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(-) Description

Title :  CRYSTAL STRUCTURE OF THE DEHYDROGENASE PART OF MULTIFUCTIONAL ENZYME 1 FROM C.ELEGANS
 
Authors :  Z. Ouyang, K. Zhang, Y. Zhai, J. Lu, F. Sun
Date :  09 Oct 09  (Deposition) - 13 Oct 10  (Release) - 13 Oct 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A
Keywords :  Rossmann Fold, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. Ouyang, K. Zhang, Y. Zhai, J. Lu, F. Sun
Crystal Structure Of The Dehydrogenase Part Of Multifuctional Enzyme 1 From C. Elegans
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PROTEIN F01G10.3, CONFIRMED BY TRANSCRIPT EVIDENCE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Fragment: THE DEHYDROGENASE PART (UNP RESIDUES 7-426)
    Gene: ECH-9, F01G10.3
    Organism Common: NEMATODE
    Organism Scientific: CAENORHABDITIS ELEGANS
    Organism Taxid: 6239

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
1PO44Ligand/IonPHOSPHATE ION
2ZN1Ligand/IonZINC ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:179 , ARG A:182 , LYS A:208 , LYS A:209 , HOH A:588BINDING SITE FOR RESIDUE PO4 A 500
2AC2SOFTWAREVAL A:214 , GLY A:215 , LYS A:218 , ILE A:364 , SER A:365 , SER A:368 , HOH A:557 , HOH A:649 , HOH A:653 , HOH A:678BINDING SITE FOR RESIDUE PO4 A 501
3AC3SOFTWAREARG A:85 , GLU A:86 , ARG A:91 , ASN A:176BINDING SITE FOR RESIDUE PO4 A 502
4AC4SOFTWARETHR A:49 , HOH A:593 , HOH A:646 , HOH A:658BINDING SITE FOR RESIDUE PO4 A 503
5AC5SOFTWAREHIS A:-5 , HIS A:173 , GLU A:185 , CYS A:217BINDING SITE FOR RESIDUE ZN A 800

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3K6J)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Asn A:176 -Pro A:177
2Gly A:280 -Leu A:281
3Leu A:281 -Glu A:282

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3K6J)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3K6J)

(-) Exons   (0, 0)

(no "Exon" information available for 3K6J)

(-) 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:430
 aligned with O17762_CAEEL | O17762 from UniProtKB/TrEMBL  Length:434

    Alignment length:433
                               1 3    4                                                                                                                                                                                                                                                                                                                                                                                                                                      
                               | |   -|       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       343       353       363       373       383       393       403       413       423   
         O17762_CAEEL     - ---MGK----VPEEVRSYLMEAHSLAGQWSLPNDRGDHTNSEAYDVNSVAIIGGGTMGKAMAICFGLAGIETFLVVRNEQRCKQELEVMYAREKSFKRLNDKRIEKINANLKITSDFHKLSNCDLIVESVIEDMKLKKELFANLENICKSTCIFGTNTSSLDLNEISSVLRDPSNLVGIHFFNPANVIRLVEIIYGSHTSSQAIATAFQACESIKKLPVLVGNCKSFVFNRLLHVYFDQSQKLMYEYGYLPHQIDKIITNFGFLMGPMTVADMNGFDVMEKLKKENGLEPNPIEKEMWRLKRYGRKTNKGFYKYDDKTQRKENDTEMEQIIRRVSQNAKSNIQIINDQDVINFMLYPTVNEGYRCIEEGVISNESLIDIMFILGFGWPIHSGGPMRFGKTEGLDKIANMLVHWSSLEPKESAYIVADALKTAN 426
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -----------------------------------------------3HCDH_N-3k6jA02 A:41-217                                                                                                                                                         --3HCDH-3k6jA01 A:220-307                                                                 ----------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhh.hhhhhhhhhh.........................eeeee..hhhhhhhhhhhhhh..eeeee..hhhhhhhhhhhhhhhhhhh...hhhhhhhhhh.eeee.hhhhh....eeee....hhhhhhhhhhhhhh......eeee.....hhhhhhh...hhh.eeeee.........eeeee.....hhhhhhhhhhhhhhh..eeeee...hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh...hhhhh....ee......ee.hhhhhhhhhhh---........hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh.....ee..ee........hhhhhhhhhhhhhhh..hhhhh.hhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3k6j A  -6 HHSTGENLYFQGSEVRSYLMEAHSLAGQWSLPNDRGDHTNSEAYDVNSVAIIGGGTMGKAMAICFGLAGIETFLVVRNEQRCKQELEVMYAREKSFKRLNDKRIEKINANLKITSDFHKLSNCDLIVESVIEDMKLKKELFANLENICKSTCIFGTNTSSLDLNEISSVLRDPSNLVGIHFFNPANVIRLVEIIYGSHTSSQAIATAFQACESIKKLPVLVGNCKSFVFNRLLHVYFDQSQKLMYEYGYLPHQIDKIITNFGFLMGPMTVADMNGFDVMEKLKKENGLEPNPIEKEMWRLKRYGRKTNKGFYKYDDKTQRKENDTEMEQIIRRV---AKSNIQIINDQDVINFMLYPTVNEGYRCIEEGVISNESLIDIMFILGFGWPIHSGGPMRFGKTEGLDKIANMLVHWSSLEPKESAYIVADALKTAN 426
                                     3        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       343       353       363       373       383       393       403       413       423   
                                                                                                                                                                                                                                                                                                                                                                       327 331
   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  (0, 0)

(no "SCOP Domain" information available for 3K6J)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3K6J)

(-) Pfam Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Clan: 6PGD_C (47)
(-)
Clan: NADP_Rossmann (1239)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (O17762_CAEEL | O17762)
molecular function
    GO:0003857    3-hydroxyacyl-CoA dehydrogenase activity    Catalysis of the reaction: (S)-3-hydroxyacyl-CoA + NAD+ = 3-oxoacyl-CoA + NADH + H(+).
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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:0006631    fatty acid metabolic process    The chemical reactions and pathways involving fatty acids, aliphatic monocarboxylic acids liberated from naturally occurring fats and oils by hydrolysis.
    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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