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(-) Description

Title :  CRYSTAL STRUCTURE OF THE ALDOLASE-DEHYDROGENASE COMPLEX FROM MYCOBACTERIUM TUBERCULOSIS HRV37
 
Authors :  J. Carere, S. E. Mckenna, M. S. Kimber, S. Y. K. Seah
Date :  14 Mar 13  (Deposition) - 08 May 13  (Release) - 25 Dec 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.93
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Rossmann Fold, Tim Barrel, Aldolase-Dehydrogenase, Lyase- Oxidoreductase Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Carere, S. E. Mckenna, M. S. Kimber, S. Y. Seah
Characterization Of An Aldolase-Dehydrogenase Complex From The Cholesterol Degradation Pathway Of Mycobacterium Tuberculosis.
Biochemistry V. 52 3502 2013
PubMed-ID: 23614353  |  Reference-DOI: 10.1021/BI400351H

(-) Compounds

Molecule 1 - 4-HYDROXY-2-OXOVALERATE ALDOLASE
    Chains: A, C
    EC Number: 4.1.3.39
    Engineered: YES
    Expression System: RHODOCOCCUS JOSTII
    Expression System Plasmid: PTIP-QC1-HIS
    Expression System Strain: RHA1
    Expression System Taxid: 132919
    Expression System Vector Type: PLASMID
    Gene: RV3534C, MT3638
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 1773
    Strain: HRV37
    Synonym: HOA, 4-HYDROXY-2-KETO-PENTANOIC ACID ALDOLASE, 4-HYDROXY-2- OXOPENTANOATE ALDOLASE
 
Molecule 2 - ACETALDEHYDE DEHYDROGENASE
    Chains: B, D
    EC Number: 1.2.1.10
    Engineered: YES
    Expression System: RHODOCOCCUS JOSTII
    Expression System Plasmid: PTIP-QC1-HIS
    Expression System Strain: RHA1
    Expression System Taxid: 132919
    Expression System Vector Type: PLASMID
    Gene: MHPF, RV3535C, MT3639
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 1773
    Strain: HRV37
    Synonym: ACETALDEHYDE DEHYDROGENASE [ACETYLATING]

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
1MN2Ligand/IonMANGANESE (II) ION
2NA1Ligand/IonSODIUM ION
3OXL2Ligand/IonOXALATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:15 , ASP A:16 , PHE A:137 , MET A:139 , VAL A:167 , SER A:169 , HIS A:198 , HIS A:200 , TYR A:289 , MN A:402 , HOH A:578 , HOH A:595BINDING SITE FOR RESIDUE OXL A 401
2AC2SOFTWAREASP A:16 , HIS A:198 , HIS A:200 , OXL A:401 , HOH A:578BINDING SITE FOR RESIDUE MN A 402
3AC3SOFTWAREARG C:15 , ASP C:16 , PHE C:137 , MET C:139 , VAL C:167 , SER C:169 , HIS C:198 , HIS C:200 , TYR C:289 , MN C:403 , HOH C:540 , HOH C:606BINDING SITE FOR RESIDUE OXL C 401
4AC4SOFTWAREHIS C:19 , HIS C:23 , TYR C:60 , HIS C:295 , HOH C:512 , HOH C:515BINDING SITE FOR RESIDUE NA C 402
5AC5SOFTWAREASP C:16 , HIS C:198 , HIS C:200 , OXL C:401 , HOH C:540BINDING SITE FOR RESIDUE MN C 403

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4JN6)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Asp B:197 -Pro B:198
2Asp D:197 -Pro D:198

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4JN6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4JN6)

(-) Exons   (0, 0)

(no "Exon" information available for 4JN6)

(-) 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:338
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains d4jn6a1 A:4-288 automated matches                                                                                                                                                                                                                                                            d4jn6a2 A:289-341 automated matches                   SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeehhhhhhh....hhhhhhhhhhhhhhh...eeee..................hhhhhhhhhhhhh...eeeeee.....hhhhhhhhhhh...eeeeeee..hhhhhhhhhhhhhhh..eeeeeeehhhhhhhhhhhhhhhhhhhh...eeeeee......hhhhhhhhhhhhhhhh...eeeeee.....hhhhhhhhhhhh...eeeehhhhh.......hhhhhhhhhhhh......hhhhhhhhhhhhhhhhh......hhhhhhhhhhh...hhhhhhhhhhhhhh.hhhhhhhhhhhh......hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jn6 A   4 MWDVRITDTSLRDGSHHKRHQFTKDEVGAIVAALDAAGVPVIEVTHGDGLGGSSFNYGFSKTPEQELIKLAAATAKEARIAFLMLPGVGTKDDIKEARDNGGSICRIATHCTEADVSIQHFGLARELGLETVGFLMMAHTIAPEKLAAQARIMADAGCQCVYVVDSAGALVLDGVADRVSALVAELGEDAQVGFHGHENLGLGVANSVAAVRAGAKQIDGSCRRFGAGAGNAPVEALIGVFDKIGVKTGIDFFDIADAAEDVVRPAMPAECLLDRNALIMGYSGVYSSFLKHAVRQAERYGVPASALLHRAGQRKLIGGQEDQLIDIALEIKRELDSG 341
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333        


