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Conserved domains on  [gi|568910968|ref|XP_006496961|]
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inactive phospholipase D5 isoform X5 [Mus musculus]

Protein Classification

PLDc_SF and PLDc_vPLD5_2 domain-containing protein( domain architecture ID 10332450)

PLDc_SF and PLDc_vPLD5_2 domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLDc_vPLD5_2 cd09149
Putative catalytic domain, repeat 2, of inactive veterbrate phospholipase PLD5; Putative ...
 146-339 5.40e-123

Putative catalytic domain, repeat 2, of inactive veterbrate phospholipase PLD5; Putative catalytic domain, repeat 2, of inactive veterbrate phospholipases D5 (PLD5, EC 3.1.4.4), homologs of the vaccinia virus protein K4 encoded by the HindIII K4L gene. Vertebrate PLD5 has been assigned to the PLD superfamily, since it shows high sequence similarity to other human homologs of protein K4, which contain two copies of the conserved HKD motif (H-x-K-x(4)-D, where x represents any amino acid residue). However, due to the lack of functionally important histidine and lysine residues in the HKD motif, vetebrate PLD5 has been characterized as an inactive PLD.


:

Pssm-ID: 197247  Cd Length: 188  Bit Score: 352.62  E-value: 5.40e-123
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 146 FVSNSPKLFCPKNRSFDIDAIYSVIDDAKQYVYIAVTDYLPISSTSSKRTYWPDLDGKIREALVLRSVKVRLLISFWKET 225
Cdd:cd09149    1 YVSTSPKLFCPKHRSNDLEAIYRVIQDAKQFIYISVMDYLPLLSRSYARRYWSRIDSKIREALVLRSVRVRLLISFWRKT 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 226 DPLTFNFISSLKAICTEIANCSLKVKFFDLERENACatkeqknqTFPKLNRNKYMVTDGAAYIGNFDWVGNDFTQNAGTG 305
Cdd:cd09149   81 DPLTFNFVSSLKSLCTEQANCSLEVKFFDLEEESDC--------TSPRLNRNKYMVTDGAAYIGNFDWVGNDFTQNAGVG 152

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 568910968 306 LVINQADV--RDNRSIIKQLKDVFERDWYSPYAKSI 339
Cdd:cd09149  153 LVINQADGveENNATIIEQLRAAFERDWYSNYAKSL 188
PLDc_SF super family cl15239
Catalytic domain of phospholipase D superfamily proteins; Catalytic domain of phospholipase D ...
 3-110 2.23e-67

Catalytic domain of phospholipase D superfamily proteins; Catalytic domain of phospholipase D (PLD) superfamily proteins. The PLD superfamily is composed of a large and diverse group of proteins including plant, mammalian and bacterial PLDs, bacterial cardiolipin (CL) synthases, bacterial phosphatidylserine synthases (PSS), eukaryotic phosphatidylglycerophosphate (PGP) synthase, eukaryotic tyrosyl-DNA phosphodiesterase 1 (Tdp1), and some bacterial endonucleases (Nuc and BfiI), among others. PLD enzymes hydrolyze phospholipid phosphodiester bonds to yield phosphatidic acid and a free polar head group. They can also catalyze the transphosphatidylation of phospholipids to acceptor alcohols. The majority of members in this superfamily contain a short conserved sequence motif (H-x-K-x(4)-D, where x represents any amino acid residue), called the HKD signature motif. There are varying expanded forms of this motif in different family members. Some members contain variant HKD motifs. Most PLD enzymes are monomeric proteins with two HKD motif-containing domains. Two HKD motifs from two domains form a single active site. Some PLD enzymes have only one copy of the HKD motif per subunit but form a functionally active dimer, which has a single active site at the dimer interface containing the two HKD motifs from both subunits. Different PLD enzymes may have evolved through domain fusion of a common catalytic core with separate substrate recognition domains. Despite their various catalytic functions and a very broad range of substrate specificities, the diverse group of PLD enzymes can bind to a phosphodiester moiety. Most of them are active as bi-lobed monomers or dimers, and may possess similar core structures for catalytic activity. They are generally thought to utilize a common two-step ping-pong catalytic mechanism, involving an enzyme-substrate intermediate, to cleave phosphodiester bonds. The two histidine residues from the two HKD motifs play key roles in the catalysis. Upon substrate binding, a histidine from one HKD motif could function as the nucleophile, attacking the phosphodiester bond to create a covalent phosphohistidine intermediate, while the other histidine residue from the second HKD motif could serve as a general acid, stabilizing the leaving group.


The actual alignment was detected with superfamily member cd09146:

Pssm-ID: 472788 [Multi-domain]  Cd Length: 163  Bit Score: 210.10  E-value: 2.23e-67
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968   3 GQRLFEKLLQLTSQNIEVKLVSDVTADSKVLEALKLKGAEVTYMNMTAYNKGRLQSSFWIVDKQHVYIGSAGLDWRSLGQ 82
Cdd:cd09146   56 GQRLFERLLGLASRGVELKIVSGITDSTEVLVLLKKKGAEVHYVNMTALTKGRLQSSFWIVDKRHVYIGSASMDWRSLGQ 135

                         90       100
                 ....*....|....*....|....*...
gi 568910968  83 MKELGVIFYNCSCLVLDLQRIFALYSSL 110
Cdd:cd09146  136 RKELGVIVYNCSCLALDLHRVFALYWSL 163
 
Name Accession Description Interval E-value
PLDc_vPLD5_2 cd09149
Putative catalytic domain, repeat 2, of inactive veterbrate phospholipase PLD5; Putative ...
 146-339 5.40e-123

Putative catalytic domain, repeat 2, of inactive veterbrate phospholipase PLD5; Putative catalytic domain, repeat 2, of inactive veterbrate phospholipases D5 (PLD5, EC 3.1.4.4), homologs of the vaccinia virus protein K4 encoded by the HindIII K4L gene. Vertebrate PLD5 has been assigned to the PLD superfamily, since it shows high sequence similarity to other human homologs of protein K4, which contain two copies of the conserved HKD motif (H-x-K-x(4)-D, where x represents any amino acid residue). However, due to the lack of functionally important histidine and lysine residues in the HKD motif, vetebrate PLD5 has been characterized as an inactive PLD.


