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(-) Description

Title :  1.7 ANGSTROM RESOLUTION CRYSTAL STRUCTURE OF BETAINE ALDEHYDE DEHYDROGENASE (BETB) FROM STAPHYLOCOCCUS AUREUS
 
Authors :  A. S. Halavaty, L. Shuvalova, G. Minasov, I. Dubrovska, J. Winsor, S. N. W. F. Anderson, Center For Structural Genomics Of Infectious D (Csgid)
Date :  12 Sep 13  (Deposition) - 25 Sep 13  (Release) - 13 May 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B  (2x)
Biol. Unit 3:  A,B  (2x)
Keywords :  Structural Genomics, Nad, Center For Structural Genomics Of Infectious, Niaid, National Institute Of Allergy And Infectious Diseases, Csgid, Rossmann Fold, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Chen, J. C. Joo, G. Brown, E. Stolnikova, A. S. Halavaty, A. Savchenko, W. F. Anderson, A. F. Yakunin
Structure-Based Mutational Studies Of Substrate Inhibition Of Betaine Aldehyde Dehydrogenase Betb From Staphylococcus Aureus.
Appl. Environ. Microbiol. V. 80 3992 2014
PubMed-ID: 24747910  |  Reference-DOI: 10.1128/AEM.00215-14
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - BETAINE ALDEHYDE DEHYDROGENASE
    Chains: A, B
    EC Number: 1.2.1.8
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG19
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: BETB, SACOL2628
    Organism Scientific: STAPHYLOCOCCUS AUREUS SUBSP. AUREUS
    Organism Taxid: 93062
    Strain: COL

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): A 
Biological Unit 2 (2x):  B
Biological Unit 3 (2x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 8)

Asymmetric Unit (3, 8)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2CME2Mod. Amino AcidS,S-(2-HYDROXYETHYL)THIOCYSTEINE
3MG5Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2CME2Mod. Amino AcidS,S-(2-HYDROXYETHYL)THIOCYSTEINE
3MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2CME2Mod. Amino AcidS,S-(2-HYDROXYETHYL)THIOCYSTEINE
3MG-1Ligand/IonMAGNESIUM ION
Biological Unit 3 (1, 4)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2CME4Mod. Amino AcidS,S-(2-HYDROXYETHYL)THIOCYSTEINE
3MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:249 , LYS A:460 , HOH A:679 , HOH A:693 , HOH A:709 , HOH A:842 , HOH A:1012BINDING SITE FOR RESIDUE MG A 501
2AC2SOFTWAREHOH A:916 , HOH A:1015 , HOH A:1016 , HOH A:1017 , HOH A:1018BINDING SITE FOR RESIDUE MG A 502
3AC3SOFTWAREHOH A:1023 , HOH A:1024 , HOH A:1025 , HOH A:1026 , HOH A:1203BINDING SITE FOR RESIDUE MG A 503
4AC4SOFTWAREGLN A:298 , LYS A:429 , HOH A:833BINDING SITE FOR RESIDUE CL A 504
5AC5SOFTWAREVAL B:249 , LYS B:460 , HOH B:1085 , HOH B:1109 , HOH B:1144 , HOH B:1195 , HOH B:1435BINDING SITE FOR RESIDUE MG B 501
6AC6SOFTWAREHOH B:1190 , HOH B:1212 , HOH B:1306 , HOH B:1440 , HOH B:1441BINDING SITE FOR RESIDUE MG B 502

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4MPB)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4MPB)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4MPB)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4MPB)

(-) Exons   (0, 0)

(no "Exon" information available for 4MPB)

