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(-) Description

Title :  THE CRYSTAL STRUCTURE OF SUCCINYL-COA SYNTHETASE ALPHA SUBUNIT FROM THERMUS THERMOPHILUS
 
Authors :  H. Takahashi, Y. Tokunaga, C. Kuroishi, N. Babayeva, S. Kuramitsu, S. Yokoyama, M. Miyano, T. H. Tahirov
Date :  10 Jun 03  (Deposition) - 04 Jul 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.23
Chains :  Asym./Biol. Unit :  A
Keywords :  Synthetase, Succinyl-Coa Synthetase, Scs, Ligase, Riken Structural Genomics/Proteomics Initiative, Rsgi, Structural Genomics (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  H. Takahashi, Y. Tokunaga, C. Kuroishi, N. Babayeba, S. Kuramitsu, S. Yokoyama, M. Miyano, T. H. Tahirov
The Crystal Structure Of Succinyl-Coa Synthetase From Thermus Thermophilus
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - SUCCINYL-COA SYNTHETASE ALPHA CHAIN
    ChainsA
    EC Number6.2.1.5
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET 11A
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    MutationYES
    Organism ScientificTHERMUS THERMOPHILUS
    Organism Taxid300852
    StrainHB8
    SynonymSUCCINYL-COA SYNTHETASE, SCS-ALPHA, SUCD SCSA

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1OI7)

(-) Sites  (0, 0)

(no "Site" information available for 1OI7)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1OI7)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Gly A:120 -Gly A:121

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1OI7)

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1SUCCINYL_COA_LIG_1PS01216 ATP-citrate lyase / succinyl-CoA ligases family signature 1.SUCD_THETH151-180  1A:151-180
2SUCCINYL_COA_LIG_2PS00399 ATP-citrate lyase / succinyl-CoA ligases family active site.SUCD_THETH235-248  1A:235-236

(-) Exons   (0, 0)

(no "Exon" information available for 1OI7)

(-) 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:270
 aligned with SUCD_THETH | P09143 from UniProtKB/Swiss-Prot  Length:288

    Alignment length:288
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280        
           SUCD_THETH     1 MILVNRETRVLVQGITGREGQFHTKQMLDYGTKIVAGVTPGKGGTEVLGVPVYDTVKEAVAHHEVDASIIFVPAPAAADAALEAAHAGIPLIVLITEGIPTLDMVRAVEEIKALGSRLIGGNCPGIISAEETKIGIMPGHVFKRGRVGIISRSGTLTYEAAAALSQAGLGTTTTVGIGGDPVIGTTFKDLLPLFNEDPETEAVVLIGEIGGSDEEEAAAWVKDHMKKPVVGFIGGRSAPKGKRMGHAGAIIMGNVGTPESKLRAFAEAGIPVADTIDEIVELVKKALG 288
               SCOP domains d1oi7a1 A:1-121 Succinyl-CoA synthetase, alpha-chain, N-terminal (CoA-binding) domain                                    d1oi7a2 A:122-288 Succinyl-CoA synthetase, alpha-chain, C-terminal domain                                                                                               SCOP domains
               CATH domains 1oi7A01 A:1-122 NAD(P)-binding Rossmann-like Domain                                                                       1oi7A02 A:123-287  [code=3.40.50.261, no name defined]                                                                                                               - CATH domains
               Pfam domains ----CoA_binding-1oi7A01 A:5-98                                                                    ---------------------------------------------------Ligase_CoA-1oi7A02 A:150-270                                                                                             ------------------ Pfam domains
         Sec.struct. author ........eeeee...hhhhhhhhhhhhhhh.eeeeee.......ee..eeee.hhhhhhhhh...eeee..hhhhhhhhhhhhhhh...eeee.....hhhhhhhhhhhhhhhh.eeee....eeee...eeee..hhhhh....eeeee.hhhhhhhhhhhhhhh...eeeeee.........hhhhhhhhhhh.....eeeeee....hhhhhhhhhhhhhh...eeeee...------------------..hhhhhhhhhhhhh.....hhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------SUCCINYL_COA_LIG_1            ------------------------------------------------------SUCCINYL_COA_L---------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1oi7 A   1 MILVNRETRVLVQGITGREGQFHTKQMLTYGTKIVAGVTPGKGGMEVLGVPVYDTVKEAVAHHEVDASIIFVPAPAAADAALEAAHAGIPLIVLITEGIPTLDMVRAVEEIKALGSRLIGGNCPGIISAEETKIGIMPGHVFKRGRVGIISRSGTLTYEAAAALSQAGLGTTTTVGIGGDPVIGTTFKDLLPLFNEDPETEAVVLIGEIGGSDEEEAAAWVKDHMKKPVVGFIGGR------------------VGTPESKLRAFAEAGIPVADTIDEIVELVKKALG 288
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230     |   -         -    |  260       270       280        
                                                                                                                                                                                                                                                                     236                255                                 

   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  (2, 2)

Asymmetric/Biological Unit

(-) CATH Domains  (2, 2)

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

(-) Pfam Domains  (2, 2)

Asymmetric/Biological Unit

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (SUCD_THETH | P09143)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0048037    cofactor binding    Interacting selectively and non-covalently with a cofactor, a substance that is required for the activity of an enzyme or other protein. Cofactors may be inorganic, such as the metal atoms zinc, iron, and copper in certain forms, or organic, in which case they are referred to as coenzymes. Cofactors may either be bound tightly to active sites or bind loosely with the substrate.
    GO:0016874    ligase activity    Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
    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:0004775    succinate-CoA ligase (ADP-forming) activity    Catalysis of the reaction: ATP + succinate + CoA = ADP + succinyl-CoA + phosphate.
biological process
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0006099    tricarboxylic acid cycle    A nearly universal metabolic pathway in which the acetyl group of acetyl coenzyme A is effectively oxidized to two CO2 and four pairs of electrons are transferred to coenzymes. The acetyl group combines with oxaloacetate to form citrate, which undergoes successive transformations to isocitrate, 2-oxoglutarate, succinyl-CoA, succinate, fumarate, malate, and oxaloacetate again, thus completing the cycle. In eukaryotes the tricarboxylic acid is confined to the mitochondria. See also glyoxylate cycle.

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    Gly A:120 - Gly A:121   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        SUCD_THETH | P091433ufx

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