Pssm-ID: 197247  Cd Length: 188  Bit Score: 352.62  E-value: 5.40e-123
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 146 FVSNSPKLFCPKNRSFDIDAIYSVIDDAKQYVYIAVTDYLPISSTSSKRTYWPDLDGKIREALVLRSVKVRLLISFWKET 225
Cdd:cd09149    1 YVSTSPKLFCPKHRSNDLEAIYRVIQDAKQFIYISVMDYLPLLSRSYARRYWSRIDSKIREALVLRSVRVRLLISFWRKT 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 226 DPLTFNFISSLKAICTEIANCSLKVKFFDLERENACatkeqknqTFPKLNRNKYMVTDGAAYIGNFDWVGNDFTQNAGTG 305
Cdd:cd09149   81 DPLTFNFVSSLKSLCTEQANCSLEVKFFDLEEESDC--------TSPRLNRNKYMVTDGAAYIGNFDWVGNDFTQNAGVG 152

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 568910968 306 LVINQADV--RDNRSIIKQLKDVFERDWYSPYAKSI 339
Cdd:cd09149  153 LVINQADGveENNATIIEQLRAAFERDWYSNYAKSL 188
PLDc_3 pfam13918
PLD-like domain;
79-258 9.33e-109

PLD-like domain;


Pssm-ID: 464040  Cd Length: 180  Bit Score: 316.18  E-value: 9.33e-109
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968   79 SLGQMKELGVIFYNCSCLVLDLQRIFALYSSLKFKSRVPQTWSKRLYGVYDNEKKLQLQLNETKSQAFVSNSPKLFCPKN 158
Cdd:pfam13918   1 SLGQIKELGLVFTNCKCLALDLMNIFALFSSLIFENKVPFTWSKRLCCAVDNEKALNFHLNESGGGAFFSDSPELFCGFN 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968  159 RSFDIDAIYSVIDDAKQYVYIAVTDYLPISSTSSKRTYWPDLDGKIREALVLRSVKVRLLISFWKETDPLTFNFISSLKA 238
Cdd:pfam13918  81 RSFDEDAILHRIDDAKLSIDIALLDMLPIIKHAGAREYWPDIDDAILEAAILRGVKVRLIISEWKEADPLSFNAARSLDA 160

                         170       180
                  ....*....|....*....|
gi 568910968  239 ICTEIANCSLKVKFFDLERE 258
Cdd:pfam13918 161 FCTEIANCDLKVKFFDLEGE 180
PHA02820 PHA02820
phospholipase-D-like protein; Provisional
 3-344 1.40e-72

phospholipase-D-like protein; Provisional


Pssm-ID: 222934 [Multi-domain]  Cd Length: 424  Bit Score: 232.19  E-value: 1.40e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968   3 GQRLFEKLLQLTSQNIEVKL-VSDVTADSKVLEALKLKGAEVTYMNMTAYNKGRLQSSFWIVDKQHVYIGSAGLDWRSLG 81
Cdd:PHA02820  60 GTMILNEIIQLPKRGVRVRIaVNKSNKPLKDVELLQMAGVEVRYIDITNILGGVLHTKFWISDNTHIYLGSANMDWRSLT 139

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968  82 QMKELGVIFYNCSCLVLDLQRIFALYSSLKFkSRVPQTWSKRLYGVYDNEKKLQLQLNETKSQAFVSNSPKLFCPKNRSF 161
Cdd:PHA02820 140 QVKELGIAIFNNSNLAADLTQIFEVYWYLGV-NNLPYNWKNFYPLYYNTDHPLSLNVSGVPHSVFIASAPQQLCTMERTN 218

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 162 DIDAIYSVIDDAKQYVYIAVTDYLP-ISSTSSKRTYWPDLDGKIREALVLRSVKVRLLISFWKETDPLTFNFISSLKAIC 240
Cdd:PHA02820 219 DLTALLSCIRNASKFVYVSVMNFIPiIYSKAGKILFWPYIEDELRRAAIDRKVSVKLLISCWQRSSFIMRNFLRSIAMLK 298

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 241 TEiaNCSLKVKFFdlerenaCATKEQKNQTFPKLNRNKYMVTDGAAYIGNFDWVGNDFTQNAGTGLVINQADVRDNRSii 320
Cdd:PHA02820 299 SK--NINIEVKLF-------IVPDADPPIPYSRVNHAKYMVTDKTAYIGTSNWTGNYFTDTCGVSINITPDDGLGLRQ-- 367

                        330       340
                 ....*....|....*....|....*..
gi 568910968 321 kQLKDVFERDWYSPYAKSI---QPTKQ 344
Cdd:PHA02820 368 -QLEDIFIRDWNSKYSYELydtSPTKR 393
PLDc_vPLD5_1 cd09146
Putative catalytic domain, repeat 1, of inactive veterbrate phospholipase PLD5; Putative ...
 3-110 2.23e-67

Putative catalytic domain, repeat 1, of inactive veterbrate phospholipase PLD5; Putative catalytic domain, repeat 1, of inactive veterbrate phospholipases D5 (PLD5, EC 3.1.4.4), homologs of the vaccinia virus protein K4 encoded by the HindIII K4L gene. Vertebrate PLD5 has been assigned to the PLD superfamily, since it shows high sequence similarity to other human homologs of protein K4, which contain two copies of the conserved HKD motif (H-x-K-x(4)-D, where x represents any amino acid residue). However, due to the lack of functionally important histidine and lysine residues in the HKD motif, vetebrate PLD5 has been characterized as an inactive PLD.


Pssm-ID: 197244 [Multi-domain]  Cd Length: 163  Bit Score: 210.10  E-value: 2.23e-67
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968   3 GQRLFEKLLQLTSQNIEVKLVSDVTADSKVLEALKLKGAEVTYMNMTAYNKGRLQSSFWIVDKQHVYIGSAGLDWRSLGQ 82
Cdd:cd09146   56 GQRLFERLLGLASRGVELKIVSGITDSTEVLVLLKKKGAEVHYVNMTALTKGRLQSSFWIVDKRHVYIGSASMDWRSLGQ 135

                         90       100
                 ....*....|....*....|....*...
gi 568910968  83 MKELGVIFYNCSCLVLDLQRIFALYSSL 110
Cdd:cd09146  136 RKELGVIVYNCSCLALDLHRVFALYWSL 163
Cls COG1502
Phosphatidylserine/phosphatidylglycerophosphate/cardiolipin synthase [Lipid transport and ...
 2-331 2.93e-09

Phosphatidylserine/phosphatidylglycerophosphate/cardiolipin synthase [Lipid transport and metabolism]; Phosphatidylserine/phosphatidylglycerophosphate/cardiolipin synthase is part of the Pathway/BioSystem: Phospholipid biosynthesis


Pssm-ID: 441111 [Multi-domain]  Cd Length: 367  Bit Score: 58.03  E-value: 2.93e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968   2 SGQRLFEKLLQLTSQNIEVKLVSD----VTADSKVLEALKLKGAEVTYMNMTAYNKGRLQSS----FWIVDKQHVYIGSA 73
Cdd:COG1502   53 VGRRLADALIAAARRGVKVRVLLDgigsRALNRDFLRRLRAAGVEVRLFNPVRLLFRRLNGRnhrkIVVIDGRVAFVGGA 132

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968  74 GLDWRSLGQMKELGViFYNCSCL-----VLDLQRIFALYsslkfksrvpqtWskrlYGVYDNEKKLQLQLNETKSQaFVS 148
Cdd:COG1502  133 NITDEYLGRDPGFGP-WRDTHVRiegpaVADLQAVFAED------------W----NFATGEALPFPEPAGDVRVQ-VVP 194

