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(-) Description

Title :  CRYSTAL STRUCTURE OF RIPA FROM YERSINIA PESTIS
 
Authors :  R. Torres, C. W. Goulding
Date :  27 May 11  (Deposition) - 18 Jan 12  (Release) - 18 Jan 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.31
Chains :  Asym./Biol. Unit :  A,B
Keywords :  4-Hydroxybutyryl Coa Transferase, Transferase, Coa Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Torres, R. V. Swift, N. Chim, N. Wheatley, B. Lan, B. R. Atwood, C. Pujol, B. Sankaran, J. B. Bliska, R. E. Amaro, C. W. Goulding
Biochemical, Structural And Molecular Dynamics Analyses Of The Potential Virulence Factor Ripa From Yersinia Pestis.
Plos One V. 6 25084 2011
PubMed-ID: 21966419  |  Reference-DOI: 10.1371/JOURNAL.PONE.0025084

(-) Compounds

Molecule 1 - COENZYME A TRANSFERASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: ACH1, Y2385, YPO1926, YP_1668
    Organism Scientific: YERSINIA PESTIS
    Organism Taxid: 632
    Synonym: SIMILAR TO 4-HYDROXYBUTYRATE COA TRANSFERASE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 26)

Asymmetric/Biological Unit (1, 26)
No.NameCountTypeFull Name
1MSE26Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (0, 0)

(no "Site" information available for 3S8D)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3S8D)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Thr A:329 -Gly A:330
2Asp A:384 -Gly A:385
3Thr B:329 -Gly B:330

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3S8D)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3S8D)

(-) Exons   (0, 0)

(no "Exon" information available for 3S8D)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:431
 aligned with Q9ZC36_YERPE | Q9ZC36 from UniProtKB/TrEMBL  Length:440

    Alignment length:440
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440
         Q9ZC36_YERPE     1 MDIRALYDEKLTTPEEAVSSIASGSHLSMGMFAAEPPALLKALADRATRGDIGDLRVYYFETAKIAGDTILRYELNNRIKPYSMFVTAVERALIRRGIEDGGRKVVNYVPSNFHQAPRLLAEEIGIDTFMHTVSPMDCHGYFSLGVGNDYSSRIARSARRFIVEVNRYMPRVQGEAAAIHISEVDAIVENHVPLIEMPVRSAIPEYTSISHIIADLVPDGACLQMGVGALPNLVCGVLKDRNDLGIHTEVLNPGLVDLIRRGVVTNQRKTLDRGRSVFTFAMGQQEMYEYLNDHPAIFSRPVDYVNDPHIIAQNDNVVSINATLQIDLTGACNSEHMLGHQYSASGGQLDFVRGAYASKGGRSIIATPSTAAKGTVSRIIPRIDGPVTTPRIDTHYIVTEFGAVNLKGLSSTERALRIIELAHPDFRDELTQAAKKMHLI 440
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh.hhhhhh.................hhhhhhhhhhhhhh.....eeeee...hhhhhh...hhhhh..eeeee...hhhhhhhhhhhhh.......ee...hhhhhhhhhhh.....eeeeee.......eee......hhhhhhhhh.eeeeee............eee.hhh.eeee.............hhhhhhhhhhhhh............hhhhhhhhhhhhhh...ee...eehhhhhhhhhh..............eee.ee..hhhhhhhhh....eee.hhhhhhhhhhhh....eeeeee..ee.....ee....---------.hhhhhhhhhhh...eeeee...eehhhhee..................eeee..eeee....hhhhhhhhhhh.................... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3s8d A   1 mDIRALYDEKLTTPEEAVSSIASGSHLSmGmFAAEPPALLKALADRATRGDIGDLRVYYFETAKIAGDTILRYELNNRIKPYSmFVTAVERALIRRGIEDGGRKVVNYVPSNFHQAPRLLAEEIGIDTFmHTVSPmDCHGYFSLGVGNDYSSRIARSARRFIVEVNRYmPRVQGEAAAIHISEVDAIVENHVPLIEmPVRSAIPEYTSISHIIADLVPDGACLQmGVGALPNLVCGVLKDRNDLGIHTEVLNPGLVDLIRRGVVTNQRKTLDRGRSVFTFAmGQQEmYEYLNDHPAIFSRPVDYVNDPHIIAQNDNVVSINATLQIDLTGACNSEHm---------GQLDFVRGAYASKGGRSIIATPSTAAKGTVSRIIPRIDGPVTTPRIDTHYIVTEFGAVNLKGLSSTERALRIIELAHPDFRDELTQAAKKmHLI 440
                            |       10        20        30|       40        50        60        70        80   |    90       100       110       120       130     | 140       150       160       170       180       190      |200       210       220    |  230       240       250       260       270       280 |    |290       300       310       320       330      |  -      |350       360       370       380       390       400       410       420       430      |440
                            |                          29-MSE                                                 84-MSE                                       130-MSE |                              169-MSE                     197-MSE                     225-MSE                                                  282-MSE|                                               337-MSE   347                                                                                       437-MSE
                            1-MSE                        31-MSE                                                                                                  136-MSE                                                                                                                                                287-MSE                                                                                                                                                     


