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(-) Description

Title :  CRYSTAL STRUCTURE OF S.AUREUS GLYCERALDEHYDE-3-PHOSPHATE-DEHYDROGENASE (GAP) CONTAINING OXIDIZED CYS151
 
Authors :  A. J. Pietrzyk-Brzezinska, M. C. Wahl
Date :  02 Sep 16  (Deposition) - 28 Dec 16  (Release) - 25 Jan 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Glycolysis, Oxidoreductase, Oxidation (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Imber, N. T. Huyen, A. J. Pietrzyk-Brzezinska, V. V. Loi, M. Hillion J. Bernhardt, L. Tharichen, K. Kolsek, M. Saleh, C. J. Hamilton, L. Adrian, F. Grater, M. C. Wahl, H. Antelmann
Protein S-Bacillithiolation Functions In Thiol Protection And Redox Regulation Of The Glyceraldehyde-3-Phosphate Dehydrogenase Gap In Staphylococcus Aureus Under Hypochlorite Stress.
Antioxid. Redox Signal. 2017
PubMed-ID: 27967218  |  Reference-DOI: 10.1089/ARS.2016.6897

(-) Compounds

Molecule 1 - GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE 1
    Chains: A, B, C, D
    EC Number: 1.2.1.12
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: GAPA1, GAP, GAPA, SAR0828
    Organism Scientific: STAPHYLOCOCCUS AUREUS (STRAIN MRSA252)
    Organism Taxid: 282458
    Strain: MRSA252
    Synonym: GAPDH 1,NAD-DEPENDENT GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 12)

Asymmetric/Biological Unit (2, 12)
No.NameCountTypeFull Name
1NA8Ligand/IonSODIUM ION
2OCS4Mod. Amino AcidCYSTEINESULFONIC ACID

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:34 , THR A:36 , ASP A:38 , PHE A:75 , SER A:76binding site for residue NA A 401
2AC2SOFTWAREILE A:21 , VAL A:24 , LEU A:27 , HOH A:530binding site for residue NA A 402
3AC3SOFTWAREASP B:34 , THR B:36 , ASP B:38 , LEU B:41 , PHE B:75 , SER B:76 , HOH B:534binding site for residue NA B 401
4AC4SOFTWAREILE B:21 , VAL B:24 , LEU B:27 , HOH B:541 , HOH B:542binding site for residue NA B 402
5AC5SOFTWAREASP C:34 , THR C:36 , ASP C:38 , PHE C:75 , SER C:76 , HOH C:532binding site for residue NA C 401
6AC6SOFTWAREILE C:21 , GLN C:22 , VAL C:24 , LEU C:27 , GLU C:28 , HOH C:538binding site for residue NA C 402
7AC7SOFTWAREASP D:34 , THR D:36 , ASP D:38 , SER D:74 , PHE D:75 , SER D:76 , HOH D:516binding site for residue NA D 401
8AC8SOFTWAREILE D:21 , VAL D:24 , LEU D:27 , HOH D:544binding site for residue NA D 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5T73)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5T73)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5T73)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5T73)

(-) Exons   (0, 0)

(no "Exon" information available for 5T73)

(-) 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:335
                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..hhhhhhhhhhhh....eeeeeee...hhhhhhhhhhh..........eeee..eeee..eeeeee...hhhhh........eeee......hhhhhhhhhhhh..eeee........ee.....hhhhh.....eee..hhhhhhhhhhhhhhhhhh.eeeeeeeeeee.....................hhhhh.eeee.hhhhhhhhhhhhhh..eeeeeeee.....eeeeeeeee.....hhhhhhhhhhh.....eeee....hhhhh......eeee.hhheeeee..eeeeeeeeee..hhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t73 A   2 AVKVAINGFGRIGRLAFRRIQEVEGLEVVAVNDLTDDDMLAHLLKYDTMQGRFTGEVEVVDGGFRVNGKEVKSFSEPDASKLPWKDLNIDVVLECTGFYTDKDKAQAHIEAGAKKVLISAPATGDLKTIVFNTNHQELDGSETVVSGAScTTNSLAPVAKVLNDDFGLVEGLMTTIHAYTGDQNTQDAPHRKGDKRRARAAAENIIPNSTGAAKAIGKVIPEIDGKLDGGAQRVPVATGSLTELTVVLEKQDVTVEQVNEAMKNASNESFGYTEDEIVSSDVVGMTYGSLFDATQTRVMSVGDRQLVKVAAWYDNEMSYTAQLVRTLAYLAELSK 336
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331     
                                                                                                                                                                               151-OCS                                                                                                                                                                                     