Chain B from PDB  Type:PROTEIN  Length:296
                                                                                                                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee..hhhhhhhhhhhhh...eeeeeee.....hhhhhhhhhh..eee..hhhhhh.......eeee..hhhhhhhhhhhhhhhh.eeee..........hhhhhhhhhh...eee..hhhhhhhhhhhhhhhh......eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeee.......eeeeeeeee....hhhhhhhhhhhhhhhhhh....eee....eee.........eeeeeeeee..........hhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jn6 B   3 SKAKVAIVGSGNISTDLLYKLLRSEWLEPRWMVGIDPESDGLARAAKLGLETTHEGVDWLLAQPDKPDLVFEATSAYVHRDAAPKYAEAGIRAIDLTPAAVGPAVIPPANLREHLDAPNVNMITCGGQATIPIVYAVSRIVEVPYAEIVASVASVSAGPGTRANIDEFTKTTARGVQTIGGAARGKAIIILNPADPPMIMRDTIFCAIPTDADREAIAASIHDVVKEVQTYVPGYRLLNEPQFDEPSINSGGQALVTTFVEVEGAGDYLPPYAGNLDIMTAAATKVGEEIAKETLV 298
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292      


Chain C from PDB  Type:PROTEIN  Length:339
                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains d4jn6c1 C:4-288 automated matches                                                                                                                                                                                                                                                            d4jn6c2 C:289-342 automated matches                    SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeehhhhhhh....hhhhhhhhhhhhhhhh..eeee..................hhhhhhhhhhhhh...eeeeee.....hhhhhhhhhhh...eeeeeee..hhhhhhhhhhhhhhh..eeeeeeehhhhhhhhhhhhhhhhhhhhh..eeeeee......hhhhhhhhhhhhhhhhhhheeeeee.....hhhhhhhhhhhh...eeeehhhhh.......hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhh......hhhhhhhhhhh.hhhhhhhhhhhhhhhh.hhhhhhhhhhhh.......hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jn6 C   4 MWDVRITDTSLRDGSHHKRHQFTKDEVGAIVAALDAAGVPVIEVTHGDGLGGSSFNYGFSKTPEQELIKLAAATAKEARIAFLMLPGVGTKDDIKEARDNGGSICRIATHCTEADVSIQHFGLARELGLETVGFLMMAHTIAPEKLAAQARIMADAGCQCVYVVDSAGALVLDGVADRVSALVAELGEDAQVGFHGHENLGLGVANSVAAVRAGAKQIDGSCRRFGAGAGNAPVEALIGVFDKIGVKTGIDFFDIADAAEDVVRPAMPAECLLDRNALIMGYSGVYSSFLKHAVRQAERYGVPASALLHRAGQRKLIGGQEDQLIDIALEIKRELDSGA 342
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333         


Chain D from PDB  Type:PROTEIN  Length:296
                                                                                                                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee..hhhhhhhhhhhhh...eeeeeee.....hhhhhhhhhh..eee..hhhhhh.......eeee..hhhhhhhhhhhhhhh..eeee..........hhhhhhhhhh...eee..hhhhhhhhhhhhhhhh......eeeeeeee.hhhhhhhhhhhhhhhhhhhhhhhhh.....eeeeeeee.......eeeeeeeee....hhhhhhhhhhhhhhhhhh....eee....eee.........eeeeeeeee..........hhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4jn6 D   3 SKAKVAIVGSGNISTDLLYKLLRSEWLEPRWMVGIDPESDGLARAAKLGLETTHEGVDWLLAQPDKPDLVFEATSAYVHRDAAPKYAEAGIRAIDLTPAAVGPAVIPPANLREHLDAPNVNMITCGGQATIPIVYAVSRIVEVPYAEIVASVASVSAGPGTRANIDEFTKTTARGVQTIGGAARGKAIIILNPADPPMIMRDTIFCAIPTDADREAIAASIHDVVKEVQTYVPGYRLLNEPQFDEPSINSGGQALVTTFVEVEGAGDYLPPYAGNLDIMTAAATKVGEEIAKETLV 298
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292
   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  (2, 4)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4JN6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4JN6)

(-) Gene Ontology  (13, 27)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

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