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(-) Description

Title :  CRYSTAL STRUCTURE OF NIMA FROM D. RADIODURANS
 
Authors :  H. -K. S. Leiros, S. Kozielski-Stuhrmann, U. Kapp, L. Terradot, G. A. Leonard, S. M. Mcsweeney
Date :  17 Jul 04  (Deposition) - 18 Oct 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Antibiotic Resistance, Deinococcus Radiodurans, 5- Nitroimidazole Resistance, Nim Gene, Catalytic Mechanism (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. -K. S. Leiros, S. Kozielski-Stuhrmann, U. Kapp, L. Terradot, G. A. Leonard, S. M. Mcsweeney
Structural Basis Of 5-Nitroimidazole Antibiotic Resistance: The Crystal Structure Of Nima From Deinococcus Radiodurans
J. Biol. Chem. V. 279 55840 2004
PubMed-ID: 15492014  |  Reference-DOI: 10.1074/JBC.M408044200

(-) Compounds

Molecule 1 - NIMA-RELATED PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Organism Scientific: DEINOCOCCUS RADIODURANS
    Organism Taxid: 1299
    Synonym: 5-NITROIMIDAZOLE ANTIBIOTIC RESISTANCE PROTEIN

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2PYR1Ligand/IonPYRUVIC ACID
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2PYR2Ligand/IonPYRUVIC ACID

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETHR A:41 , TYR A:70 , ARG A:79 , HIS A:86 , HOH A:2329BINDING SITE FOR RESIDUE ACT A1207
2AC2SOFTWAREHIS A:71 , PHE A:98 , LEU A:107 , SER A:108 , PHE A:140 , HOH A:2330 , HOH A:2331 , HOH A:2332 , HOH A:2333BINDING SITE FOR RESIDUE PYR A1208

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1W3O)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1W3O)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1W3O)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1W3O)

(-) Exons   (0, 0)

(no "Exon" information available for 1W3O)

(-) 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:204
 aligned with Q9RW27_DEIRA | Q9RW27 from UniProtKB/TrEMBL  Length:195

    Alignment length:204
                                     1                                                                                                                                                                                                  
                                     1        11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191    
         Q9RW27_DEIRA     - ---------MSDFYDPRERDPSVSRRPQNRQSDEWIRELLLRGTIARVATLWQGEDGAAFPFITPLAYAYRPEQGDLVYHTNVVGRLRANAGQGHPATLEVSEIGQFLPSNSPLELSVQYRSVMVFGTARVLAGEDARAALTTLSERVFPGLKVGETTRPISEDDLKRTSVYSLSIDRWSGKENWAEQAIQEEDWPALGPEWLG 195
               SCOP domains ----------d1w3oa1 A:2-195 NimA-related protein DR0842                                                                                                                                                        SCOP domains
               CATH domains 1w3oA00 A:-20-195 Electron Transport, Fmn-binding Protein; Chain A                                                                                                                                           CATH domains
               Pfam domains -------------------------------Pyridox_ox_2-1w3oA01 A:23-174                                                                                                                           --------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhh................hhhhhhhhhhhh.eeeeeeeee.....eeeeeeeee.eee....eeeee..............eeeeeeeeeeeeee...hhhhheeeeeeeeeeeeeee.hhhhhhhhhhhhhhhhh............hhhhhhh..eeeeeeeeeeeeee..............hhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1w3o A -20 SYYHHHHHHLSDFYDPRERDPSVSRRPQNRQSDEWIRELLLRGTIARVATLWQGEDGAAFPFITPLAYAYRPEQGDLVYHTNVVGRLRANAGQGHPATLEVSEIGQFLPSNSPLELSVQYRSVMVFGTARVLAGEDARAALTTLSERVFPGLKVGETTRPISEDDLKRTSVYSLSIDRWSGKENWAEQAIQEEDWPALGPEWLG 195
                                   -11|       11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191    
                                   -11|                                                                                                                                                                                                 
                                      2
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  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: All beta proteins (24004)

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: FMN-binding (25)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q9RW27_DEIRA | Q9RW27)
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: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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 Related Entries

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

UniProtKB/TrEMBL
        Q9RW27_DEIRA | Q9RW27: 1w3p 1w3q 1w3r 2vpa 2x1j 2x1k

(-) Related Entries Specified in the PDB File

1w3p NIMA FROM D. RADIODURANS WITH A HIS71- PYRUVATE RESIDUE
1w3q NIMA FROM D. RADIODURANS WITH COVALENLY BOUND LACTATE
1w3r NIMA FROM D. RADIODURANS WITH METRONIDAZOLE AND PYRUVATE