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(-) Description

Title :  CRYSTAL STRUCTURE OF A MYCOBACTERIUM ALDO-KETO REDUCTASE IN ITS APO AND LIGANDED FORM
 
Authors :  J. Scoble, A. D. Mcalister, Z. Fulton, S. Troy, E. Byres, J. P. Vivian, R. Brammananth, M. C. J. Wilce, J. Le Nours, L. Zaker-Tabrizi, R. L. Coppel, P. K. Crellin, J. Rossjohn, T. Beddoe
Date :  30 Nov 09  (Deposition) - 16 Feb 10  (Release) - 14 Apr 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.64
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Scoble, A. D. Mcalister, Z. Fulton, S. Troy, E. Byres, J. P. Vivian, R. Brammananth, M. C. J. Wilce, J. Le Nours, L. Zaker-Tabrizi, R. L. Coppel, P. K. Crellin, J. Rossjohn, T. Beddoe
Crystal Structure And Comparative Functional Analyses Of A Mycobacterium Aldo-Keto Reductase.
J. Mol. Biol. V. 398 26 2010
PubMed-ID: 20188740  |  Reference-DOI: 10.1016/J.JMB.2010.02.021

(-) Compounds

Molecule 1 - ALDO-KETO REDUCTASE
    Atcc: 700084
    Chains: A, B
    EC Number: 1.1.1.218
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PDEST17
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: MYCOBACTERIUM SMEGMATIS
    Organism Taxid: 246196
    Strain: MC2 155
    Synonym: UNCHARACTERIZED OXIDOREDUCTASE MSMEG_2407

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1NA72Ligand/Ion[(2R,3R,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3-HYDROXY-4-(PHOSPHONOOXY)TETRAHYDROFURAN-2-YL]METHYL [(2R,3S,4S)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL DIHYDROGENDIPHOSPHATE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1NA71Ligand/Ion[(2R,3R,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3-HYDROXY-4-(PHOSPHONOOXY)TETRAHYDROFURAN-2-YL]METHYL [(2R,3S,4S)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL DIHYDROGENDIPHOSPHATE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1NA71Ligand/Ion[(2R,3R,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3-HYDROXY-4-(PHOSPHONOOXY)TETRAHYDROFURAN-2-YL]METHYL [(2R,3S,4S)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL DIHYDROGENDIPHOSPHATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:195 , GLY A:196 , PRO A:197 , LEU A:198 , GLY A:199 , VAL A:200 , GLY A:201 , LEU A:204 , ALA A:221 , ILE A:236 , ARG A:238 , SER A:239 , ALA A:240 , ARG A:244 , SER A:247 , ASN A:248 , ARG A:274 , HOH A:2252 , HOH A:2253 , HOH A:2254 , HOH A:2255 , HOH A:2257 , HOH A:2258BINDING SITE FOR RESIDUE NA7 A1284
2AC2SOFTWARETYR B:195 , GLY B:196 , PRO B:197 , LEU B:198 , GLY B:199 , VAL B:200 , GLY B:201 , LEU B:204 , ALA B:221 , ILE B:236 , ARG B:238 , SER B:239 , ALA B:240 , ARG B:244 , SER B:247 , ASN B:248 , ARG B:274 , HOH B:2205 , HOH B:2260 , HOH B:2261 , HOH B:2262 , HOH B:2263 , HOH B:2264BINDING SITE FOR RESIDUE NA7 B1284

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2WZM)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2WZM)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2WZM)

(-) PROSITE Motifs  (2, 4)

Asymmetric Unit (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ALDOKETO_REDUCTASE_1PS00798 Aldo/keto reductase family signature 1.Y2407_MYCS248-65
 		  2A:48-65
B:48-65
2ALDOKETO_REDUCTASE_2PS00062 Aldo/keto reductase family signature 2.Y2407_MYCS2132-149
 		  2A:132-149
B:132-149
Biological Unit 1 (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ALDOKETO_REDUCTASE_1PS00798 Aldo/keto reductase family signature 1.Y2407_MYCS248-65
 		  1A:48-65
-
2ALDOKETO_REDUCTASE_2PS00062 Aldo/keto reductase family signature 2.Y2407_MYCS2132-149
 		  1A:132-149
-
Biological Unit 2 (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ALDOKETO_REDUCTASE_1PS00798 Aldo/keto reductase family signature 1.Y2407_MYCS248-65
 		  1-
B:48-65
2ALDOKETO_REDUCTASE_2PS00062 Aldo/keto reductase family signature 2.Y2407_MYCS2132-149
 		  1-
B:132-149

(-) Exons   (0, 0)

(no "Exon" information available for 2WZM)

(-) 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:274
 aligned with Y2407_MYCS2 | A0QV09 from UniProtKB/Swiss-Prot  Length:283