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 149 NSPKlfcpKNRSFDIDAIYSVIDDAKQYVYIAVTDYLPisstsskrtywpdlDGKIREALV---LRSVKVRLLISfwKET 225
Cdd:COG1502  195 SGPD----SPRETIERALLAAIASARRRIYIETPYFVP--------------DRSLLRALIaaaRRGVDVRILLP--AKS 254

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 226 D-PLTFnfiSSLKAICTEIANCSLKVKFFDlerenacatkeqknqtfPKLNRNKYMVTDGA-AYIG--NFDWVGndFTQN 301
Cdd:COG1502  255 DhPLVH---WASRSYYEELLEAGVRIYEYE-----------------PGFLHAKVMVVDDEwALVGsaNLDPRS--LRLN 312

                        330       340       350
                 ....*....|....*....|....*....|
gi 568910968 302 AGTGLVInqadvrDNRSIIKQLKDVFERDW 331
Cdd:COG1502  313 FEVNLVI------YDPEFAAQLRARFEEDL 336
PLDc smart00155
Phospholipase D. Active site motifs; Phosphatidylcholine-hydrolyzing phospholipase D (PLD) ...
 52-79 8.96e-05

Phospholipase D. Active site motifs; Phosphatidylcholine-hydrolyzing phospholipase D (PLD) isoforms are activated by ADP-ribosylation factors (ARFs). PLD produces phosphatidic acid from phosphatidylcholine, which may be essential for the formation of certain types of transport vesicles or may be constitutive vesicular transport to signal transduction pathways. PC-hydrolysing PLD is a homologue of cardiolipin synthase, phosphatidylserine synthase, bacterial PLDs, and viral proteins. Each of these appears to possess a domain duplication which is apparent by the presence of two motifs containing well-conserved histidine, lysine, aspartic acid, and/or asparagine residues which may contribute to the active site. An E. coli endonuclease (nuc) and similar proteins appear to be PLD homologues but possess only one of these motifs. The profile contained here represents only the putative active site regions, since an accurate multiple alignment of the repeat units has not been achieved.


Pssm-ID: 197546 [Multi-domain]  Cd Length: 28  Bit Score: 38.91  E-value: 8.96e-05
                           10        20
                   ....*....|....*....|....*...
gi 568910968    52 NKGRLQSSFWIVDKQHVYIGSAGLDWRS 79
Cdd:smart00155   1 YDGVLHTKLMIVDDEIAYIGSANLDGRS 28
PLDc pfam00614
Phospholipase D Active site motif; Phosphatidylcholine-hydrolysing phospholipase D (PLD) ...
 52-79 1.18e-03

Phospholipase D Active site motif; Phosphatidylcholine-hydrolysing phospholipase D (PLD) isoforms are activated by ADP-ribosylation factors (ARFs). PLD produces phosphatidic acid from phosphatidylcholine, which may be essential for the formation of certain types of transport vesicles or may be constitutive vesicular transport to signal transduction pathways. PC-hydrolysing PLD is a homolog of cardiolipin synthase, phosphatidylserine synthase, bacterial PLDs, and viral proteins. Each of these appears to possess a domain duplication which is apparent by the presence of two motifs containing well-conserved histidine, lysine, and/or asparagine residues which may contribute to the active site. aspartic acid. An E. coli endonuclease (nuc) and similar proteins appear to be PLD homologs but possess only one of these motifs. The profile contained here represents only the putative active site regions, since an accurate multiple alignment of the repeat units has not been achieved.


Pssm-ID: 395489 [Multi-domain]  Cd Length: 28  Bit Score: 35.86  E-value: 1.18e-03
                          10        20
                  ....*....|....*....|....*...
gi 568910968   52 NKGRLQSSFWIVDKQHVYIGSAGLDWRS 79
Cdd:pfam00614   1 YDGRLHRKIVVVDDELAYIGGANLDGRS 28
 
Name Accession Description Interval E-value
PLDc_vPLD5_2 cd09149
Putative catalytic domain, repeat 2, of inactive veterbrate phospholipase PLD5; Putative ...
 146-339 5.40e-123

Putative catalytic domain, repeat 2, of inactive veterbrate phospholipase PLD5; Putative catalytic domain, repeat 2, of inactive veterbrate phospholipases D5 (PLD5, EC 3.1.4.4), homologs of the vaccinia virus protein K4 encoded by the HindIII K4L gene. Vertebrate PLD5 has been assigned to the PLD superfamily, since it shows high sequence similarity to other human homologs of protein K4, which contain two copies of the conserved HKD motif (H-x-K-x(4)-D, where x represents any amino acid residue). However, due to the lack of functionally important histidine and lysine residues in the HKD motif, vetebrate PLD5 has been characterized as an inactive PLD.


Pssm-ID: 197247  Cd Length: 188  Bit Score: 352.62  E-value: 5.40e-123
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 146 FVSNSPKLFCPKNRSFDIDAIYSVIDDAKQYVYIAVTDYLPISSTSSKRTYWPDLDGKIREALVLRSVKVRLLISFWKET 225
Cdd:cd09149    1 YVSTSPKLFCPKHRSNDLEAIYRVIQDAKQFIYISVMDYLPLLSRSYARRYWSRIDSKIREALVLRSVRVRLLISFWRKT 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 226 DPLTFNFISSLKAICTEIANCSLKVKFFDLERENACatkeqknqTFPKLNRNKYMVTDGAAYIGNFDWVGNDFTQNAGTG 305
Cdd:cd09149   81 DPLTFNFVSSLKSLCTEQANCSLEVKFFDLEEESDC--------TSPRLNRNKYMVTDGAAYIGNFDWVGNDFTQNAGVG 152

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 568910968 306 LVINQADV--RDNRSIIKQLKDVFERDWYSPYAKSI 339
Cdd:cd09149  153 LVINQADGveENNATIIEQLRAAFERDWYSNYAKSL 188
PLDc_3 pfam13918
PLD-like domain;
79-258 9.33e-109

PLD-like domain;


Pssm-ID: 464040  Cd Length: 180  Bit Score: 316.18  E-value: 9.33e-109
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968   79 SLGQMKELGVIFYNCSCLVLDLQRIFALYSSLKFKSRVPQTWSKRLYGVYDNEKKLQLQLNETKSQAFVSNSPKLFCPKN 158
Cdd:pfam13918   1 SLGQIKELGLVFTNCKCLALDLMNIFALFSSLIFENKVPFTWSKRLCCAVDNEKALNFHLNESGGGAFFSDSPELFCGFN 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968  159 RSFDIDAIYSVIDDAKQYVYIAVTDYLPISSTSSKRTYWPDLDGKIREALVLRSVKVRLLISFWKETDPLTFNFISSLKA 238
Cdd:pfam13918  81 RSFDEDAILHRIDDAKLSIDIALLDMLPIIKHAGAREYWPDIDDAILEAAILRGVKVRLIISEWKEADPLSFNAARSLDA 160

