220 -AQEYGYDQSMmarFCRLLEENVEHNMIS 2247
Cdd:cd17936 150 tAKKYNLDVSL---FERLVKNGLPFVTLN 175
|
|
| DEXXQc_SF1 |
cd18043 |
DEXXQ-box helicase domain of Superfamily 1 helicases; Superfamily 1 (SF1) helicases are ... |
2175-2213 |
2.40e-08 |
|
DEXXQ-box helicase domain of Superfamily 1 helicases; Superfamily 1 (SF1) helicases are nucleic acid motor proteins that couple ATP hydrolysis to translocation along with the concomitant unwinding of DNA or RNA. This is central to many aspects of cellular DNA and RNA metabolism and accordingly, they are implicated in a wide range of nucleic acid processing events including DNA replication, recombination, and repair as well as many aspects of RNA metabolism. Superfamily 1 helicases are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350801 [Multi-domain] Cd Length: 127 Bit Score: 54.51 E-value: 2.40e-08
10 20 30
....*....|....*....|....*....|....*....
gi 1191017961 2175 FSCVIVDEAGQsCEIETLTPLIHRCNKLILVGDPKQLPP 2213
Cdd:cd18043 81 FDLVIFDEASQ-IPIEEALPALFRGKQVVVVGDDKQLPP 118
|
|
| SEN1_N |
pfam12726 |
SEN1 N terminal; This domain is found at the N terminal of the helicase SEN1. SEN1 is a Pol II ... |
37-351 |
7.09e-08 |
|
SEN1 N terminal; This domain is found at the N terminal of the helicase SEN1. SEN1 is a Pol II termination factor for noncoding RNA genes. The N terminal of SEN1, unlike the C terminal, is not required for growth.
Pssm-ID: 432746 Cd Length: 744 Bit Score: 58.10 E-value: 7.09e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 37 LCYCLECVAEYHKARDEL------PFLHEVL---------WELEtlRLINHFEKSMKaeigdddelyIVDNNGEMPLFDI 101
Cdd:pfam12726 9 LSSCDKCVRNFHRGKKELrqtfaeRFPEETVaqfldkldeWDIE--RILPGLDKAKE----------ILEKRGIFSKSSL 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 102 TGQDfeNKLRVPLLEILKYP-YLLLHERVNELcVEALCRMEQANcsfQVFDKH----PGIYLFLVHPNEMVRRWAILTAR 176
Cdd:pfam12726 77 SSHL--KEVLLALYEALCCPpYLRSDPELRAL-FDYVFKLLQTK---KKPLRLgtllPGMTYFLFDGDPEERRWARRQLE 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 177 NLGKVDRDDYYDLQevllclfkvIELGLLESPDIYTSSVLEKGKLILLpshmydttnyksyWLGICMLLTILEEQAMDSL 256
Cdd:pfam12726 151 RLKRSLTPEEFDWA---------VHDLLEEAIVHLSNIQLDPSFIERF-------------WSGFSLILRLLDKDLITHR 208
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 257 LLGSDKQNDFmQSILHTMEREADDDSVDPFWPALHCFMVILDRLGSKVWGQLMD--PIVAFQTIINNASYNREIRHIRNS 334
Cdd:pfam12726 209 LRALEVNPPI-EDIYRLLLNHLSSTLDPPLPDLLRALSLLLEKSGKAFWDAMGPisPQVVLDQIFDNPAFAKLLAQSLEE 287
|
330
....*....|....*..
gi 1191017961 335 svRTKLEPESYLDDMVT 351
Cdd:pfam12726 288 --EMDPPDDDSLSDLLS 302
|
|
| DEXXQc_SF1 |
cd18043 |
DEXXQ-box helicase domain of Superfamily 1 helicases; Superfamily 1 (SF1) helicases are ... |
1935-2022 |
1.29e-07 |
|
DEXXQ-box helicase domain of Superfamily 1 helicases; Superfamily 1 (SF1) helicases are nucleic acid motor proteins that couple ATP hydrolysis to translocation along with the concomitant unwinding of DNA or RNA. This is central to many aspects of cellular DNA and RNA metabolism and accordingly, they are implicated in a wide range of nucleic acid processing events including DNA replication, recombination, and repair as well as many aspects of RNA metabolism. Superfamily 1 helicases are members of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350801 [Multi-domain] Cd Length: 127 Bit Score: 52.58 E-value: 1.29e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1935 NEDQKKAIETAYamvkHSPSVakicLIHGPPGTGKSKTIVGLLYRLLTENQrkghsdensnakikqnRVLVCAPSNAAVD 2014
Cdd:cd18043 1 DSSQEAAIISAR----NGKNV----VIQGPPGTGKSQTIANIIANALARGK----------------RVLFVSEKKAALD 56
|
....*...