    Alignment length:274
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279    
          Y2407_MYCS2    10 AIPTVTLNDDNTLPVVGIGVGELSDSEAERSVSAALEAGYRLIDTAAAYGNEAAVGRAIAASGIPRDEIYVTTKLATPDQGFTSSQAAARASLERLGLDYVDLYLIHWPGGDTSKYVDSWGGLMKVKEDGIARSIGVCNFGAEDLETIVSLTYFTPAVNQIELHPLLNQAALREVNAGYNIVTEAYGPLGVGRLLDHPAVTAIAEAHGRTAAQVLLRWSIQLGNVVISRSANPERIASNLDVFGFELTADEMETLNGLDDGTRFRPDPATYTGS 283
               SCOP domains d2wzma_ A: automated matches                                                                                                                                                                                                                                                       SCOP domains
               CATH domains 2wzmA00 A:10-283 NADP-dependent oxidoreductase                                                                                                                                                                                                                                     CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee.....eee.eeee....hhhhhhhhhhhhhhhh..eee.hhhhhhhhhhhhhhhhh..hhhhheeeeeehhhhhhhhhhhhhhhhhhhhhh...eeeeee.....hhhhhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhhhhh....eeeee......hhhhhhhhhhh..eeeee.....hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh..eeee...hhhhhhhhhh......hhhhhhhhhh................. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------ALDOKETO_REDUCTASE------------------------------------------------------------------ALDOKETO_REDUCTASE-------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2wzm A  10 AIPTVTLNDDNTLPVVGIGVGELSDSEAERSVSAALEAGYRLIDTAAAYGNEAAVGRAIAASGIPRDEIYVTTKLATPDQGFTSSQAAARASLERLGLDYVDLYLIHWPGGDTSKYVDSWGGLMKVKEDGIARSIGVCNFGAEDLETIVSLTYFTPAVNQIELHPLLNQAALREVNAGYNIVTEAYGPLGVGRLLDHPAVTAIAEAHGRTAAQVLLRWSIQLGNVVISRSANPERIASNLDVFGFELTADEMETLNGLDDGTRFRPDPATYTGS 283
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279    


Chain B from PDB  Type:PROTEIN  Length:274
 aligned with Y2407_MYCS2 | A0QV09 from UniProtKB/Swiss-Prot  Length:283

    Alignment length:274
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279    
          Y2407_MYCS2    10 AIPTVTLNDDNTLPVVGIGVGELSDSEAERSVSAALEAGYRLIDTAAAYGNEAAVGRAIAASGIPRDEIYVTTKLATPDQGFTSSQAAARASLERLGLDYVDLYLIHWPGGDTSKYVDSWGGLMKVKEDGIARSIGVCNFGAEDLETIVSLTYFTPAVNQIELHPLLNQAALREVNAGYNIVTEAYGPLGVGRLLDHPAVTAIAEAHGRTAAQVLLRWSIQLGNVVISRSANPERIASNLDVFGFELTADEMETLNGLDDGTRFRPDPATYTGS 283
               SCOP domains d2wzmb_ B: automated matches                                                                                                                                                                                                                                                       SCOP domains
               CATH domains 2wzmB00 B:10-283 NADP-dependent oxidoreductase                                                                                                                                                                                                                                     CATH domains
           Pfam domains (1) -----------Aldo_ket_red-2wzmB01 B:21-269                                                                                                                                                                                                                            -------------- Pfam domains (1)
           Pfam domains (2) -----------Aldo_ket_red-2wzmB02 B:21-269                                                                                                                                                                                                                            -------------- Pfam domains (2)
         Sec.struct. author ...eee.....eee.eeee....hhhhhhhhhhhhhhhh..eee.hhhhhhhhhhhhhhhhh..hhhhheeeeeehhhhhhhhhhhhhhhhhhhhhh...eeeeee.....hhhhhhhhhhhhhhhhhh..eeeeeee..hhhhhhhhhhhhh....eeeee......hhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh..eeee...hhhhhhhhhh......hhhhhhhhhh................. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------ALDOKETO_REDUCTASE------------------------------------------------------------------ALDOKETO_REDUCTASE-------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2wzm B  10 AIPTVTLNDDNTLPVVGIGVGELSDSEAERSVSAALEAGYRLIDTAAAYGNEAAVGRAIAASGIPRDEIYVTTKLATPDQGFTSSQAAARASLERLGLDYVDLYLIHWPGGDTSKYVDSWGGLMKVKEDGIARSIGVCNFGAEDLETIVSLTYFTPAVNQIELHPLLNQAALREVNAGYNIVTEAYGPLGVGRLLDHPAVTAIAEAHGRTAAQVLLRWSIQLGNVVISRSANPERIASNLDVFGFELTADEMETLNGLDDGTRFRPDPATYTGS 283
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279
   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  (1, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: no clan defined [family: Aldo_ket_red] (94)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Y2407_MYCS2 | A0QV09)
molecular function
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

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  2wzm
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  1.1.1.218
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 Related Entries

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

UniProtKB/Swiss-Prot
        Y2407_MYCS2 | A0QV09: 2wzt

(-) Related Entries Specified in the PDB File

2wzt CRYSTAL STRUCTURE OF A MYCOBACTERIUM ALDO- KETO REDUCTASE IN ITS APO AND LIGANDED FORM