3HSI


Conserved Protein Domain Family
PLDc_PSS_G_neg_1

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cd09134: PLDc_PSS_G_neg_1 
Click on image for an interactive view with Cn3D
Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria
Catalytic domain, repeat 1, of phosphatidylserine synthases (PSSs) from gram-negative bacteria. There are two subclasses of PSS enzymes in bacteria: subclass I of gram-negative bacteria and subclass II of gram-positive bacteria. It is common that PSSs in gram-positive bacteria and yeast are tight membrane-associated enzymes. By contrast, the gram-negative bacterial PSSs, such as Escherichia coli PSS, are commonly bound to the ribosomes. They are peripheral membrane proteins that can interact with the surface of the inner membrane by binding to the lipid substrate (CDP-diacylglycerol) and the lipid product (phosphatidylserine). The prototypical member of this subfamily is Escherichia coli PSS (also called CDP-diacylglycerol-L-serine O-phosphatidyltransferase, EC 2.7.8.8), which catalyzes the exchange reactions between CMP and CDP-diacylglycerol, and between serine and phosphatidylserine. The phosphatidylserine is then decarboxylated by phosphatidylserine decarboxylase to yield phosphatidylethanolamine, the major phospholipid in Escherichia coli. It also catalyzes the hydrolysis of CDP-diacylglycerol to form phosphatidic acid with the release of CMP. PSS may utilize a ping-pong mechanism involving a phosphatidyl-enzyme intermediate, which is distinct from those of gram-positive bacterial phosphatidylserine synthases. Moreover, all members in this subfamily have two HKD motifs (H-x-K-x(4)-D, where x represents any amino acid residue) that characterizes the phospholipase D (PLD) superfamily. The two motifs constitute an active site for the formation of a covalent substrate-enzyme intermediate.
Statistics
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PSSM-Id: 197232
Aligned: 15 rows
Threshold Bit Score: 265.267
Created: 26-Mar-2010
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
putative activecatalytic sitedomain
Conserved site includes 5 residues -Click on image for an interactive view with Cn3D
Feature 1:putative active site [active site]
Evidence:
  • Comment:The active site is located at the interface of two catalytic domains; each domain contains one HKD motif.
  • Comment:The HKD signature motif (expanded to H-x-K-x(4)-D-x(6)-G-S-x-N, where x represents any amino acid residue) characterizes the PLD superfamily.
  • Comment:Most residues in the HKD motif are part of the active site.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                                        
3HSI_A        19 LPFLALqaEQIEFLGSSAEFKTQIIELIRNAKKRIYVTALYWQKDEAGQEILDEIYRVKQENPHLDVKVLIDWHRAQRNL 98  Haemophilus inf...
NP_871137     19 LPKINQnpEQIITIYNPKDFFDRLIKSISKAKKFIYLVALYLEKDQSGNKLLKEIYKAKNKNPNLEVTIIVDLNRSKRRS 98  Wigglesworthia ...
NP_900781     13 LPWFPLrpEDFTTLLQTADFRLRLLEAIAAATRRVYICALYLENEEAGQEMLDALYRAKQRNPQLDVRVMVDWHRAQRGR 92  Chromobacterium...