gi 1191017961 2015 ELMKKIIL 2022
Cdd:cd18043 57 VVRFPCWI 64
|
|
| DEXXQc_HELZ |
cd18077 |
DEXXQ-box helicase domain of HELZ; Helicase with zinc finger (HELZ) acts as a helicase that ... |
2145-2240 |
5.10e-07 |
|
DEXXQ-box helicase domain of HELZ; Helicase with zinc finger (HELZ) acts as a helicase that plays a role in RNA metabolism during development. HELZ is a member of the family I class of RNA helicases of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350835 [Multi-domain] Cd Length: 226 Bit Score: 53.26 E-value: 5.10e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2145 ILESHIICCTLSTSGGLLLESAFRGQggvpFSCVIVDEAGQSCEIETLTP--LIHRCNKLILVGDPKQLPPTVISMKAQE 2222
Cdd:cd18077 121 VMRHRVVVVTLSTSQYLCQLDLEPGF----FTHILLDEAAQAMECEAIMPlaLATKSTRIVLAGDHMQLSPEVYSEFARE 196
|
90 100
....*....|....*....|....*...
gi 1191017961 2223 YGYDQSMMARF---------CR-LLEEN 2240
Cdd:cd18077 197 RNLHISLLERLyehypsehpCRiLLCEN 224
|
|
| UvrD-helicase |
pfam00580 |
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural ... |
1935-2210 |
1.14e-06 |
|
UvrD/REP helicase N-terminal domain; The Rep family helicases are composed of four structural domains. The Rep family function as dimers. REP helicases catalyze ATP dependent unwinding of double stranded DNA to single stranded DNA. Swiss:P23478, Swiss:P08394 have large insertions near to the carboxy-terminus relative to other members of the family.
Pssm-ID: 395462 [Multi-domain] Cd Length: 267 Bit Score: 52.63 E-value: 1.14e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1935 NEDQKKAIEtayamvkhspSVAKICLIHGPPGTGKSKTIVGLLYRLLTENQrkghsdensnakIKQNRVLVCAPSNAAVD 2014
Cdd:pfam00580 2 NPEQRKAVT----------HLGGPLLVLAGAGSGKTRVLTERIAYLILEGG------------IDPEEILAVTFTNKAAR 59
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2015 ELMKKIILEFKEKCKDKKNpLGN----CGDInLVRLGPEKSINSEVLKFSLDSQvnhrmkkelpshVQAMHKRKEFLDYQ 2090
Cdd:pfam00580 60 EMKERILKLLGKAELSELN-ISTfhsfCLRI-LRKYANRIGLLPNFSILDELDQ------------LALLKELLEKDRLN 125
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2091 LD-ELSRQRALCrggreiqrqeldENISKVsKERQELASKIKEVQGRPQKTQSIIILESH----------------IICC 2153
Cdd:pfam00580 126 LDpKLLRKLELK------------ELISKA-KNRLLSPEELQQGAADPRDKLAAEFYQEYqerlkennaldfddllLLTL 192
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2154 TLSTSGGLLLEsAFRGQggvpFSCVIVDEAgQ---SCEIETLTPLIHRCNKLILVGDPKQ 2210
Cdd:pfam00580 193 ELLRSDPELLE-AYRER----FKYILVDEF-QdtnPIQYRLLKLLAGGHENLFLVGDPDQ 246
|
|
| betaCoV_Nsp13-helicase |
cd21722 |
helicase domain of betacoronavirus non-structural protein 13; This model represents the ... |
2198-2430 |
7.28e-06 |
|
helicase domain of betacoronavirus non-structural protein 13; This model represents the helicase domain of non-structural protein 13 (Nsp13) from betacoronavirus, including pathogenic human viruses such as Severe acute respiratory syndrome coronavirus (SARS-CoV), SARS-CoV2 (also called 2019 novel CoV or 2019-nCoV), and Middle East respiratory syndrome-related (MERS) CoV. Helicases catalyze NTP-dependent unwinding of nucleic acid duplexes into single strands and are classified based on the arrangement of conserved motifs into six superfamilies. CoV Nsp13 is a member of the helicase superfamily 1 (SF1); SF1 and SF2 helicases do not form toroidal structures, while SF3-6 helicases do. Nsp13 is a component of the viral RNA synthesis replication and transcription complex (RTC). It is a multidomain protein containing a Cys/His rich zinc-binding domain (CH/ZBD), a stalk domain, a 1B domain involved in nucleic acid substrate binding, and a SF1 helicase core.
