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(-) Description

Title :  CRYSTAL STRUCTURE OF THE ACIDAMINOCOCCUS FERMENTANS (R)-2-HYDROXYGLUTARYL-COA DEHYDRATASE COMPONENT A
 
Authors :  K. P. Locher, M. Hans, A. P. Yeh, B. Schmid, W. Buckel, D. C. Rees
Date :  04 Jan 01  (Deposition) - 21 Mar 01  (Release) - 24 Mar 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Actin Fold, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. P. Locher, M. Hans, A. P. Yeh, B. Schmid, W. Buckel, D. C. Rees
Crystal Structure Of The Acidaminococcus Fermentans 2-Hydroxyglutaryl-Coa Dehydratase Component A.
J. Mol. Biol. V. 307 297 2001
PubMed-ID: 11243821  |  Reference-DOI: 10.1006/JMBI.2000.4496
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ACTIVATOR OF (R)-2-HYDROXYGLUTARYL-COA DEHYDRATASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMH6
    Expression System Strain: XL-1 BLUE
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: HGDC
    Organism Scientific: ACIDAMINOCOCCUS FERMENTANS
    Organism Taxid: 905

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1ADP2Ligand/IonADENOSINE-5'-DIPHOSPHATE
2SF41Ligand/IonIRON/SULFUR CLUSTER

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:127 , ALA A:128 , CYS A:166 , THR A:167 , CYS B:127 , CYS B:166 , THR B:167BINDING SITE FOR RESIDUE SF4 A 290
2AC2SOFTWAREGLY A:11 , SER A:12 , THR A:13 , ALA A:14 , LYS A:16 , GLY A:104 , GLY A:105 , GLY A:132 , VAL A:146 , SER A:147 , GLY A:217 , VAL A:218 , GLN A:220 , GLN A:243BINDING SITE FOR RESIDUE ADP A 506
3AC3SOFTWAREGLY B:11 , SER B:12 , THR B:13 , LYS B:16 , GLY B:104 , GLY B:105 , GLY B:132 , VAL B:146 , SER B:147 , GLY B:217 , VAL B:218 , GLN B:220 , GLN B:243BINDING SITE FOR RESIDUE ADP B 507

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1HUX)

(-) Exons   (0, 0)

(no "Exon" information available for 1HUX)

(-) 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:259
 aligned with HGDC_ACIFV | P11568 from UniProtKB/Swiss-Prot  Length:260

    Alignment length:259
                                    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         
           HGDC_ACIFV     2 SIYTLGIDVGSTASKCIILKDGKEIVAKSLVAVGTGTSGPARSISEVLENAHMKKEDMAFTLATGYGRNSLEGIADKQMSELSCHAMGASFIWPNVHTVIDIGGQDVKVIHVENGTMTNFQMNDKCAAGTGRFLDVMANILEVKVSDLAELGAKSTKRVAISSTCTVFAESEVISQLSKGTDKIDIIAGIHRSVASRVIGLANRVGIVKDVVMTGGVAQNYGVRGALEEGLGVEIKTSPLAQYNGALGAALYAYKKAAK 260
               SCOP domains d1huxa_ A: Hydroxyglutaryl-CoA dehydratase component A                                                                                                                                                                                                              SCOP domains
               CATH domains 1huxA01 A:2-97,A:238-260  [code=3.30.420.40, no name defined]                                   1huxA02 A:98-237  [code=3.30.420.40, no name defined]                                                                                       1huxA01                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee...eeeeeeee...eeeeeeeee.....hhhhhhhhhhhhhhh.hhhhh.eeeee............eeehhhhhhhhhhhhhh....eeeeee..eeeeeeee..eeeeeeee......hhhhhhhhhhhhh....hhhhhhh...........hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh......eeeehhhhhhhhhhhhhhhhhh..ee.hhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1hux A   2 SIYTLGIDVGSTASKCIILKDGKEIVAKSLVAVGTGTSGPARSISEVLENAHMKKEDMAFTLATGYGRNSLEGIADKQMSELSCHAMGASFIWPNVHTVIDIGGQDVKVIHVENGTMTNFQMNDKCAAGTGRFLDVMANILEVKVSDLAELGAKSTKRVAISSTCTVFAESEVISQLSKGTDKIDIIAGIHRSVASRVIGLANRVGIVKDVVMTGGVAQNYGVRGALEEGLGVEIKTSPLAQYNGALGAALYAYKKAAK 260
                                    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         


Chain B from PDB  Type:PROTEIN  Length:259
 aligned with HGDC_ACIFV | P11568 from UniProtKB/Swiss-Prot  Length:260

    Alignment length:259
                                    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         
           HGDC_ACIFV     2 SIYTLGIDVGSTASKCIILKDGKEIVAKSLVAVGTGTSGPARSISEVLENAHMKKEDMAFTLATGYGRNSLEGIADKQMSELSCHAMGASFIWPNVHTVIDIGGQDVKVIHVENGTMTNFQMNDKCAAGTGRFLDVMANILEVKVSDLAELGAKSTKRVAISSTCTVFAESEVISQLSKGTDKIDIIAGIHRSVASRVIGLANRVGIVKDVVMTGGVAQNYGVRGALEEGLGVEIKTSPLAQYNGALGAALYAYKKAAK 260
               SCOP domains d1huxb_ B: Hydroxyglutaryl-CoA dehydratase component A                                                                                                                                                                                                              SCOP domains
               CATH domains 1huxB01 B:2-97,B:238-260  [code=3.30.420.40, no name defined]                                   1huxB02 B:98-237  [code=3.30.420.40, no name defined]                                                                                       1huxB01                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee...eeeeeeee...eeeeeeeee.....hhhhhhhhhhhhhhh.hhh.eeeeeee..hhhhh.....ee.hhhhhhhhhhhhhh....eeeeee..eeeeeeee..eeeeeeee......hhhhhhhhhhhhh....hhhhhhh...........hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh......eeeehhhhhhhhhhhhhhhhhh..ee.hhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1hux B   2 SIYTLGIDVGSTASKCIILKDGKEIVAKSLVAVGTGTSGPARSISEVLENAHMKKEDMAFTLATGYGRNSLEGIADKQMSELSCHAMGASFIWPNVHTVIDIGGQDVKVIHVENGTMTNFQMNDKCAAGTGRFLDVMANILEVKVSDLAELGAKSTKRVAISSTCTVFAESEVISQLSKGTDKIDIIAGIHRSVASRVIGLANRVGIVKDVVMTGGVAQNYGVRGALEEGLGVEIKTSPLAQYNGALGAALYAYKKAAK 260
                                    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
   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, 2)

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

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (HGDC_ACIFV | P11568)
molecular function
    GO:0051539    4 iron, 4 sulfur cluster binding    Interacting selectively and non-covalently with a 4 iron, 4 sulfur (4Fe-4S) cluster; this cluster consists of four iron atoms, with the inorganic sulfur atoms found between the irons and acting as bridging ligands.
    GO:0051536    iron-sulfur cluster binding    Interacting selectively and non-covalently with an iron-sulfur cluster, a combination of iron and sulfur atoms.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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