                         170       180
                  ....*....|....*....|
gi 568910968  239 ICTEIANCSLKVKFFDLERE 258
Cdd:pfam13918 161 FCTEIANCDLKVKFFDLEGE 180
PLDc_vPLD3_4_5_like_2 cd09107
Putative catalytic domain, repeat 2, of vertebrate phospholipases, PLD3, PLD4 and PLD5, viral ...
 146-332 4.36e-75

Putative catalytic domain, repeat 2, of vertebrate phospholipases, PLD3, PLD4 and PLD5, viral envelope proteins K4 and p37, and similar proteins; Putative catalytic domain, repeat 2, of vertebrate phospholipases D, PLD3, PLD4, and PLD5 (EC 3.1.4.4), viral envelope proteins (vaccinia virus proteins K4 and p37), and similar proteins. Most family members contain two copies of the HKD motifs (H-x-K-x(4)-D, where x represents any amino acid residue), and have been classified into the phospholipase D (PLD) superfamily. Proteins in this subfamily are associated with Golgi membranes, altering their lipid content by the conversion of phospholipids into phosphatidic acid, which is thought to be involved in the regulation of lipid movement. ADP ribosylation factor (ARF), a small guanosine triphosphate binding protein, might be required activity. The vaccinia virus p37 protein, encoded by the F13L gene, is also associated with Golgi membranes and is required for the envelopment and spread of the extracellular enveloped virus (EEV). The vaccinia virus protein K4, encoded by the HindIII K4L gene, remains to be characterized. Sequence analysis indicates that the vaccinia virus proteins K4 and p37 might have evolved from one or more captured eukaryotic genes involved in cellular lipid metabolism. Up to date, no catalytic activity of PLD3 has been shown. Furthermore, due to the lack of functional important histidine and lysine residues in the HKD motif, mammalian PLD5 has been characterized as an inactive PLD. The poxvirus p37 proteins may also lack PLD enzymatic activity, since they contain only one partially conserved HKD motif (N-x-K-x(4)-D).


Pssm-ID: 197206 [Multi-domain]  Cd Length: 175  Bit Score: 230.22  E-value: 4.36e-75
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 146 FVSNSPKLFCPKNRSFDIDAIYSVIDDAKQYVYIAVTDYLPISSTSSKRTYWPDLDGKIREALVLRSVKVRLLISFWKET 225
Cdd:cd09107    1 FLSSSPPELCPPGRTDDLDALLSTIDSAKKFIDISVMDYVPLSRYADPRKYWPVIDNALRRAAVDRGVKVRLLVSNWKHT 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 226 DPLTFNFISSLKAICTEIANCSLKVKFFDLERENACatkeqkNQTFPKLNRNKYMVTDGAAYIGNFDWVGNDFTQNAGTG 305
Cdd:cd09107   81 DPSMDAFLKSLQLLKSGVGNGDIEVKIFTVPGDQST------KIPFARVNHAKYMVTDERAYIGTSNWSGDYFYNTAGVS 154

                        170       180
                 ....*....|....*....|....*..
gi 568910968 306 LVINQADVRdnrsiiKQLKDVFERDWY 332
Cdd:cd09107  155 LVINDPAIV------QQLKDVFERDWN 175
PHA02820 PHA02820
phospholipase-D-like protein; Provisional
 3-344 1.40e-72

phospholipase-D-like protein; Provisional


Pssm-ID: 222934 [Multi-domain]  Cd Length: 424  Bit Score: 232.19  E-value: 1.40e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968   3 GQRLFEKLLQLTSQNIEVKL-VSDVTADSKVLEALKLKGAEVTYMNMTAYNKGRLQSSFWIVDKQHVYIGSAGLDWRSLG 81
Cdd:PHA02820  60 GTMILNEIIQLPKRGVRVRIaVNKSNKPLKDVELLQMAGVEVRYIDITNILGGVLHTKFWISDNTHIYLGSANMDWRSLT 139

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968  82 QMKELGVIFYNCSCLVLDLQRIFALYSSLKFkSRVPQTWSKRLYGVYDNEKKLQLQLNETKSQAFVSNSPKLFCPKNRSF 161
Cdd:PHA02820 140 QVKELGIAIFNNSNLAADLTQIFEVYWYLGV-NNLPYNWKNFYPLYYNTDHPLSLNVSGVPHSVFIASAPQQLCTMERTN 218

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 162 DIDAIYSVIDDAKQYVYIAVTDYLP-ISSTSSKRTYWPDLDGKIREALVLRSVKVRLLISFWKETDPLTFNFISSLKAIC 240
Cdd:PHA02820 219 DLTALLSCIRNASKFVYVSVMNFIPiIYSKAGKILFWPYIEDELRRAAIDRKVSVKLLISCWQRSSFIMRNFLRSIAMLK 298

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 241 TEiaNCSLKVKFFdlerenaCATKEQKNQTFPKLNRNKYMVTDGAAYIGNFDWVGNDFTQNAGTGLVINQADVRDNRSii 320
Cdd:PHA02820 299 SK--NINIEVKLF-------IVPDADPPIPYSRVNHAKYMVTDKTAYIGTSNWTGNYFTDTCGVSINITPDDGLGLRQ-- 367

                        330       340
                 ....*....|....*....|....*..
gi 568910968 321 kQLKDVFERDWYSPYAKSI---QPTKQ 344
Cdd:PHA02820 368 -QLEDIFIRDWNSKYSYELydtSPTKR 393
PLDc_vPLD5_1 cd09146
Putative catalytic domain, repeat 1, of inactive veterbrate phospholipase PLD5; Putative ...
 3-110 2.23e-67

Putative catalytic domain, repeat 1, of inactive veterbrate phospholipase PLD5; Putative catalytic domain, repeat 1, of inactive veterbrate phospholipases D5 (PLD5, EC 3.1.4.4), homologs of the vaccinia virus protein K4 encoded by the HindIII K4L gene. Vertebrate PLD5 has been assigned to the PLD superfamily, since it shows high sequence similarity to other human homologs of protein K4, which contain two copies of the conserved HKD motif (H-x-K-x(4)-D, where x represents any amino acid residue). However, due to the lack of functionally important histidine and lysine residues in the HKD motif, vetebrate PLD5 has been characterized as an inactive PLD.


