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(-) Description

Title :  CRYSTAL STRUCTURES OF CG1458
 
Authors :  T. T. Ran, D. Q. Xu, W. W. Wang, Y. Y. Gao, M. T. Wang
Date :  15 Jan 12  (Deposition) - 28 Nov 12  (Release) - 28 Nov 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Oxaloacetate Decarboxylase, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Ran, Y. Gao, M. Marsh, W. Zhu, M. Wang, X. Mao, L. Xu, D. Xu, W. Wang
Crystal Structures Of Cg1458 Reveal A Catalytic Lid Domain And A Common Catalytic Mechanism For Fah Family.
Biochem. J. V. 449 51 2013
PubMed-ID: 23046410  |  Reference-DOI: 10.1042/BJ20120913

(-) Compounds

Molecule 1 - 2-HYDROXYHEPTA-2,4-DIENE-1,7-DIOATE ISOMERASE
    Chains: A, B
    EC Number: 5.3.3.-, 4.1.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: CORYNEBACTERIUM GLUTAMICUM
    Organism Taxid: 1718
    Synonym: 2-KETO-4-PENTENOATE HYDRATASE/2-OXOHEPTA-3-ENE-1,7-DIOIC ACID HYDRATASE (CATECHOL PATHWAY)

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric/Biological Unit (1, 3)
No.NameCountTypeFull Name
1MG3Ligand/IonMAGNESIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:116 , GLU A:118 , ASP A:147 , LYS A:164 , HOH A:501 , HOH A:502 , HOH A:503BINDING SITE FOR RESIDUE MG A 401
2AC2SOFTWAREASP A:10 , HOH A:508 , HOH A:509 , HOH A:510 , HOH A:511 , HOH A:576BINDING SITE FOR RESIDUE MG A 402
3AC3SOFTWAREGLU B:116 , GLU B:118 , ASP B:147 , HOH B:501 , HOH B:502 , HOH B:503BINDING SITE FOR RESIDUE MG B 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4DBF)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Gly A:173 -Pro A:174
2Gly B:173 -Pro B:174

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4DBF)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4DBF)

(-) Exons   (0, 0)

(no "Exon" information available for 4DBF)

(-) 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:258
 aligned with Q8NQY2_CORGL | Q8NQY2 from UniProtKB/TrEMBL  Length:268

    Alignment length:269
                             1                                                                                                                                                                                                                                                                           
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259         
         Q8NQY2_CORGL     - -MRFGRIATPDGMCFCSIEGEGDDVANLTAREIEGTPFTEPKFTGREWPLKDVRLLAPMLPSKVVAIGRNYADHVAEVFKKSAESLPPTLFLKPPTAVTGPESPIRIPSFATKVEFEGELAVVIGKPCKNVKADDWKSVVLGFTIINDVSSRDLQFADGQWARAKGIDTFGPIGPWIETDINSIDLDNLPIKARLTHDGETQLKQDSNSNQMIMKMGEIIEFITASMTLLPGDVIATGSPAGTEAMVDGDYIEIEIPGIGKLGNPVVDA 268
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee..eeeeeeee....hhhh.eeeee.........eeeeeee.hhheee.......eeeee.....-----------....eeeeehhh.ee.....eee......ee..eeeeeee.......hhhhhhh.eeeeeeee..eehhhhhhhh.hhhhhhh...eeeeeeee.hhhhh.....eeeeeeee..eeeeeeeee.hhh..hhhhhhhhhhh........eee..............eeeeee...eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4dbf A   0 HMRFGRIATPDGMCFCSIEGEGDDVANLTAREIEGTPFTEPKFTGREWPLKDVRLLAPMLPSKVVAIGRNYAD-----------SLPPTLFLKPPTAVTGPESPIRIPSFATKVEFEGELAVVIGKPCKNVKADDWKSVVLGFTIINDVSSRDLQFADGQWARAKGIDTFGPIGPWIETDINSIDLDNLPIKARLTHDGETQLKQDSNSNQMIMKMGEIIEFITASMTLLPGDVIATGSPAGTEAMVDGDYIEIEIPGIGKLGNPVVDA 268
                                     9        19        29        39        49        59        69  |      -    |   89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259         
                                                                                                   72          84                                                                                                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:257
 aligned with Q8NQY2_CORGL | Q8NQY2 from UniProtKB/TrEMBL  Length:268

    Alignment length:269
                             1                                                                                                                                                                                                                                                                           
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259         
         Q8NQY2_CORGL     - -MRFGRIATPDGMCFCSIEGEGDDVANLTAREIEGTPFTEPKFTGREWPLKDVRLLAPMLPSKVVAIGRNYADHVAEVFKKSAESLPPTLFLKPPTAVTGPESPIRIPSFATKVEFEGELAVVIGKPCKNVKADDWKSVVLGFTIINDVSSRDLQFADGQWARAKGIDTFGPIGPWIETDINSIDLDNLPIKARLTHDGETQLKQDSNSNQMIMKMGEIIEFITASMTLLPGDVIATGSPAGTEAMVDGDYIEIEIPGIGKLGNPVVDA 268
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee..eeeeeeeee...hhh.eeeeeee.......eeeeeeee.hhh..........eeeee....------------....eeeeehhh.ee.....eee......ee..eeeeeee.......hhhhhhh.eeeeeeee..eehhhhhhhh.hhhhhhh...eeeeeeee.hhhhh.....eeeeeeee..eeeeeeeee.hhh..hhhhhhhhhhh........eee..............eeeeee...eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4dbf B   0 HMRFGRIATPDGMCFCSIEGEGDDVANLTAREIEGTPFTEPKFTGREWPLKDVRLLAPMLPSKVVAIGRNYA------------SLPPTLFLKPPTAVTGPESPIRIPSFATKVEFEGELAVVIGKPCKNVKADDWKSVVLGFTIINDVSSRDLQFADGQWARAKGIDTFGPIGPWIETDINSIDLDNLPIKARLTHDGETQLKQDSNSNQMIMKMGEIIEFITASMTLLPGDVIATGSPAGTEAMVDGDYIEIEIPGIGKLGNPVVDA 268
                                     9        19        29        39        49        59        69 |       -    |   89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259         
                                                                                                  71           84
   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 4DBF)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4DBF)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4DBF)

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q8NQY2_CORGL | Q8NQY2)
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:0016853    isomerase activity    Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
    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.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
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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        Q8NQY2_CORGL | Q8NQY2: 4dbh

(-) Related Entries Specified in the PDB File

4dbh