ADD79416      16 LKKLPQipSKIITLHQAKNFRKIVLEKISNAEECIYIPVLYFEKDDSGKEIIEALIFSKKRKPNLDIKIMVDWNRAKRNR 95  Candidatus Ries...
NP_799313     11 LPSLAInpEDFDVLYSAETFRTRLLDAISKATSRIYLVALYLEDDEAGREILTALYEAKQRNPGLDINICVDWHRAQRGL 90  Vibrio parahaem...
NP_745800     10 LPGYAMapEAIQVLPDARAYRACLFERIRAATRRIVIVALYLQEDEAGQEVLDALYQAKAERPGLEITIVVDWFRARRGL 89  Pseudomonas put...
YP_943342     15 LKKIPLavEDIDCLFTTKSFKSELLKQISAAKKRIYLAALYLEDDQAGEEVLSALYQAKKNNPSLDIVVCVDFHRAQRGL 94  Psychromonas in...
YP_003165986  17 LARFPVqaELVRTLSGPDEFRETLFARIAGAAKRVLIAALYLQDDDAGREVLSALYAAKAARPGLQIAVFVDWHRAQRGL 96  Candidatus Accu...
NP_717980      5 LGGIAVqpEALTWLLTPCRFKAELLTRIENAKTSIYIAALYLEDDEAGREILQVLMTAKANNPALDIKVLVDFHRARRGL 84  Shewanella onei...
NP_878829     25 LPKITQksSDFKILNSPKEFNYVLLNTISQAHKHICLVTLYLENDPGGKKILDTILEVKKNRPTIKINIIVDWYRAQRTR 104 Candidatus Bloc...
Feature 1                                                    # #           # #              #    
3HSI_A        99 LGAeks-atNADWYCEQRQTYqlpddPNXFFGVPINTREVFGVLHVKGFVFDDTVLYSGASINNVYLHQfEKYRYDRYQK 177 Haemophilus inf...
NP_871137     99 FGEdkg-ltNSDWYLKIAKTYkh--iNVPIYGIPLSINEALGVLHLKGFIIDDHVFYSGASINNAYLNKfIQYRYDRYHI 175 Wigglesworthia ...
NP_900781     93 IGEdqs-hcNASWYREEAARRe---lDIPIYGVPVQTRELFGVLHLKGFVIDDTVFYSGASLNNVYLHKlDKYRFDRYHL 168 Chromobacterium...
ADD79416      96 IGNkyedmtNLDWYRLISIRLsn--hKINVFGIPISITEIFGTFHLKGIIIDDSVIYSGASISNIYFHRkRKHRYDRYHV 173 Candidatus Ries...
NP_799313     91 IGAets-egNSALYKAFADQYq---hAIPVYGIPVRGREVFGVLHLKGFVVDDTVIYSGASLNNVYLQYhGRYRFDRYHV 166 Vibrio parahaem...
NP_745800     90 LGAgrq-pgNAAWYQAQRQLRg---lDIAIHGVPVQTRELFGVLHLKGSIIDDCVIYTGASLNNVYLHRfDRYRLDRYHL 165 Pseudomonas put...
YP_943342     95 IGVdksastNATWYQQVAKIEg---lGVKIIGIPVKRKELFGVQHLKGFIFDDQVLYSGASLNNIYLHQqDKYRLDRYWL 171 Psychromonas in...
YP_003165986  97 IGKgas-agNAALYADMAQRFg---pGVPIYGVPVQTRELMGVMHLKGFVIDDAVLYSGASLNDVYLHRhQRYRLDRYHL 172 Candidatus Accu...
NP_717980     85 IGHkgd-sgNYLMYRKVMAEAk---hPIEIMGVPVKSREFMGVLHLKGFVIDDAVIYSGASLNNIYLQQnDKYRFDRYHV 160 Shewanella onei...
NP_878829    105 FGEsik-ytNIHWYNNIIQNNpn--iELSIFGLPIHFSEILGVLHLKGFIIDDTILYSGANLNNEYLHInDKYRYDRYYF 181 Candidatus Bloc...
Feature 1                         
3HSI_A       178 ITHAELADSXVNFINDY 194 Haemophilus influenzae
NP_871137    176 IYNRLLANSMLNFIKTK 192 Wigglesworthia glossinidia endosymbiont of Glossina brevipalpis
NP_900781    169 IRSPELADAMAGFMAEQ 185 Chromobacterium violaceum ATCC 12472
ADD79416     174 FYNPDLAQTMKNFLDQE 190 Candidatus Riesia pediculicola USDA
NP_799313    167 IKHKSLADTMVNFVQNE 183 Vibrio parahaemolyticus RIMD 2210633
NP_745800    166 FQSPALADAMVGLVQRL 182 Pseudomonas putida KT2440
YP_943342    172 IKNQELADSLVRFLQDQ 188 Psychromonas ingrahamii 37
YP_003165986 173 VENRPLADSLAALMSQV 189 Candidatus Accumulibacter phosphatis clade IIA str. UW-1
NP_717980    161 IESAELARSMRAMIQRY 177 Shewanella oneidensis MR-1
NP_878829    182 IKNAQLSAIMLNYIEKN 198 Candidatus Blochmannia floridanus

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