Pssm-ID: 197244 [Multi-domain]  Cd Length: 163  Bit Score: 210.10  E-value: 2.23e-67
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968   3 GQRLFEKLLQLTSQNIEVKLVSDVTADSKVLEALKLKGAEVTYMNMTAYNKGRLQSSFWIVDKQHVYIGSAGLDWRSLGQ 82
Cdd:cd09146   56 GQRLFERLLGLASRGVELKIVSGITDSTEVLVLLKKKGAEVHYVNMTALTKGRLQSSFWIVDKRHVYIGSASMDWRSLGQ 135

                         90       100
                 ....*....|....*....|....*...
gi 568910968  83 MKELGVIFYNCSCLVLDLQRIFALYSSL 110
Cdd:cd09146  136 RKELGVIVYNCSCLALDLHRVFALYWSL 163
PLDc_vPLD3_2 cd09147
Putative catalytic domain, repeat 2, of vertebrate phospholipase PLD3; Putative catalytic ...
 146-336 1.44e-58

Putative catalytic domain, repeat 2, of vertebrate phospholipase PLD3; Putative catalytic domain, repeat 2, of phospholipase D3 (PLD3, EC 3.1.4.4). The human protein is also known as Hu-K4 or HUK4 and it was identified as a human homolog of the vaccinia virus protein K4, which is encoded by the HindIII K4L gene. PLD3 is found in many human organs with highest expression levels found in the central nervous system. Due to the presence of two copies of the conserved HKD motif (H-x-K-x(4)-D, where x represents any amino acid residue), PLD3 has been assigned to the PLD superfamily although no catalytic activity has been detected experimentally. PLD3 is a membrane-bound protein that colocalizes with protein disulfide isomerase, an endoplasmic reticulum (ER) protein. Like other homologs of protein K4, PLD3 might alter the lipid content of associated membranes by selectively hydrolyzing phosphatidylcholine (PC) into the corresponding phosphatidic acid, which is thought to be involved in the regulation of lipid movement.


Pssm-ID: 197245  Cd Length: 186  Bit Score: 188.25  E-value: 1.44e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 146 FVSNSPKLFCPKNRSFDIDAIYSVIDDAKQYVYIAVTDYLPISSTSSKRTYWPDLDGKIREALVLRSVKVRLLISFWKET 225
Cdd:cd09147    1 YLSSSPPPLCASGRTPDLQSILNVIDNARSFVYIAVMNYLPTLEFSHPHRYWPAIDDGLRRATYERGVKVRLLISCWGHS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 226 DPLTFNFISSLKAICTEIANCSLKVKFFDLErenacATKEQKNQTFPKLNRNKYMVTDGAAYIGNFDWVGNDFTQNAGTG 305
Cdd:cd09147   81 EPSMFAFLRSLAALRDNTTHSDIQVKIFVVP-----ADEAQKKIPYARVNHNKYMVTDRVAYIGTSNWSGDYFTNTAGSA 155

                        170       180       190
                 ....*....|....*....|....*....|.
gi 568910968 306 LVINQADVRDNRSIIKQLKDVFERDWYSPYA 336
Cdd:cd09147  156 LVVNQTGRSASGTLQSQLQAVFERDWDSPYS 186
PLDc_vPLD4_2 cd09148
Putative catalytic domain, repeat 2, of vertebrate phospholipase PLD4; Putative catalytic ...
 146-336 7.20e-54

Putative catalytic domain, repeat 2, of vertebrate phospholipase PLD4; Putative catalytic domain, repeat 2, of vertebrate phospholipases D4 (PLD4, EC 3.1.4.4), homologs of the vaccinia virus protein K4 which is encoded by the HindIII K4L gene. Due to the presence of two copies of the conserved HKD motif (H-x-K-x(4)-D, where x represents any amino acid residue), PLD4 has been assigned to PLD superfamily although no catalytic activity has been detected to date. Unlike PLD1 and PLD2, PLD4 does not contain Phox (PX) and Pleckstrin homology (PH) domains but has a putative transmembrane domain. Like other vertebrate homologs of protein K4, PLD4 might be associated with Golgi membranes and alter their lipid content by selectively hydrolyze phosphatidylcholine (PC) into corresponding phosphatidic acid, which is thought to be involved in the regulation of lipid movement.


Pssm-ID: 197246  Cd Length: 187  Bit Score: 176.19  E-value: 7.20e-54
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 146 FVSNSPKLFCPKNRSFDIDAIYSVIDDAKQYVYIAVTDYLPISSTSSKRTYWPDLDGKIREALVLRSVKVRLLISFWKET 225
Cdd:cd09148    1 YLSASPPALCPTGRTSDLQAILSVISQAQEFIYISVMEYFPTCRFCHPKRYWSVLDNALRAAAFDRRVLIRLLISCGRHS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 226 DPLTFNFISSLKAICTEIANCSLKVKFFdlerenACATKEQKNQTFPKLNRNKYMVTDGAAYIGNFDWVGNDFTQNAGTG 305
Cdd:cd09148   81 DPDMFPFLRSLNALSNPPLSISVHVKLF------IVPVGNQTNIPYSRVNHNKFMVTDKAAYIGTSNWSEDYFLNTAGVG 154

                        170       180       190
                 ....*....|....*....|....*....|...
gi 568910968 306 LVINQA--DVRDNRSIIKQLKDVFERDWYSPYA 336
Cdd:cd09148  155 LVILQSpgANEEMLPVQEQLRSLFERDWSSPYA 187
PHA03003 PHA03003
palmytilated EEV membrane glycoprotein; Provisional
 3-339 6.22e-46

palmytilated EEV membrane glycoprotein; Provisional


Pssm-ID: 177506 [Multi-domain]  Cd Length: 369  Bit Score: 160.99  E-value: 6.22e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968   3 GQRLFEKLLQLTSQNIEVKLVSDVTADSKVLEalKLKGAEVTYMNM---TAYNKGRLQSSFWIVDKQHVYIGSAGLDWRS 79
Cdd:PHA03003  62 GRLILDKLKEAAESGVKVTILVDEQSGDKDEE--ELQSSNINYIKVdigKLNNVGVLLGSFWVSDDRRCYIGNASLTGGS 139

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968  80 LGQMKELGvIFYNCSCLVLDLQRIFALYSSLkfkSRVPQTWSkRLYGVYDNEKKLQLQLNETKSQAFVSNSPKLFCPKNR 159
Cdd:PHA03003 140 ISTIKTLG-VYSTYPPLATDLRRRFDTFKAF---NKNKSVFN-RLCCACCLPVSTKYHINNPIGGVFFSDSPEHLLGYSR 214

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 160 SFDIDAIYSVIDDAKQYVYIAVTDYLPISSTSSKRTYWPDLDGKIREALVLRSVKVRLLISFWKETDPLTFNFISSLKAI 239
Cdd:PHA03003 215 TLDADVVLHKIKSAKKSIDLELLSLVPVIREDDKTTYWPDIYNALIRAAINRGVKVRLLVGSWKKNDVYSMASVKSLQAL 294

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 240 CTeiaNCSLKVKFFdlerenacatkeqknqTFPklNRNKYMVTDGA-AYI--GNFDwvGNDFTQNAGTGLviNQADvrdn 316
Cdd:PHA03003 295 CV---GNDLSVKVF----------------RIP--NNTKLLIVDDEfAHItsANFD--GTHYLHHAFVSF--NTID---- 345

                        330       340
                 ....*....|....*....|...
gi 568910968 317 RSIIKQLKDVFERDWYSPYAKSI 339
Cdd:PHA03003 346 KELVKELSAIFERDWTSSYSKPL 368
PLDc_vPLD3_4_5_like_1 cd09106
Putative catalytic domain, repeat 1, of vertebrate phospholipases, PLD3, PLD4 and PLD5, viral ...
 3-93 1.52e-33