Pssm-ID: 409655 [Multi-domain] Cd Length: 340 Bit Score: 50.96 E-value: 7.28e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2198 RCNKLILVGDPKQLPP--TVISMKAQEYGYDQSMmarfCRLleenvehnMISRLPILQLTVQYRMHPDICLFPSNYVYNR 2275
Cdd:cd21722 142 RAKHIVYIGDPAQLPAprTLLTKGTLEPEYFNSV----TRL--------MCCLGPDIFLGTCYRCPKEIVDTVSALVYDN 209
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2276 NLKTNRQTEAiRCssdwpFQPYLvfdvgDGSERRDNDSYINVQEIKLVMEIIKlikdkrKDVSFRNIGIITHYKAQKTMI 2355
Cdd:cd21722 210 KLKAKKDNSG-QC-----FKVYY-----KGSVTHDSSSAINRPQIYLVKKFLK------ANPAWSKAVFISPYNSQNAVA 272
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1191017961 2356 QKDLDkefdrkgpAEVDTVDAFQGRQKDCVIV--TCVRANSIqgsigflaSLQRLNVTITRAKYSLFILGHLRTLME 2430
Cdd:cd21722 273 RRVLG--------LQTQTVDSSQGSEYDYVIYcqTAETAHSV--------NVNRFNVAITRAKKGILCVMSSMQLFE 333
|
|
| AAA_19 |
pfam13245 |
AAA domain; |
1938-2016 |
2.53e-05 |
|
AAA domain;
Pssm-ID: 433059 [Multi-domain] Cd Length: 136 Bit Score: 46.44 E-value: 2.53e-05
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1191017961 1938 QKKAIETAyamvkhspSVAKICLIHGPPGTGKSKTIVGLLYRLLTENQRKghsdensnakikqNRVLVCAPSNAAVDEL 2016
Cdd:pfam13245 1 QREAVRTA--------LPSKVVLLTGGPGTGKTTTIRHIVALLVALGGVS-------------FPILLAAPTGRAAKRL 58
|
|
| DExxQc_SF1-N |
cd17914 |
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ... |
1960-2026 |
4.81e-05 |
|
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Like SF2, they do not form toroidal, predominantly hexameric structures like SF3-6. Their helicase core is surrounded by C and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains or domains engaged in protein-protein interactions. SF1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 438706 [Multi-domain] Cd Length: 121 Bit Score: 45.17 E-value: 4.81e-05
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1191017961 1960 LIHGPPGTGKSKTIVGLLYRLLTenqrkghsdensNAKIKQNRVLVCAPSNAAVDELMKKIILEFKE 2026
Cdd:cd17914 3 LIQGPPGTGKTRVLVKIVAALMQ------------NKNGEPGRILLVTPTNKAAAQLDNILVDEAAQ 57
|
|
| DExxQc_SF1-N |
cd17914 |
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members ... |
2178-2258 |
5.10e-05 |
|
DEXQ-box helicase domain of superfamily 1 helicase; The superfamily (SF)1 family members include UvrD/Rep, Pif1-like, and Upf-1-like proteins. Like SF2, they do not form toroidal, predominantly hexameric structures like SF3-6. Their helicase core is surrounded by C and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains or domains engaged in protein-protein interactions. SF1 is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 438706 [Multi-domain] Cd Length: 121 Bit Score: 45.17 E-value: 5.10e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2178 VIVDEAGQSCEIET--LTPLIHRCNKLILVGDPKQLPPTVISMKAQEYGYDQSmmarfcrLLEENVEHNmisrLPILQLT 2255
Cdd:cd17914 50 ILVDEAAQILEPETsrLIDLALDQGRVILVGDHDQLGPVWRGAVLAKICNEQS-------LFTRLVRLG----VSLIRLQ 118
|
...
gi 1191017961 2256 VQY 2258
Cdd:cd17914 119 VQY 121
|
|
| RecD |
COG0507 |
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) ... |
1868-2023 |
2.42e-04 |
|
ATPase/5#-3# helicase helicase subunit RecD of the DNA repair enzyme RecBCD (exonuclease V) [Replication, recombination and repair];
Pssm-ID: 440273 [Multi-domain] Cd Length: 514 Bit Score: 46.51 E-value: 2.42e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1868 PANLNELVNCIVISSLVTTQRKLKAMSLLGSRNQLARAVLNPNPMDFCTKDLLTTTSERIIAYLRDFNEDQKKAIETAYA 1947
Cdd:COG0507 59 AEDIEAALAALVESGPLVLDGRRYLTRLLEAEQRLARRLRRLARPALDEADVEAALAALEPRAGITLSDEQREAVALALT 138
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1191017961 1948 MvkhspsvAKICLIHGPPGTGKSKTIVGLLyRLLTENQRkghsdensnakikqnRVLVCAPSNAAVDELMKKIILE 2023
Cdd:COG0507 139 T-------RRVSVLTGGAGTGKTTTLRALL-AALEALGL---------------RVALAAPTGKAAKRLSESTGIE 191
|
|
| hsdR |
PRK11448 |
type I restriction enzyme EcoKI subunit R; Provisional |
1895-1982 |
8.88e-04 |
|
type I restriction enzyme EcoKI subunit R; Provisional
Pssm-ID: 236912 [Multi-domain] Cd Length: 1123 Bit Score: 44.94 E-value: 8.88e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1895 LLGSRNQLARAVLNPNPMDFCTKdlltttseriiayLRDFNEDQKKAIETAYAMVKhspsvaKICLIHGPPGTGKSKTIV 1974
Cdd:PRK11448 391 LLESDIEAANQWLADEPFDYGLG-------------LRYYQEDAIQAVEKAIVEGQ------REILLAMATGTGKTRTAI 451
|
....*...
