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(-) Description

Title :  STRUCTURE OF PENTAERYTHRITOL TETRANITRATE REDUCTASE AND COMPLEXED WITH 2,4 DINITROPHENOL
 
Authors :  T. Barna, P. C. E. Moody
Date :  22 Feb 02  (Deposition) - 20 Feb 03  (Release) - 01 May 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.38
Chains :  Asym./Biol. Unit :  A
Keywords :  Flavoenzyme, Explosive Degradation, Steroid Binding, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Khan, R. Harris, T. Barna, D. Craig, N. Bruce, A. Munro, P. C. E. Moody, N. Scrutton
Kinetic And Structural Basis Of Reactivity Of Pentaerythritol Tetranitrate Reductase With Nadph, 2-Cyclohexenone Nitroesters And Nitroaromatic Explosives
J. Biol. Chem. V. 277 21906 2002
PubMed-ID: 11923299  |  Reference-DOI: 10.1074/JBC.M200637200
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PENTAERYTHRITOL TETRANITRATE REDUCTASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PONR1
    Expression System Strain: JM109
    Expression System Taxid: 562
    Organism Scientific: ENTEROBACTER CLOACAE
    Organism Taxid: 550
    Other Details: 2,4 DINITROPHENOL IS BOUND IN THE ACTIVE SITE
    Other Details - Source: NCBI U68759. RECOMBINANT

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1DNF1Ligand/Ion2,4-DINITROPHENOL
2FMN1Ligand/IonFLAVIN MONONUCLEOTIDE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:23 , PRO A:24 , LEU A:25 , THR A:26 , ALA A:58 , GLN A:100 , HIS A:181 , HIS A:184 , ARG A:233 , LEU A:275 , ALA A:302 , GLY A:323 , ARG A:324 , TYR A:351 , DNF A:500 , HOH A:2740 , HOH A:2812 , HOH A:2813 , HOH A:2814 , HOH A:2815BINDING SITE FOR RESIDUE FMN A 401
2AC2SOFTWARETHR A:26 , TYR A:68 , TRP A:102 , HIS A:181 , HIS A:184 , TYR A:186 , GLN A:241 , TYR A:351 , FMN A:401 , HOH A:2478 , HOH A:2818BINDING SITE FOR RESIDUE DNF A 500

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Glu A:32 -Pro A:33

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1GVO)

(-) Exons   (0, 0)

(no "Exon" information available for 1GVO)

(-) 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:362
 aligned with P71278_ENTCL | P71278 from UniProtKB/TrEMBL  Length:365

    Alignment length:362
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363  
         P71278_ENTCL     4 EKLFTPLKVGAVTAPNRVFMAPLTRLRSIEPGDIPTPLMGEYYRQRASAGLIISEATQISAQAKGYAGAPGLHSPEQIAAWKKITAGVHAEDGRIAVQLWHTGRISHSSIQPGGQAPVSASALNANTRTSLRDENGNAIRVDTTTPRALELDEIPGIVNDFRQAVANAREAGFDLVELHSAHGYLLHQFLSPSSNQRTDQYGGSVENRARLVLEVVDAVCNEWSADRIGIRVSPIGTFQNVDNGPNEEADALYLIEELAKRGIAYLHMSETDLAGGKPYSEAFRQKVRERFHGVIIGAGAYTAEKAEDLIGKGLIDAVAFGRDYIANPDLVARLQKKAELNPQRPESFYGGGAEGYTDYPSL 365
               SCOP domains d1gvoa_ A: Pentaerythritol tetranirate reductase                                                                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains 1gvoA00 A:3-364 Aldolase class I                                                                                                                                                                                                                                                                                                                                           CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eee..eee...eee...............hhhhhhhhhhh....eeeeeeee...............hhhhhhhhhhhhhhhhhh...eeeeee......hhhhhhhhh..ee........eeeee.....eeeee....ee.hhhhhhhhhhhhhhhhhhhhhh...eeeeee...hhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhh.eeeee.............hhhhhhhhhhhhhhhh...eeeee..........hhhhhhhhhh....eeeee...hhhhhhhhhhh....eeeehhhhhhh.hhhhhhhhh......hhhhh.............. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1gvo A   3 EKLFTPLKVGAVTAPNRVFMAPLTRLRSIEPGDIPTPLMGEYYRQRASAGLIISEATQISAQAKGYAGAPGLHSPEQIAAWKKITAGVHAEDGRIAVQLWHTGRISHSSIQPGGQAPVSASALNANTRTSLRDENGNAIRVDTTTPRALELDEIPGIVNDFRQAVANAREAGFDLVELHSAHGYLLHQFLSPSSNQRTDQYGGSVENRARLVLEVVDAVCNEWSADRIGIRVSPIGTFQNVDNGPNEEADALYLIEELAKRGIAYLHMSETDLAGGKPYSEAFRQKVRERFHGVIIGAGAYTAEKAEDLIGKGLIDAVAFGRDYIANPDLVARLQKKAELNPQRPESFYGGGAEGYTDYPSL 364
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362
   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  (1, 1)

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

(-) CATH Domains  (1, 1)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (P71278_ENTCL | P71278)
molecular function
    GO:0010181    FMN binding    Interacting selectively and non-covalently with flavin mono nucleotide. Flavin mono nucleotide (FMN) is the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes.
    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: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:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
biological process
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

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  1gvo
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 Related Entries

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

UniProtKB/TrEMBL
        P71278_ENTCL | P71278: 1gvq 1gvr 1gvs 1h50 1h51 1h60 1h61 1h62 1h63 1vyp 1vyr 1vys 2aba 2abb 3f03 3kft 3p62 3p67 3p74 3p7y 3p80 3p81 3p82 3p84 3p8i 3p8j 5lgx 5lgz

(-) Related Entries Specified in the PDB File

1gvq STRUCTURE OF PENTAERYTHRITOL TETRANITRATE REDUCTASE AND COMPLEXED WITH 2-CYCLOHEXENONE
1gvr STRUCTURE OF PENTAERYTHRITOL TETRANITRATE REDUCTASE AND COMPLEXED WITH 2,4 DINITROPHENOL
1gvs STRUCTURE OF PENTAERYTHRITOL TETRANITRATE REDUCTASE AND COMPLEXED WITH 2,4 DINITROPHENOL
1h50 STRUCTURE OF PENTAERYTHRITOL TETRANITRATE REDUCTASE AND COMPLEXES
1h51 OXIDISED PENTAERYTHRITOL TETRANITRATE REDUCTASE (SCN COMPLEX)
1h60 STRUCTURE OF PENTAERYTHRITOL TETRANITRATE REDUCTASE IN COMPLEX WITH PROGESTERONE
1h61 STRUCTURE OF PENTAERYTHRITOL TETRANITRATE REDUCTASE IN COMPLEX WITH PREDNISONE
1h62 STRUCTURE OF PENTAERYTHRITOL TETRANITRATE REDUCTASE IN COMPLEX WITH 1,4-ANDROSTADIEN- 3,17-DIONE
1h63 STRUCTURE OF THE REDUCED PENTAERYTHRITOL TETRANITRATE REDUCTASE