Putative catalytic domain, repeat 1, of vertebrate phospholipases, PLD3, PLD4 and PLD5, viral envelope proteins K4 and p37, and similar proteins; Putative catalytic domain, repeat 1, of vertebrate phospholipases D, PLD3, PLD4, and PLD5 (EC 3.1.4.4), viral envelope proteins (vaccinia virus proteins K4 and p37), and similar proteins. Most family members contain two copies of the HKD motifs (H-x-K-x(4)-D, where x represents any amino acid residue), and have been classified into the phospholipase D (PLD) superfamily. Proteins in this subfamily are associated with Golgi membranes, altering their lipid content by the conversion of phospholipids into phosphatidic acid, which is thought to be involved in the regulation of lipid movement. ADP ribosylation factor (ARF), a small guanosine triphosphate binding protein, might be required activity. The vaccinia virus p37 protein, encoded by the F13L gene, is also associated with Golgi membranes and is required for the envelopment and spread of the extracellular enveloped virus (EEV). The vaccinia virus protein K4, encoded by the HindIII K4L gene, remains to be characterized. Sequence analysis indicates that the vaccinia virus proteins K4 and p37 might have evolved from one or more captured eukaryotic genes involved in cellular lipid metabolism. Up to date, no catalytic activity of PLD3 has been shown. Furthermore, due to the lack of functional important histidine and lysine residues in the HKD motif, mammalian PLD5 has been characterized as an inactive PLD. The poxvirus p37 proteins may also lack PLD enzymatic activity, since they contain only one partially conserved HKD motif (N-x-K-x(4)-D).


Pssm-ID: 197205 [Multi-domain]  Cd Length: 153  Bit Score: 121.97  E-value: 1.52e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968   3 GQRLFEKLLQLTSQNIEVKLVSDVTADSK----VLEALKLKGAEVTYMNMT-AYNKGRLQSSFWIVDKQHVYIGSAGLDW 77
Cdd:cd09106   58 GEDIFNALLEAAKRGVKIRILQDKPSKDKpdedDLELAALGGAEVRSLDFTkLIGGGVLHTKFWIVDGKHFYLGSANLDW 137

                         90
                 ....*....|....*.
gi 568910968  78 RSLGQMKELGVIFYNC 93
Cdd:cd09106  138 RSLTQVKELGVYIYNC 153
PLDc_vPLD3_1 cd09144
Putative catalytic domain, repeat 1, of vertebrate phospholipase PLD3; Putative catalytic ...
 3-107 3.84e-30

Putative catalytic domain, repeat 1, of vertebrate phospholipase PLD3; Putative catalytic domain, repeat 1, of phospholipase D3 (PLD3, EC 3.1.4.4). The human protein is also known as Hu-K4 or HUK4 and it was identified as a human homolog of the vaccinia virus protein K4, which is encoded by the HindIII K4L gene. PLD3 is found in many human organs with highest expression levels found in the central nervous system. Due to the presence of two copies of the conserved HKD motif (H-x-K-x(4)-D, where x represents any amino acid residue), PLD3 has been assigned to the PLD superfamily although no catalytic activity has been detected experimentally. PLD3 is a membrane-bound protein that colocalizes with protein disulfide isomerase, an endoplasmic reticulum (ER) protein. Like other homologs of protein K4, PLD3 might alter the lipid content of associated membranes by selectively hydrolyzing phosphatidylcholine (PC) into the corresponding phosphatidic acid, which is thought to be involved in the regulation of lipid movement.


Pssm-ID: 197242 [Multi-domain]  Cd Length: 172  Bit Score: 113.51  E-value: 3.84e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968   3 GQRLFEKLLQLTSQNIEVKLVSDVTAD---SKVLEALKLKGAEVTYMNMTAYNKGRLQSSFWIVDKQHVYIGSAGLDWRS 79
Cdd:cd09144   61 GEQILKKLGQLSQSGVYVRIAVDKPADpkpMEDINALSSYGADVRMVDMRKLTTGVLHTKFWVVDKKHFYIGSANMDWRS 140

                         90       100
                 ....*....|....*....|....*...
gi 568910968  80 LGQMKELGVIFYNCSCLVLDLQRIFALY 107
Cdd:cd09144  141 LTQVKELGAVVYNCSCLAEDLGKIFEAY 168
PLDc_vPLD4_1 cd09145
Putative catalytic domain, repeat 1, of vertebrate phospholipase PLD4; Putative catalytic ...
 3-107 2.81e-29

Putative catalytic domain, repeat 1, of vertebrate phospholipase PLD4; Putative catalytic domain, repeat 1, of vertebrate phospholipases D4 (PLD4, EC 3.1.4.4), homologs of the vaccinia virus protein K4 which is encoded by the HindIII K4L gene. Due to the presence of two copies of the conserved HKD motif (H-x-K-x(4)-D, where x represents any amino acid residue), PLD4 has been assigned to PLD superfamily although no catalytic activity has been detected to date. Unlike PLD1 and PLD2, PLD4 does not contain Phox (PX) and Pleckstrin homology (PH) domains but has a putative transmembrane domain. Like other vertebrate homologs of protein K4, PLD4 might be associated with Golgi membranes and alter their lipid content by selectively hydrolyze phosphatidylcholine (PC) into corresponding phosphatidic acid, which is thought to be involved in the regulation of lipid movement.


Pssm-ID: 197243 [Multi-domain]  Cd Length: 170  Bit Score: 111.15  E-value: 2.81e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968   3 GQRLFEKLLQLTSQNIEVKL---VSDVTADSKVLEALKLKGAEVTYMNMTAYNKGRLQSSFWIVDKQHVYIGSAGLDWRS 79
Cdd:cd09145   60 GEDILKELAELLSRNVSVRAaasIPTLAANSTDLKILRQKGAHVRKVNFGRLTGGVLHSKFWIIDKKHIYVGSANMDWRS 139

                         90       100
                 ....*....|....*....|....*...
gi 568910968  80 LGQMKELGVIFYNCSCLVLDLQRIFALY 107
Cdd:cd09145  140 LTQVKELGAVIYNCSSLAKDLHKTFQTY 167
Cls COG1502
Phosphatidylserine/phosphatidylglycerophosphate/cardiolipin synthase [Lipid transport and ...
 2-331 2.93e-09

Phosphatidylserine/phosphatidylglycerophosphate/cardiolipin synthase [Lipid transport and metabolism]; Phosphatidylserine/phosphatidylglycerophosphate/cardiolipin synthase is part of the Pathway/BioSystem: Phospholipid biosynthesis


Pssm-ID: 441111 [Multi-domain]  Cd Length: 367  Bit Score: 58.03  E-value: 2.93e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968   2 SGQRLFEKLLQLTSQNIEVKLVSD----VTADSKVLEALKLKGAEVTYMNMTAYNKGRLQSS----FWIVDKQHVYIGSA 73
Cdd:COG1502   53 VGRRLADALIAAARRGVKVRVLLDgigsRALNRDFLRRLRAAGVEVRLFNPVRLLFRRLNGRnhrkIVVIDGRVAFVGGA 132

