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(-) Description

Title :  CRYSTAL STRUCTURE OF ENOYL-COA HYDRATASE FROM MYCOBACTERIUM SMEGMATIS, IODIDE SOAK
 
Authors :  Seattle Structural Genomics Center For Infectious Disease (S
Date :  17 Jun 10  (Deposition) - 28 Jul 10  (Release) - 11 Mar 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Ssgcid, Enoyl-Coa Hydratase, Iodide Sad, Seattle Structural Genomics Center For Infectious Disease, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Abendroth, A. S. Gardberg, J. I. Robinson, J. S. Christensen, B. L. Staker, P. J. Myler, L. J. Stewart, T. E. Edwards
Sad Phasing Using Iodide Ions In A High-Throughput Structural Genomics Environment.
J. Struct. Funct. Genom. V. 12 83 2011
PubMed-ID: 21359836  |  Reference-DOI: 10.1007/S10969-011-9101-7
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ENOYL-COA HYDRATASE
    Chains: A, B
    EC Number: 4.2.1.17
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: AVA0421
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: MSMEG_1388
    Organism Scientific: MYCOBACTERIUM SMEGMATIS
    Organism Taxid: 246196
    Strain: ATCC 700084 / MC(2)155

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 27)

Asymmetric/Biological Unit (1, 27)
No.NameCountTypeFull Name
1IOD27Ligand/IonIODIDE ION

(-) Sites  (18, 18)

Asymmetric Unit (18, 18)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG B:31 , GLU B:33BINDING SITE FOR RESIDUE IOD A 313
02AC2SOFTWAREARG A:298 , HOH A:506BINDING SITE FOR RESIDUE IOD A 314
03AC3SOFTWAREARG B:308BINDING SITE FOR RESIDUE IOD B 313
04AC4SOFTWAREARG A:307BINDING SITE FOR RESIDUE IOD A 315
05AC5SOFTWAREGLY B:306BINDING SITE FOR RESIDUE IOD B 314
06AC6SOFTWAREGLY A:100 , IOD A:323BINDING SITE FOR RESIDUE IOD A 316
07AC7SOFTWAREARG B:298BINDING SITE FOR RESIDUE IOD B 316
08AC8SOFTWAREASP A:22BINDING SITE FOR RESIDUE IOD A 318
09AC9SOFTWAREGLY B:100BINDING SITE FOR RESIDUE IOD B 319
10BC1SOFTWAREHOH A:488BINDING SITE FOR RESIDUE IOD A 321
11BC2SOFTWAREGLY B:258 , THR B:261BINDING SITE FOR RESIDUE IOD B 320
12BC3SOFTWAREGLY A:258 , THR A:261BINDING SITE FOR RESIDUE IOD A 322
13BC4SOFTWAREIOD A:316BINDING SITE FOR RESIDUE IOD A 323
14BC5SOFTWAREHOH A:402BINDING SITE FOR RESIDUE IOD A 324
15BC6SOFTWAREHOH B:608BINDING SITE FOR RESIDUE IOD B 322
16BC7SOFTWAREGLY B:68BINDING SITE FOR RESIDUE IOD B 323
17BC8SOFTWARESER A:47BINDING SITE FOR RESIDUE IOD A 325
18BC9SOFTWAREGLY B:95 , SER B:99BINDING SITE FOR RESIDUE IOD B 324

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3NJB)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3NJB)

(-) 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:290
 aligned with A0QS86_MYCS2 | A0QS86 from UniProtKB/TrEMBL  Length:312