gi 1191017961 1975 GLLYRLLT 1982
Cdd:PRK11448 452 ALMYRLLK 459
|
|
| DEXSc_RecD-like |
cd17933 |
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ... |
1937-2020 |
1.48e-03 |
|
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.
Pssm-ID: 350691 [Multi-domain] Cd Length: 155 Bit Score: 41.39 E-value: 1.48e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1937 DQKKAIETAyamVKHspsvaKICLIHGPPGTGKSKTIVGLLyRLLtenQRKGHsdensnakikqnRVLVCAPSNAAVDEL 2016
Cdd:cd17933 1 EQKAAVRLV---LRN-----RVSVLTGGAGTGKTTTLKALL-AAL---EAEGK------------RVVLAAPTGKAAKRL 56
|
....
gi 1191017961 2017 MKKI 2020
Cdd:cd17933 57 SEST 60
|
|
| AAA_30 |
pfam13604 |
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA ... |
1935-2018 |
2.16e-03 |
|
AAA domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily. Many of the proteins in this family are conjugative transfer proteins. There is a Walker A and Walker B.
Pssm-ID: 433343 [Multi-domain] Cd Length: 191 Bit Score: 41.78 E-value: 2.16e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 1935 NEDQKKAIETAYAmvkhspSVAKICLIHGPPGTGKSkTIVGLLYRLLTENqrkGHsdensnakikqnRVLVCAPSNAAVD 2014
Cdd:pfam13604 3 NAEQAAAVRALLT------SGDRVAVLVGPAGTGKT-TALKALREAWEAA---GY------------RVIGLAPTGRAAK 60
|
....
gi 1191017961 2015 ELMK 2018
Cdd:pfam13604 61 VLGE 64
|
|
| gammaCoV_Nsp13-helicase |
cd21720 |
helicase domain of gammacoronavirus non-structural protein 13; This model represents the ... |
2202-2422 |
7.83e-03 |
|
helicase domain of gammacoronavirus non-structural protein 13; This model represents the helicase domain of non-structural protein 13 (Nsp13) from gammacoronavirus, including Avian infectious bronchitis virus. Helicases catalyze NTP-dependent unwinding of nucleic acid duplexes into single strands and are classified based on the arrangement of conserved motifs into six superfamilies. Coronavirus (CoV) Nsp13 is a member of the helicase superfamily 1 (SF1); SF1 and SF2 helicases do not form toroidal structures, while SF3-6 helicases do. Nsp13 is a component of the viral RNA synthesis replication and transcription complex (RTC). It is a multidomain protein containing a Cys/His rich zinc-binding domain (CH/ZBD), a stalk domain, a 1B domain involved in nucleic acid substrate binding, and a SF1 helicase core.
Pssm-ID: 409653 [Multi-domain] Cd Length: 343 Bit Score: 41.06 E-value: 7.83e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2202 LILVGDPKQLP-PTVI---SMKAQEYgydqsmmarfcrlleeNVEHN-MISRLPILQLTVQYRMHPDICLFPSNYVYNRN 2276
Cdd:cd21720 146 VVYVGDPAQLPaPRTLlngSLSPKDY----------------NVVTNlMVCVKPDIFLAKCYRCPKEIVDTVSTLVYDGK 209
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1191017961 2277 LKTNrQTEAIRCssdwpFQpyLVFDVGDGSERRDNDSYINVQEIKLVMEIIKLIKDKRKDVsfrnigIITHYKAqktmiq 2356
Cdd:cd21720 210 FIAN-NPESRQC-----FK--VIVNNGNSDVGHESGSAYNTTQLEFVKDFVCRNKEWREAT------FISPYNA------ 269
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1191017961 2357 kdLDKEFDRKGPAEVDTVDAFQGRQKDCVIVtCVRANSIQGsigflASLQRLNVTITRAKYSLFIL 2422
Cdd:cd21720 270 --MNQRAYRMLGLNVQTVDSSQGSEYDYVIF-CVTADSQHA-----LNINRFNVALTRAKRGILVV 327
|
|
| |