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968  74 GLDWRSLGQMKELGViFYNCSCL-----VLDLQRIFALYsslkfksrvpqtWskrlYGVYDNEKKLQLQLNETKSQaFVS 148
Cdd:COG1502  133 NITDEYLGRDPGFGP-WRDTHVRiegpaVADLQAVFAED------------W----NFATGEALPFPEPAGDVRVQ-VVP 194

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 149 NSPKlfcpKNRSFDIDAIYSVIDDAKQYVYIAVTDYLPisstsskrtywpdlDGKIREALV---LRSVKVRLLISfwKET 225
Cdd:COG1502  195 SGPD----SPRETIERALLAAIASARRRIYIETPYFVP--------------DRSLLRALIaaaRRGVDVRILLP--AKS 254

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 226 D-PLTFnfiSSLKAICTEIANCSLKVKFFDlerenacatkeqknqtfPKLNRNKYMVTDGA-AYIG--NFDWVGndFTQN 301
Cdd:COG1502  255 DhPLVH---WASRSYYEELLEAGVRIYEYE-----------------PGFLHAKVMVVDDEwALVGsaNLDPRS--LRLN 312

                        330       340       350
                 ....*....|....*....|....*....|
gi 568910968 302 AGTGLVInqadvrDNRSIIKQLKDVFERDW 331
Cdd:COG1502  313 FEVNLVI------YDPEFAAQLRARFEEDL 336
PLDc_SF cd00138
Catalytic domain of phospholipase D superfamily proteins; Catalytic domain of phospholipase D ...
 1-90 2.83e-07

Catalytic domain of phospholipase D superfamily proteins; Catalytic domain of phospholipase D (PLD) superfamily proteins. The PLD superfamily is composed of a large and diverse group of proteins including plant, mammalian and bacterial PLDs, bacterial cardiolipin (CL) synthases, bacterial phosphatidylserine synthases (PSS), eukaryotic phosphatidylglycerophosphate (PGP) synthase, eukaryotic tyrosyl-DNA phosphodiesterase 1 (Tdp1), and some bacterial endonucleases (Nuc and BfiI), among others. PLD enzymes hydrolyze phospholipid phosphodiester bonds to yield phosphatidic acid and a free polar head group. They can also catalyze the transphosphatidylation of phospholipids to acceptor alcohols. The majority of members in this superfamily contain a short conserved sequence motif (H-x-K-x(4)-D, where x represents any amino acid residue), called the HKD signature motif. There are varying expanded forms of this motif in different family members. Some members contain variant HKD motifs. Most PLD enzymes are monomeric proteins with two HKD motif-containing domains. Two HKD motifs from two domains form a single active site. Some PLD enzymes have only one copy of the HKD motif per subunit but form a functionally active dimer, which has a single active site at the dimer interface containing the two HKD motifs from both subunits. Different PLD enzymes may have evolved through domain fusion of a common catalytic core with separate substrate recognition domains. Despite their various catalytic functions and a very broad range of substrate specificities, the diverse group of PLD enzymes can bind to a phosphodiester moiety. Most of them are active as bi-lobed monomers or dimers, and may possess similar core structures for catalytic activity. They are generally thought to utilize a common two-step ping-pong catalytic mechanism, involving an enzyme-substrate intermediate, to cleave phosphodiester bonds. The two histidine residues from the two HKD motifs play key roles in the catalysis. Upon substrate binding, a histidine from one HKD motif could function as the nucleophile, attacking the phosphodiester bond to create a covalent phosphohistidine intermediate, while the other histidine residue from the second HKD motif could serve as a general acid, stabilizing the leaving group.


Pssm-ID: 197200 [Multi-domain]  Cd Length: 119  Bit Score: 48.67  E-value: 2.83e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968   1 MSGQRLFEKLLQLTSQNIEVKLVSD------VTADSKVLEALKLKGAEVTYMNMTAYNKGRLQSSFWIVDKQHVYIGSAG 74
Cdd:cd00138   24 NSADRLLKALLAAAERGVDVRLIIDkppnaaGSLSAALLEALLRAGVNVRSYVTPPHFFERLHAKVVVIDGEVAYVGSAN 103

                         90
                 ....*....|....*.
gi 568910968  75 LDWRSLGQMKELGVIF 90
Cdd:cd00138  104 LSTASAAQNREAGVLV 119
PLDc_2 pfam13091
PLD-like domain;
170-331 1.37e-05

PLD-like domain;


Pssm-ID: 463784 [Multi-domain]  Cd Length: 132  Bit Score: 44.21  E-value: 1.37e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968  170 IDDAKQYVYIAVtdylPISSTSskrtywPDLDGKIREALvLRSVKVRLLISFWKETDPltFNFISSLKAIcTEIANCSLK 249
Cdd:pfam13091   5 INSAKKSIDIAT----YYFVPD------REIIDALIAAA-KRGVDVRIILDSNKDDAG--GPKKASLKEL-RSLLRAGVE 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968  250 VKFFdlerenacatkeqknQTFPKLNRNKYMVTDGA-AYIGNFDWVGNDFTQNAGTGLVInqadvrDNRSIIKQLKDVFE 328
Cdd:pfam13091  71 IREY---------------QSFLRSMHAKFYIIDGKtVIVGSANLTRRALRLNLENNVVI------KDPELAQELEKEFD 129


                  ...
gi 568910968  329 RDW 331
Cdd:pfam13091 130 RLW 132
PLDc_SF cd00138
Catalytic domain of phospholipase D superfamily proteins; Catalytic domain of phospholipase D ...
 164-308 4.43e-05

Catalytic domain of phospholipase D superfamily proteins; Catalytic domain of phospholipase D (PLD) superfamily proteins. The PLD superfamily is composed of a large and diverse group of proteins including plant, mammalian and bacterial PLDs, bacterial cardiolipin (CL) synthases, bacterial phosphatidylserine synthases (PSS), eukaryotic phosphatidylglycerophosphate (PGP) synthase, eukaryotic tyrosyl-DNA phosphodiesterase 1 (Tdp1), and some bacterial endonucleases (Nuc and BfiI), among others. PLD enzymes hydrolyze phospholipid phosphodiester bonds to yield phosphatidic acid and a free polar head group. They can also catalyze the transphosphatidylation of phospholipids to acceptor alcohols. The majority of members in this superfamily contain a short conserved sequence motif (H-x-K-x(4)-D, where x represents any amino acid residue), called the HKD signature motif. There are varying expanded forms of this motif in different family members. Some members contain variant HKD motifs. Most PLD enzymes are monomeric proteins with two HKD motif-containing domains. Two HKD motifs from two domains form a single active site. Some PLD enzymes have only one copy of the HKD motif per subunit but form a functionally active dimer, which has a single active site at the dimer interface containing the two HKD motifs from both subunits. Different PLD enzymes may have evolved through domain fusion of a common catalytic core with separate substrate recognition domains. Despite their various catalytic functions and a very broad range of substrate specificities, the diverse group of PLD enzymes can bind to a phosphodiester moiety. Most of them are active as bi-lobed monomers or dimers, and may possess similar core structures for catalytic activity. They are generally thought to utilize a common two-step ping-pong catalytic mechanism, involving an enzyme-substrate intermediate, to cleave phosphodiester bonds. The two histidine residues from the two HKD motifs play key roles in the catalysis. Upon substrate binding, a histidine from one HKD motif could function as the nucleophile, attacking the phosphodiester bond to create a covalent phosphohistidine intermediate, while the other histidine residue from the second HKD motif could serve as a general acid, stabilizing the leaving group.