(-) Sequences/Alignments

Asymmetric 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:502
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhh...eee..eee......eeeee......eeeeee..hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh....eeee......eeeeeeeee..eeeee....hhhhhhhhhhhhhhhhh.eeeee.....hhhhhhhhhhhhhhh.....eee......hhhhhhhhh....eeeee.hhhhhhhhhhhhhh...eeeee.....eeee....hhhhhhhhhhhhhhhhhhh......eeeeehhhhhhhhhhhhhhhh..................hhhhhhhhhhhhhhhhhh..eeee......hhhhh.......eeee.....hhhhhh.....eeeeeee.hhhhhhhhhh......eeeee..hhhhhhhhhhhh...eeee..............hhh.ee...hhhhhhhh.eeeeeeeee........... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mpb A  -5 YFQSNAMELLKHLSQRQYIDGEWVESANKNTRDIINPYNQEVIFTVSEGTKEDAERAILAARRAFESGEWSQETAETRGKKVRAIADKIKEHREALARLETLDTGKTLEESYADMDDIHNVFMYFAGLADKDGGEMIDSPIPDTESKIVKEPVGVVTQITPWNYPLLQASWKIAPALATGCSLVMKPSEITPLTTIRVFELMEEVGFPKGTINLILGAGSEVGDVMSGHKEVDLVSFTGGIETGKHIMKNAANNVTNIALELGGKNPNIIFDDADFELAVDQALNGGYFHAGQVcSAGSRILVQNSIKDKFEQALIDRVKKIKLGNGFDADTEMGPVISTEHRNKIESYMDVAKAEGATIAVGGKRPDRDDLKDGLFFEPTVITNCDTSMRIVQEEVFGPVVTVEGFETEQEAIQLANDSIYGLAGAVFSKDIGKAQRVANKLKLGTVWINDFHPYFAQAPWGGYKQSGIGRELGKEGLEEYLVSKHILTNTNPQLVNWFSK 496
                                     4        14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284    |  294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494  
                                                                                                                                                                                                                                                                                                                                289-CME                                                                                                                                                                                                           


Chain B from PDB  Type:PROTEIN  Length:503
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhh.....eee..eee......eeeee......eeeeee..hhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh....eeee......eeeeeeeee..eeeee....hhhhhhhhhhhhhhhhh.eeeee.....hhhhhhhhhhhhhhh.....eee......hhhhhhhhh....eeeee.hhhhhhhhhhhhhh...eeeee.....eeee....hhhhhhhhhhhhhhhhhhh.......eeeeehhhhhhhhhhhhhhhh..................hhhhhhhhhhhhhhhhhh..eeee......hhhhh.......eeee.....hhhhhh.....eeeeeee.hhhhhhhhhh......eeeee..hhhhhhhhhhhh...eeee..............hhh.ee...hhhhhhhh.eeeeeeeee........... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mpb B  -5 YFQSNAMELLKHLSQRQYIDGEWVESANKNTRDIINPYNQEVIFTVSEGTKEDAERAILAARRAFESGEWSQETAETRGKKVRAIADKIKEHREALARLETLDTGKTLEESYADMDDIHNVFMYFAGLADKDGGEMIDSPIPDTESKIVKEPVGVVTQITPWNYPLLQASWKIAPALATGCSLVMKPSEITPLTTIRVFELMEEVGFPKGTINLILGAGSEVGDVMSGHKEVDLVSFTGGIETGKHIMKNAANNVTNIALELGGKNPNIIFDDADFELAVDQALNGGYFHAGQVcCSAGSRILVQNSIKDKFEQALIDRVKKIKLGNGFDADTEMGPVISTEHRNKIESYMDVAKAEGATIAVGGKRPDRDDLKDGLFFEPTVITNCDTSMRIVQEEVFGPVVTVEGFETEQEAIQLANDSIYGLAGAVFSKDIGKAQRVANKLKLGTVWINDFHPYFAQAPWGGYKQSGIGRELGKEGLEEYLVSKHILTNTNPQLVNWFSK 496
                                     4        14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284    |  293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493   
                                                                                                                                                                                                                                                                                                                                289-CME
   Legend:   → Mismatch (orange background)
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  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 ; only for superseded entry 3ED6: 1,2)

(no "SCOP Domain" information available for 4MPB, only for superseded entry 3ED6 replaced by 4MPB)

(-) CATH Domains  (0, 0 ; only for superseded entry 3ED6: 2,4)

(no "CATH Domain" information available for 4MPB, only for superseded entry 3ED6 replaced by 4MPB)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4MPB)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4MPB)

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        A0A0H2X0S3_S | A0A0H2X0S3: 4mpy 4nea 4nu9 4q92 4qje 4qn2

(-) Related Entries Specified in the PDB File

4mpy 1.85 ANGSTROM RESOLUTION CRYSTAL STRUCTURE OF BETAINE ALDEHYDE DEHYDROGENASE (BETB) FROM STAPHYLOCOCCUS AUREUS (IDP00699) IN COMPLEX WITH NAD+ RELATED ID: CSGID-IDP00699 RELATED DB: TARGETTRACK