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(-) Description

Title :  NATIVE 2,5-DIKETO-D-GLUCONIC ACID REDUCTASE A FROM CORYNBACTERIUM SP. COMPLEXED WITH NADPH
 
Authors :  S. Khurana, D. B. Powers, S. Anderson, M. Blaber
Date :  31 Mar 98  (Deposition) - 30 Mar 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Oxidoreductase, Alpha8/Beta8 Barrel, 2, 5-Diketo-D-Gluconic Acid, Commercial Vitamin C Synthesis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Khurana, D. B. Powers, S. Anderson, M. Blaber
Crystal Structure Of 2, 5-Diketo-D-Gluconic Acid Reductase A Complexed With Nadph At 2. 1-A Resolution.
Proc. Natl. Acad. Sci. Usa V. 95 6768 1998
PubMed-ID: 9618487  |  Reference-DOI: 10.1073/PNAS.95.12.6768
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - 2,5-DIKETO-D-GLUCONIC ACID REDUCTASE A
    Chains: A
    Engineered: YES
    Expression System: PANTOEA CITREA
    Expression System Gene: 2 5-DIKETO-D-GLUCONIC ACID
    Expression System Plasmid: PTRP1-35
    Expression System Strain: IFO3263
    Expression System Taxid: 53336
    Gene: 2 5-DIKETO-D-GLUCONIC ACID
    Organism Scientific: CORYNEBACTERIUM SP.
    Organism Taxid: 1720
    Synonym: 2,5-DKG REDUCTASE A
    Variant: A

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1NDP1Ligand/IonNADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDEPHOSPHATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:20 , VAL A:21 , PHE A:22 , ASP A:45 , TYR A:50 , LYS A:75 , HIS A:108 , SER A:139 , ASN A:140 , GLN A:161 , TRP A:187 , GLY A:188 , PRO A:189 , LEU A:190 , GLY A:191 , GLN A:192 , ALA A:215 , PHE A:230 , PRO A:231 , LYS A:232 , SER A:233 , VAL A:234 , ARG A:235 , ARG A:238 , GLU A:241 , ASN A:242 , HOH A:332 , HOH A:342 , HOH A:352 , HOH A:396 , HOH A:406BINDING SITE FOR RESIDUE NDP A 300
2CICUNKNOWNPHE A:22 , ASP A:45 , ALA A:47 , TYR A:50 , LYS A:75 , LEU A:106 , SER A:139 , ASN A:140 , TRP A:187THE RESIDUE LINE THE ACTIVE SITE OF THE ENZYME.

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1A80)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1A80)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1A80)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ALDOKETO_REDUCTASE_1PS00798 Aldo/keto reductase family signature 1.DKGA_CORSC40-57  1A:40-57

(-) Exons   (0, 0)

(no "Exon" information available for 1A80)

(-) 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:277
 aligned with DKGA_CORSC | P06632 from UniProtKB/Swiss-Prot  Length:278

    Alignment length:277
                                    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       
           DKGA_CORSC     2 TVPSIVLNDGNSIPQLGYGVFKVPPADTQRAVEEALEVGYRHIDTAAIYGNEEGVGAAIAASGIARDDLFITTKLWNDRHDGDEPAAAIAESLAKLALDQVDLYLVHWPTPAADNYVHAWEKMIELRAAGLTRSIGVSNHLVPHLERIVAATGVVPAVNQIELHPAYQQREITDWAAAHDVKIESWGPLGQGKYDLFGAEPVTAAAAAHGKTPAQAVLRWHLQKGFVVFPKSVRRERLEENLDVFDFDLTDTEIAAIDAMDPGDGSGRVSAHPDEVD 278
               SCOP domains d1a80a_ A: 2,5-diketo-D-gluconic acid reductase A                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1a80A00 A:2-278 NADP-dependent oxidoreductase                                                                                                                                                                                                                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee.....eee.............hhhhhhhhhhh...eee..hhh..hhhhhhhhhh....hhh.eeeeee.hhh....hhhhhhhhhhhhh......eeee.........hhhhhhhhhhhhhh....eeee....hhhhhhhhhhh.....eeeee.......hhhhhhhhh...eeeee...hhh.......hhhhhhhhhh...hhhhhhhhhhhh..........hhhhhhhh........hhhhhhhhhh............hhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------ALDOKETO_REDUCTASE----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1a80 A   2 TVPSIVLNDGNSIPQLGYGVFKVPPADTQRAVEEALEVGYRHIDTAAIYGNEEGVGAAIAASGIARDDLFITTKLWNDRHDGDEPAAAIAESLAKLALDQVDLYLVHWPTPAADNYVHAWEKMIELRAAGLTRSIGVSNHLVPHLERIVAATGVVPAVNQIELHPAYQQREITDWAAAHDVKIESWGPLGQGKYDLFGAEPVTAAAAAHGKTPAQAVLRWHLQKGFVVFPKSVRRERLEENLDVFDFDLTDTEIAAIDAMDPGDGSGRVSAHPDEVD 278
                                    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
   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  (1, 1)

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

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1A80)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (DKGA_CORSC | P06632)
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:0019853    L-ascorbic acid biosynthetic process    The chemical reactions and pathways resulting in the formation of L-ascorbic acid; L-ascorbic acid ionizes to give L-ascorbate, (2R)-2-[(1S)-1,2-dihydroxyethyl]-4-hydroxy-5-oxo-2,5-dihydrofuran-3-olate, which is required as a cofactor in the oxidation of prolyl residues to hydroxyprolyl, and other reactions.
    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.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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  1a80
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 Related Entries

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

UniProtKB/Swiss-Prot
        DKGA_CORSC | P06632: 1hw6 1m9h

(-) Related Entries Specified in the PDB File

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