Pssm-ID: 197200 [Multi-domain]  Cd Length: 119  Bit Score: 42.50  E-value: 4.43e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 164 DAIYSVIDDAKQYVYIAvTDYLpisstsSKRTYWPDLDGKIreALVLRSVKVRLLIsfwketDPLTFNFISSLKAICTEI 243
Cdd:cd00138    1 EALLELLKNAKESIFIA-TPNF------SFNSADRLLKALL--AAAERGVDVRLII------DKPPNAAGSLSAALLEAL 65

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 568910968 244 ANCSLKVKFFDLEREnacatkeqknqtFPKLNRNKYMVTDGA-AYIGNFDWVGNDFTQNAGTGLVI 308
Cdd:cd00138   66 LRAGVNVRSYVTPPH------------FFERLHAKVVVIDGEvAYVGSANLSTASAAQNREAGVLV 119
PLDc smart00155
Phospholipase D. Active site motifs; Phosphatidylcholine-hydrolyzing phospholipase D (PLD) ...
 52-79 8.96e-05

Phospholipase D. Active site motifs; Phosphatidylcholine-hydrolyzing phospholipase D (PLD) isoforms are activated by ADP-ribosylation factors (ARFs). PLD produces phosphatidic acid from phosphatidylcholine, which may be essential for the formation of certain types of transport vesicles or may be constitutive vesicular transport to signal transduction pathways. PC-hydrolysing PLD is a homologue of cardiolipin synthase, phosphatidylserine synthase, bacterial PLDs, and viral proteins. Each of these appears to possess a domain duplication which is apparent by the presence of two motifs containing well-conserved histidine, lysine, aspartic acid, and/or asparagine residues which may contribute to the active site. An E. coli endonuclease (nuc) and similar proteins appear to be PLD homologues but possess only one of these motifs. The profile contained here represents only the putative active site regions, since an accurate multiple alignment of the repeat units has not been achieved.


Pssm-ID: 197546 [Multi-domain]  Cd Length: 28  Bit Score: 38.91  E-value: 8.96e-05
                           10        20
                   ....*....|....*....|....*...
gi 568910968    52 NKGRLQSSFWIVDKQHVYIGSAGLDWRS 79
Cdd:smart00155   1 YDGVLHTKLMIVDDEIAYIGSANLDGRS 28
PLDc_unchar1_2 cd09128
Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; ...
 163-331 9.02e-05

Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Putative catalytic domain, repeat 2, of uncharacterized phospholipase D (PLD, EC 3.1.4.4)-like proteins. PLD enzymes hydrolyze phospholipid phosphodiester bonds to yield phosphatidic acid and a free polar head group. They can also catalyze transphosphatidylation of phospholipids to acceptor alcohols. Members of this subfamily contain two HKD motifs (H-x-K-x(4)-D, where x represents any amino acid residue) that characterizes the PLD superfamily. The two motifs may be part of the active site and may be involved in phosphatidyl group transfer.


Pssm-ID: 197226 [Multi-domain]  Cd Length: 142  Bit Score: 42.26  E-value: 9.02e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 163 IDAIYSVIDDAKQYVYIAVTDYLPisstsskrtywpdlDGKIREALV---LRSVKVRLLI-SFWKETDPlTFNFISSLKA 238
Cdd:cd09128   12 REALLALIDSAEESLLIQNEEMGD--------------DAPILDALVdaaKRGVDVRVLLpSAWSAEDE-RQARLRALEG 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968 239 IcteiancSLKVKFFDlerenacatkeqknQTFPKLNrNKYMVTDG-AAYIGNFDWVGNDFTQNAGTGLVInqadvrDNR 317
Cdd:cd09128   77 A-------GVPVRLLK--------------DKFLKIH-AKGIVVDGkTALVGSENWSANSLDRNREVGLIF------DDP 128

                        170
                 ....*....|....
gi 568910968 318 SIIKQLKDVFERDW 331
Cdd:cd09128  129 EVAAYLQAVFESDW 142
PLDc pfam00614
Phospholipase D Active site motif; Phosphatidylcholine-hydrolysing phospholipase D (PLD) ...
 52-79 1.18e-03

Phospholipase D Active site motif; Phosphatidylcholine-hydrolysing phospholipase D (PLD) isoforms are activated by ADP-ribosylation factors (ARFs). PLD produces phosphatidic acid from phosphatidylcholine, which may be essential for the formation of certain types of transport vesicles or may be constitutive vesicular transport to signal transduction pathways. PC-hydrolysing PLD is a homolog of cardiolipin synthase, phosphatidylserine synthase, bacterial PLDs, and viral proteins. Each of these appears to possess a domain duplication which is apparent by the presence of two motifs containing well-conserved histidine, lysine, and/or asparagine residues which may contribute to the active site. aspartic acid. An E. coli endonuclease (nuc) and similar proteins appear to be PLD homologs but possess only one of these motifs. The profile contained here represents only the putative active site regions, since an accurate multiple alignment of the repeat units has not been achieved.


Pssm-ID: 395489 [Multi-domain]  Cd Length: 28  Bit Score: 35.86  E-value: 1.18e-03
                          10        20
                  ....*....|....*....|....*...
gi 568910968   52 NKGRLQSSFWIVDKQHVYIGSAGLDWRS 79
Cdd:pfam00614   1 YDGRLHRKIVVVDDELAYIGGANLDGRS 28
PLDc_2 pfam13091
PLD-like domain;
2-104 1.44e-03

PLD-like domain;


Pssm-ID: 463784 [Multi-domain]  Cd Length: 132  Bit Score: 38.43  E-value: 1.44e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568910968    2 SGQRLFEKLLQLTSQNIEVKLVSDVTADS---------KVLEALKLKGAEVTYMNMTAynkGRLQSSFWIVDKQHVYIGS 72
Cdd:pfam13091  21 PDREIIDALIAAAKRGVDVRIILDSNKDDaggpkkaslKELRSLLRAGVEIREYQSFL---RSMHAKFYIIDGKTVIVGS 97

                          90       100       110
                  ....*....|....*....|....*....|..
gi 568910968   73 AGLDWRSLGQMKELGVIFYNcSCLVLDLQRIF 104
Cdd:pfam13091  98 ANLTRRALRLNLENNVVIKD-PELAQELEKEF 128
 
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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