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(-) Description

Title :  LIPOYL DOMAIN OF PYRUVATE DEHYDROGENASE COMPLEX, NMR, 29 STRUCTURES
 
Authors :  A. Berg, J. Vervoort, A. De Kok
Date :  25 Sep 96  (Deposition) - 12 Mar 97  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (29x)
Keywords :  Glycolysis, Transferase, Acyltransferase, Lipoyl (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. Berg, J. Vervoort, A. De Kok
Three-Dimensional Structure In Solution Of The N-Terminal Lipoyl Domain Of The Pyruvate Dehydrogenase Complex From Azotobacter Vinelandii.
Eur. J. Biochem. V. 244 352 1997
PubMed-ID: 9119000  |  Reference-DOI: 10.1111/J.1432-1033.1997.00352.X
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - DIHYDROLIPOAMIDE ACETYLTRANSFERASE COMPONENT OF PYRUVATE DEHYDROGENASE COMPLEX
    ChainsA
    EC Number2.3.1.12
    FragmentLIPOYL DOMAIN, RESIDUES 1 - 79
    Organism ScientificAZOTOBACTER VINELANDII
    Organism Taxid354
    SynonymE2P

 Structural Features

(-) Chains, Units

  
NMR Structure (29x)

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (1, 1)

NMR Structure (1, 1)
No.NameEvidenceResiduesDescription
1LIPUNKNOWNLYS A:39LYS 39 IS THE LIPOYLATION SITE WHERE LIPOIC ACID (6,8 THIOCTIC ACID) IS COVALENTLY ATTACHED VIA AN AMIDE LINKAGE TO THE LYSINE SIDE CHAIN.

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 2)

NMR Structure (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1BIOTINYL_LIPOYLPS50968 Biotinyl/lipoyl domain profile.ODP2_AZOVI2-74
117-191
222-296
  1A:1-73
-
-
2LIPOYLPS00189 2-oxo acid dehydrogenases acyltransferase component lipoyl binding site.ODP2_AZOVI24-53
141-170
246-275
  1A:23-52
-
-

(-) Exons   (0, 0)

(no "Exon" information available for 1IYV)

(-) Sequences/Alignments

NMR Structure
   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
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Chain A from PDB  Type:PROTEIN  Length:79
 aligned with ODP2_AZOVI | P10802 from UniProtKB/Swiss-Prot  Length:638

    Alignment length:79
                                    11        21        31        41        51        61        71         
            ODP2_AZOVI    2 SEIIRVPDIGGDGEVIELLVKTGDLIEVEQGLVVLESAKASMEVPSPKAGVVKSVSVKLGDKLKEGDAIIELEPAAGAA 80
               SCOP domains d1iyva_ A: Lipoyl domain of dihydrolipoamide acetyltransferase                  SCOP domains
               CATH domains 1iyvA00 A:1-79  [code=2.40.50.100, no name defined]                             CATH domains
               Pfam domains ------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeee......eee....................................eeeee......eee...eeeeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) BIOTINYL_LIPOYL  PDB: A:1-73 UniProt: 2-74                               ------ PROSITE (1)
                PROSITE (2) ----------------------LIPOYL  PDB: A:23-52          --------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------- Transcript
                  1iyv A  1 SEIIRVPDIGGDGEVIELLVKTGDLIEVEQGLVVLESAKASMEVPSPKAGVVKSVSVKLGDKLKEGDAIIELEPAAGAR 79
                                    10        20        30        40        50        60        70         

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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)

NMR Structure

(-) CATH Domains  (1, 1)

NMR Structure
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (6, 6)

NMR Structure(hide GO term definitions)
Chain A   (ODP2_AZOVI | P10802)
molecular function
    GO:0004742    dihydrolipoyllysine-residue acetyltransferase activity    Catalysis of the reaction: acetyl-CoA + dihydrolipoamide = CoA + S-acetyldihydrolipoamide.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016746    transferase activity, transferring acyl groups    Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).
biological process
    GO:0006096    glycolytic process    The chemical reactions and pathways resulting in the breakdown of a carbohydrate into pyruvate, with the concomitant production of a small amount of ATP and the reduction of NAD(P) to NAD(P)H. Glycolysis begins with the metabolism of a carbohydrate to generate products that can enter the pathway and ends with the production of pyruvate. Pyruvate may be converted to acetyl-coenzyme A, ethanol, lactate, or other small molecules.
    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.
cellular component
    GO:0045254    pyruvate dehydrogenase complex    Complex that carries out the oxidative decarboxylation of pyruvate to form acetyl-CoA; comprises subunits possessing three catalytic activities: pyruvate dehydrogenase (E1), dihydrolipoamide S-acetyltransferase (E2), and dihydrolipoamide dehydrogenase (E3).

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 Related Entries

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

UniProtKB/Swiss-Prot
        ODP2_AZOVI | P108021dpb 1dpc 1dpd 1eaa 1eab 1eac 1ead 1eae 1eaf 1iyu

(-) Related Entries Specified in the PDB File

1iyu