    Alignment length:305
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307     
         A0QS86_MYCS2     8 VDFDNLKTMTYEVTDRVARITFNRPEKGNAIVADTPLELSALVERADLDPDVHVILVSGRGEGFCAGFDLSAYAEGSSSAGGGSPYEGTVLSGKTQALNHLPDEPWDPMVDYQMMSRFVRGFASLMHCDKPTVVKIHGYCVAGGTDIALHADQVIAAADAKIGYPPMRVWGVPAAGLWAHRLGDQRAKRLLFTGDCITGAQAAEWGLAVEAPDPADLDARTERLVERIAAMPVNQLIMAKLACNTALLNQGVATSQMVSTVFDGIARHTPEGHAFVATAREHGFREAVRRRDEPMGDHGRRASDV 312
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeeee..eeeeee.hhhhh....hhhhhhhhhhhhhhhhh....eeeeee..........---------------.......hhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh...eeeee..eeehhhhhhhh...eeee....eee.hhhh........hhhhhhhhhhhhhhhh...eeehhhhhhh.......hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3njb A   8 VDFDNLKTMTYEVTDRVARITFNRPEKGNAIVADTPLELSALVERADLDPDVHVILVSGRGEGFCAGFD---------------PYEGTVLSGKTQALNHLPDEPWDPMVDYQMMSRFVRGFASLMHCDKPTVVKIHGYCVAGGTDIALHADQVIAAADAKIGYPPMRVWGVPAAGLWAHRLGDQRAKRLLFTGDCITGAQAAEWGLAVEAPDPADLDARTERLVERIAAMPVNQLIMAKLACNTALLNQGVATSQMVSTVFDGIARHTPEGHAFVATAREHGFREAVRRRDEPMGDHGRRASDV 312
                                    17        27        37        47        57        67        |-         -    |   97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307     
                                                                                               76              92                                                                                                                                                                                                                            


Chain B from PDB  Type:PROTEIN  Length:291
 aligned with A0QS86_MYCS2 | A0QS86 from UniProtKB/TrEMBL  Length:312

    Alignment length:306
                                    16        26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306      
         A0QS86_MYCS2     7 PVDFDNLKTMTYEVTDRVARITFNRPEKGNAIVADTPLELSALVERADLDPDVHVILVSGRGEGFCAGFDLSAYAEGSSSAGGGSPYEGTVLSGKTQALNHLPDEPWDPMVDYQMMSRFVRGFASLMHCDKPTVVKIHGYCVAGGTDIALHADQVIAAADAKIGYPPMRVWGVPAAGLWAHRLGDQRAKRLLFTGDCITGAQAAEWGLAVEAPDPADLDARTERLVERIAAMPVNQLIMAKLACNTALLNQGVATSQMVSTVFDGIARHTPEGHAFVATAREHGFREAVRRRDEPMGDHGRRASDV 312
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
           Pfam domains (1) -----------------------------------------------------------------------------------------------------------ECH-3njbB01 B:114-277                                                                                                                                               ----------------------------------- Pfam domains (1)
           Pfam domains (2) -----------------------------------------------------------------------------------------------------------ECH-3njbB02 B:114-277                                                                                                                                               ----------------------------------- Pfam domains (2)
           Pfam domains (3) -----------------------------------------------------------------------------------------------------------ECH-3njbB03 B:114-277                                                                                                                                               ----------------------------------- Pfam domains (3)
           Pfam domains (4) -----------------------------------------------------------------------------------------------------------ECH-3njbB04 B:114-277                                                                                                                                               ----------------------------------- Pfam domains (4)
         Sec.struct. author .........eeeeee..eeeeee.hhhhh....hhhhhhhhhhhhhhhhh....eeeeee..........---------------.......hhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh...eeeee..eeehhhhhhhh...eeee....eee.hhhhh.......hhhhhhhhhhhhhhhh...eeehhhhhhh.......hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3njb B   7 PVDFDNLKTMTYEVTDRVARITFNRPEKGNAIVADTPLELSALVERADLDPDVHVILVSGRGEGFCAGFD---------------PYEGTVLSGKTQALNHLPDEPWDPMVDYQMMSRFVRGFASLMHCDKPTVVKIHGYCVAGGTDIALHADQVIAAADAKIGYPPMRVWGVPAAGLWAHRLGDQRAKRLLFTGDCITGAQAAEWGLAVEAPDPADLDARTERLVERIAAMPVNQLIMAKLACNTALLNQGVATSQMVSTVFDGIARHTPEGHAFVATAREHGFREAVRRRDEPMGDHGRRASDV 312
                                    16        26        36        46        56        66        76         -     |  96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306      
                                                                                                76              92
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (0, 0)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Clan: ClpP_crotonase (88)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (A0QS86_MYCS2 | A0QS86)
molecular function
    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:0004300    enoyl-CoA hydratase activity    Catalysis of the reaction: (3S)-3-hydroxyacyl-CoA = trans-2-enoyl-CoA + H2O.
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
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.

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 Related Entries

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        A0QS86_MYCS2 | A0QS86: 3njd

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