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(-) Description

Title :  CRYSTAL STRUCTURE OF PUTATIVE SHORT-CHAIN OXIDOREDUCTASE TTHB094 FROM THERMUS THERMOPHILUS HB8
 
Authors :  Y. Agari, A. Shinkai, S. Yokoyama, S. Kuramitsu, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  06 Apr 07  (Deposition) - 09 Oct 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Alpha And Beta Proteins (A/B), Nad(P)-Binding Rossmann-Fold Domains, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Agari, A. Shinkai, S. Kuramitsu
Crystal Structure Of Putative Short-Chain Oxidoreductase Tthb094 From Thermus Thermophilus Hb8
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE SHORT-CHAIN OXIDOREDUCTASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-11A
    Expression System Strain: B834(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: THERMUS THERMOPHILUS
    Organism Taxid: 300852
    Strain: HB8

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1MSE2Mod. Amino AcidSELENOMETHIONINE
2NAP1Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1MSE4Mod. Amino AcidSELENOMETHIONINE
2NAP2Ligand/IonNADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:7 , THR A:9 , GLY A:10 , GLY A:11 , LEU A:12 , ARG A:30 , ARG A:31 , ALA A:49 , ASP A:50 , LEU A:51 , ALA A:73 , VAL A:74 , GLY A:75 , LYS A:76 , HIS A:97 , TYR A:134 , LYS A:138 , PRO A:165 , ALA A:166 , VAL A:167 , THR A:169 , LEU A:171 , TRP A:172 , HOH A:508 , HOH A:517 , HOH A:526 , HOH A:567 , HOH A:589 , HOH A:599 , HOH A:602 , HOH A:607 , HOH A:613 , HOH A:619BINDING SITE FOR RESIDUE NAP A 500

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

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(-) Exons   (0, 0)

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(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  UniProt sequence: complete  aligned part    
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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:202
 aligned with Q53W68_THET8 | Q53W68 from UniProtKB/TrEMBL  Length:207

    Alignment length:207
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       
         Q53W68_THET8     1 MRVLITGATGGLGGAFARALKGHDLLLSGRRAGALAELAREVGARALPADLADELEAKALLEEAGPLDLLVHAVGKAGRASVREAGRDLVEEMLAAHLLTAAFVLKHARFQKGARAVFFGAYPRYVQVPGFAAYAAAKGALEAYLEAARKELLREGVHLVLVRLPAVATGLWAPLGGPPKGALSPEEAARKVLEGLFREPVPALLEV 207
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -adh_short-2yutA01 A:2-153                                                                                                                               --------------------------------------------  -------- Pfam domains
         Sec.struct. author .eeeee...hhhhhhhhhhh...eeeee..hhhhhhhhhhhhh.ee......hhhhhhhhhhhhh.eeeeee............---hhhhhhhhhhhhhhhhhhhhh.eeeeeeeeee..hhhhhh...hhhhhhhhhhhhhhhhhhhhhhhh...eeeee......hhhhhhhh.......hhhhhhhhhhhhhh--........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2yut A   1 mRVLITGATGGLGGAFARALKGHDLLLSGRRAGALAELAREVGARALPADLADELEAKALLEEAGPLDLLVHAVGKAGRASVRE---DLVEEmLAAHLLTAAFVLKHARFQKGARAVFFGAYPRYVQVPGFAAYAAAKGALEAYLEAARKELLREGVHLVLVRLPAVATGLWAPLGGPPKGALSPEEAARKVLEGLF--PVPALLEV 207
                            |       10        20        30        40        50        60        70        80   |   |90  |    100       110       120       130       140       150       160       170       180       190      |200       
                            |                                                                                 84  88    |                                                                                                     197  |       
                            1-MSE                                                                                      93-MSE                                                                                                    200
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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 2YUT)

(-) CATH Domains  (0, 0)

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(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: NADP_Rossmann (1239)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q53W68_THET8 | Q53W68)
molecular function
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    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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