Chain B from PDB  Type:PROTEIN  Length:335
                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..hhhhhhhhhhhhh...eeeeeee...hhhhhhhhhhh..........eeee..eeee..eeeeee...hhhhh........eeee......hhhhhhhhhhh...eeee........ee.....hhhhh.....eee..hhhhhhhhhhhhhhhhhh.eeeeeeeeeee...........................eeee.hhhhhhhhhhhhhh..eeeeeeee.....eeeeeeeee.....hhhhhhhhhhh.....eeee....hhhhhh.....eeeeeeeeeeeee..eeeeeeeeee..hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t73 B   2 AVKVAINGFGRIGRLAFRRIQEVEGLEVVAVNDLTDDDMLAHLLKYDTMQGRFTGEVEVVDGGFRVNGKEVKSFSEPDASKLPWKDLNIDVVLECTGFYTDKDKAQAHIEAGAKKVLISAPATGDLKTIVFNTNHQELDGSETVVSGAScTTNSLAPVAKVLNDDFGLVEGLMTTIHAYTGDQNTQDAPHRKGDKRRARAAAENIIPNSTGAAKAIGKVIPEIDGKLDGGAQRVPVATGSLTELTVVLEKQDVTVEQVNEAMKNASNESFGYTEDEIVSSDVVGMTYGSLFDATQTRVMSVGDRQLVKVAAWYDNEMSYTAQLVRTLAYLAELSK 336
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331     
                                                                                                                                                                               151-OCS                                                                                                                                                                                     


Chain C from PDB  Type:PROTEIN  Length:335
                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..hhhhhhhhhhhhh...eeeeeee...hhhhhhhhhhh..........eeee..eeee...eeeee...hhhhh........eeee......hhhhhhhhhhh...eeee...............hhhhh.....eee..hhhhhhhhhhhhhhhhhhheeeeeeeeeee...........................eeee.....hhhhhhhhhh..eeeeeeee.....eeeeeeeee.....hhhhhhhhhhhh....eeee....hhhhhh.....eeee.hhheeeee..eeeeeeeeee..hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t73 C   2 AVKVAINGFGRIGRLAFRRIQEVEGLEVVAVNDLTDDDMLAHLLKYDTMQGRFTGEVEVVDGGFRVNGKEVKSFSEPDASKLPWKDLNIDVVLECTGFYTDKDKAQAHIEAGAKKVLISAPATGDLKTIVFNTNHQELDGSETVVSGAScTTNSLAPVAKVLNDDFGLVEGLMTTIHAYTGDQNTQDAPHRKGDKRRARAAAENIIPNSTGAAKAIGKVIPEIDGKLDGGAQRVPVATGSLTELTVVLEKQDVTVEQVNEAMKNASNESFGYTEDEIVSSDVVGMTYGSLFDATQTRVMSVGDRQLVKVAAWYDNEMSYTAQLVRTLAYLAELSK 336
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331     
                                                                                                                                                                               151-OCS                                                                                                                                                                                     


Chain D from PDB  Type:PROTEIN  Length:335
                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..hhhhhhhhhhhh....eeeeeee...hhhhhhhhhhh..........eeee..eeee..eeeeee...hhhhh........eeee......hhhhhhhhhhh...eeee........ee.....hhhhh.....eee..hhhhhhhhhhhhhhhhhh.eeeeeeeeeee.....................hhhhh.eeee.....hhhhhhhhhh..eeeeeeee.....eeeeeeeee.....hhhhhhhhhhhh....eeee....hhhhhh.....eeeeeeeeeeeee..eeeeeeeeee..hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5t73 D   2 AVKVAINGFGRIGRLAFRRIQEVEGLEVVAVNDLTDDDMLAHLLKYDTMQGRFTGEVEVVDGGFRVNGKEVKSFSEPDASKLPWKDLNIDVVLECTGFYTDKDKAQAHIEAGAKKVLISAPATGDLKTIVFNTNHQELDGSETVVSGAScTTNSLAPVAKVLNDDFGLVEGLMTTIHAYTGDQNTQDAPHRKGDKRRARAAAENIIPNSTGAAKAIGKVIPEIDGKLDGGAQRVPVATGSLTELTVVLEKQDVTVEQVNEAMKNASNESFGYTEDEIVSSDVVGMTYGSLFDATQTRVMSVGDRQLVKVAAWYDNEMSYTAQLVRTLAYLAELSK 336
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331     
                                                                                                                                                                               151-OCS
   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 5T73)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5T73)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5T73)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)

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  5t73
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 Related Entries

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

UniProtKB/Swiss-Prot
        G3P1_STAAR | Q6GIL8: 3hq4 3k73 3k9q 3ksd 3ksz 3kv3 3l4s 3l6o 3lc1 3lc2 3lc7 3lvf 3vaz

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5T73)