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(-) Description

Title :  CRYSTAL STRUCTURE OF BRANCHED-CHAIN ALPHA-KETO ACID DEHYDROGENASE SUBUNIT E2 FROM MYCOBACTERIUM TUBERCULOSIS
 
Authors :  W. D. Zencheck, J. B. Bonanno, Y. Patskovsky, R. Toro, J. Freeman, J. M. S S. K. Burley, S. C. Almo, New York Sgx Research Center For Struct Genomics (Nysgxrc)
Date :  22 Dec 09  (Deposition) - 05 Jan 10  (Release) - 09 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (3x)
Keywords :  Structural Genomics, Psi-2, Dehydrogenase, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. D. Zencheck, J. B. Bonanno, Y. Patskovsky, R. Toro, J. Freeman, J. M. Sauder, S. K. Burley, S. C. Almo
Crystal Structure Of Branched-Chain Alpha-Keto Acid Dehydrogenase Subunit E2 From Mycobacterium Tuberculosis
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - BRANCHED-CHAIN ALPHA-KETO ACID DEHYDROGENASE
    Chains: A
    EC Number: 2.3.1.12
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: C-TERMINAL FRAGMENT, RESIDUES 155-393
    Gene: PDHC, RV2495C
    Organism Scientific: MYCOBACTERIUM TUBERCULOSIS
    Organism Taxid: 1773
    Synonym: PROBABLE DIHYDROLIPOAMIDE S-ACETYLTRANSFERASE E2 COMPONENT PDHC (LIPOATE ACETYLTRANSFERASE) (THIOLTRANSACETYLASE A)

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (3x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1UNL1Ligand/IonUNKNOWN LIGAND
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1UNL3Ligand/IonUNKNOWN LIGAND

(-) Sites  (0, 0)

(no "Site" information available for 3L60)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3L60)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1His A:328 -Pro A:329

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3L60)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3L60)

(-) Exons   (0, 0)

(no "Exon" information available for 3L60)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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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:229
 aligned with BKDC_MYCTU | O06159 from UniProtKB/Swiss-Prot  Length:393

    Alignment length:229
                                   174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384         
           BKDC_MYCTU   165 PDVRPVHGVHARMAEKMTLSHKEIPTAKASVEVICAELLRLRDRFVSAAPEITPFALTLRLLVIALKHNVILNSTWVDSGEGPQVHVHRGVHLGFGAATERGLLVPVVTDAQDKNTRELASRVAELITGAREGTLTPAELRGSTFTVSNFGALGVDDGVPVINHPEAAILGLGAIKPRPVVVGGEVVARPTMTLTCVFDHRVVDGAQVAQFMCELRDLIESPETALLDL 393
               SCOP domains d3l60a_ A: automated matches                                                                                                                                                                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhh.eeeeeeeeehhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh.eeee......eeee.....eee.eee..eee..ee.hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhh...eeeehhhhhh.............eeeee...eeeeeee..eeeeeeeeeeeeeee....hhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3l60 A 165 PDVRPVHGVHARMAEKMTLSHKEIPTAKASVEVICAELLRLRDRFVSAAPEITPFALTLRLLVIALKHNVILNSTWVDSGEGPQVHVHRGVHLGFGAATERGLLVPVVTDAQDKNTRELASRVAELITGAREGTLTPAELRGSTFTVSNFGALGVDDGVPVINHPEAAILGLGAIKPRPVVVGGEVVARPTMTLTCVFDHRVVDGAQVAQFMCELRDLIESPETALLDL 393
                                   174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384
   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, 1)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3L60)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3L60)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A   (BKDC_MYCTU | O06159)
molecular function
    GO:0043754    dihydrolipoyllysine-residue (2-methylpropanoyl)transferase activity    Catalysis of the reaction: 2-methylpropanoyl-CoA + enzyme N6-(dihydrolipoyl)lysine = CoA + enzyme N6-(S-[2-methylpropanoyl]dihydrolipoyl)lysine.
    GO:0004739    pyruvate dehydrogenase (acetyl-transferring) activity    Catalysis of the reaction: pyruvate + lipoamide = S-acetyldihydrolipoamide + CO2.
    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: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:0005618    cell wall    The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, most prokaryotic cells and some protozoan parasites, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan; in protozoan parasites such as Giardia species, it's made of carbohydrates and proteins.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

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