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(-) Description

Title :  CRYSTAL STRUCTURE OF THE DELTA-PYRROLINE-5-CARBOXYLATE DEHYDROGENASE FROM MYCOBACTERIUM TUBERCULOSIS
 
Authors :  T. Lagautriere, G. Bashiri, E. N. Baker
Date :  24 Feb 13  (Deposition) - 18 Dec 13  (Release) - 16 Apr 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  A  (6x)
Keywords :  Pyrroline-5-Carboxylate Dehydrogenase, Aldehyde Dehydrogenase, Oxydoreduction, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Lagautriere, G. Bashiri, N. G. Paterson, M. Berney, G. M. Cook, E. N. Baker
Characterization Of The Proline-Utilization Pathway In Mycobacterium Tuberculosis Through Structural And Functiona Studies.
Acta Crystallogr. , Sect. D V. 70 968 2014
PubMed-ID: 24699642  |  Reference-DOI: 10.1107/S1399004713034391

(-) Compounds

Molecule 1 - 1-PYRROLINE-5-CARBOXYLATE DEHYDROGENASE
    Chains: A
    EC Number: 1.5.1.12
    Engineered: YES
    Expression System: MYCOBACTERIUM SMEGMATIS
    Expression System Strain: MC2 4517
    Expression System Taxid: 1772
    Gene: RVBD_1187
    Mutation: YES
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 83332
    Strain: H37RV

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A
Biological Unit 2 (6x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1CME1Mod. Amino AcidS,S-(2-HYDROXYETHYL)THIOCYSTEINE
2NAD1Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1CME2Mod. Amino AcidS,S-(2-HYDROXYETHYL)THIOCYSTEINE
2NAD2Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE
Biological Unit 2 (2, 12)
No.NameCountTypeFull Name
1CME6Mod. Amino AcidS,S-(2-HYDROXYETHYL)THIOCYSTEINE
2NAD6Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:184 , ILE A:186 , THR A:187 , PRO A:188 , PHE A:189 , LYS A:212 , PRO A:213 , SER A:214 , GLY A:245 , PHE A:246 , SER A:249 , GLY A:265 , SER A:266 , THR A:269 , CME A:327 , HOH A:763 , HOH A:936 , HOH A:938BINDING SITE FOR RESIDUE NAD A 601

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Val A:542 -Asp A:543

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4JDC)

(-) 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:536
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....................hhhhhhhhhhhhhhhhh.eee.eee..eee.....eeeeee..eeeeeeeeee..hhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhh........eeeeeeeee...eeeee....hhhhhhhhhhhhhhh...eeee.hhhhhhhhhhhhhhhhhh......eee....hhhhhhhhh....eeeeeeeehhhhhhhhhhhhhhhhhhh....eeeeee..eeeeee....hhhhhhhhhhhhhhhhhhh....eeeeeeehhhhhhhhhhhhhhhhhh................hhhhhhhhhhhhhhhhhh..eeeee...ee.....ee..eeeee........eeeeeeehhhhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhhh.....eeee...........................hhhhhhhheeeeeeeee........hhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jdc A   1 MDAITQVPVPANEPVHDYAPKSPERTRLRTELASLADHPIDLPHVIGGRHRMGDGERIDVVQPHRHAARLGTLTNATHADAAAAVEAAMSAKSDWAALPFDERAAVFLRAADLLAGPWREKIAAATMLGQSKSVYQAEIDAVCELIDFWRFNVAFARQILEQQPISGPGEWNRIDYRPLDGFVYAITPFNFTSIAGNLPTAPALMGNTVIWKPSITQTLAAYLTMQLLEAAGLPPGVINLVTGDGFAVSDVALADPRLAGIHFTGSTATFGHLWQWVGTNIGRYHSYPRLVGETGGKDFVVAHASARPDVLRTALIRGAFDYQGQKcSAVSRAFIAHSVWQRMGDELLAKAAELRYGDITDLSNYGGALIDQRAFVKNVDAIERAKGAAAVTVAVGGEYDDSEGYFVRPTVLLSDDPTYFGPLLSVHVYPDERYEQILDVIDTGSRYALTGAVIADDRQAVLTALDRLRFAAGNFYVNDKPTGAVVGRQPFGGARGSDTNDKAGSPLNLLRWTSARSIKETFVAATDHIYPHMAVD 543
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                                                                                                                                                                                                                                                                                                                                                                327-CME                                                                                    418|                                                                                                                     
                                                                                                                                                                                                                                                                                                                                                                                                                                                            426
   Legend:   → Mismatch (orange background)
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  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 4JDC)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4JDC)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (10, 10)

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  4jdc
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  1.5.1.12
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 Related Entries

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

UniProtKB/TrEMBL
        O50443_MYCTU | O50443: 4idm 4ids 4ihi 4lem 4ns3

(-) Related Entries Specified in the PDB File

4idm SEMET-PRUA (SHORT UNIT CELL)
4ids APO-PRUA (LONG UNIT CELL)
4ihi PRUA-NAD (LONG UNIT CELL)