Chain B from PDB  Type:PROTEIN  Length:431
 aligned with Q9ZC36_YERPE | Q9ZC36 from UniProtKB/TrEMBL  Length:440

    Alignment length:440
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440
         Q9ZC36_YERPE     1 MDIRALYDEKLTTPEEAVSSIASGSHLSMGMFAAEPPALLKALADRATRGDIGDLRVYYFETAKIAGDTILRYELNNRIKPYSMFVTAVERALIRRGIEDGGRKVVNYVPSNFHQAPRLLAEEIGIDTFMHTVSPMDCHGYFSLGVGNDYSSRIARSARRFIVEVNRYMPRVQGEAAAIHISEVDAIVENHVPLIEMPVRSAIPEYTSISHIIADLVPDGACLQMGVGALPNLVCGVLKDRNDLGIHTEVLNPGLVDLIRRGVVTNQRKTLDRGRSVFTFAMGQQEMYEYLNDHPAIFSRPVDYVNDPHIIAQNDNVVSINATLQIDLTGACNSEHMLGHQYSASGGQLDFVRGAYASKGGRSIIATPSTAAKGTVSRIIPRIDGPVTTPRIDTHYIVTEFGAVNLKGLSSTERALRIIELAHPDFRDELTQAAKKMHLI 440
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh.hhhhhh.................hhhhhhhhhhhhhh.....eeeee...hhhhhh...hhhhhh.eeeee...hhhhhhhhhhhhhh......ee...hhhhhhhhhhh.....eeeeee.......eee......hhhhhhhhh.eeeeee............eee.hhh.eeee.............hhhhhhhhhhhhhhh....eeee..hhhhhhhhhhhhhh...ee...eehhhhhhhhhh..............eee.ee..hhhhhhhhh....eee.hhhhhhhhhhhhh...eeeeee..eee....ee....---------hhhhhhhhhhhh...eeeee...ee....ee.ee...............eeee..eeee....hhhhhhhhhhh.................... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3s8d B   1 mDIRALYDEKLTTPEEAVSSIASGSHLSmGmFAAEPPALLKALADRATRGDIGDLRVYYFETAKIAGDTILRYELNNRIKPYSmFVTAVERALIRRGIEDGGRKVVNYVPSNFHQAPRLLAEEIGIDTFmHTVSPmDCHGYFSLGVGNDYSSRIARSARRFIVEVNRYmPRVQGEAAAIHISEVDAIVENHVPLIEmPVRSAIPEYTSISHIIADLVPDGACLQmGVGALPNLVCGVLKDRNDLGIHTEVLNPGLVDLIRRGVVTNQRKTLDRGRSVFTFAmGQQEmYEYLNDHPAIFSRPVDYVNDPHIIAQNDNVVSINATLQIDLTGACNSEHm---------GQLDFVRGAYASKGGRSIIATPSTAAKGTVSRIIPRIDGPVTTPRIDTHYIVTEFGAVNLKGLSSTERALRIIELAHPDFRDELTQAAKKmHLI 440
                            |       10        20        30|       40        50        60        70        80   |    90       100       110       120       130     | 140       150       160       170       180       190      |200       210       220    |  230       240       250       260       270       280 |    |290       300       310       320       330      |  -      |350       360       370       380       390       400       410       420       430      |440
                            |                          29-MSE                                                 84-MSE                                       130-MSE |                              169-MSE                     197-MSE                     225-MSE                                                  282-MSE|                                               337-MSE   347                                                                                       437-MSE
                            1-MSE                        31-MSE                                                                                                  136-MSE                                                                                                                                                287-MSE
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 3S8D)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3S8D)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3S8D)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q9ZC36_YERPE | Q9ZC36)
molecular function
    GO:0008410    CoA-transferase activity    Catalysis of the transfer of a coenzyme A (CoA) group from one compound (donor) to another (acceptor).
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0006084    acetyl-CoA metabolic process    The chemical reactions and pathways involving acetyl-CoA, a derivative of coenzyme A in which the sulfhydryl group is acetylated; it is a metabolite derived from several pathways (e.g. glycolysis, fatty acid oxidation, amino-acid catabolism) and is further metabolized by the tricarboxylic acid cycle. It is a key intermediate in lipid and terpenoid biosynthesis.
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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  Cis Peptide Bonds
    Asp A:384 - Gly A:385   [ RasMol ]  
    Thr A:329 - Gly A:330   [ RasMol ]  
    Thr B:329 - Gly B:330   [ RasMol ]  
 

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        Q9ZC36_YERPE | Q9ZC36: 3qli 3qlk 4n8h 4n8i 4n8j 4n8k 4n8l

(-) Related Entries Specified in the PDB File

3qli 3qlk