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(-) Description

Title :  NIKD, AN UNUSUAL AMINO ACID OXIDASE ESSENTIAL FOR NIKKOMYCIN BIOSYNTHESIS: CLOSED FORM AT 1.15 A RESOLUTION
 
Authors :  C. J. Carrell, R. C. Bruckner, D. Venci, G. Zhao, M. S. Jorns, F. S. Mathews
Date :  19 Jan 07  (Deposition) - 31 Jul 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.15
Chains :  Asym./Biol. Unit :  A
Keywords :  Flavoprotein, Rossmann Fold, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. J. Carrell, R. C. Bruckner, D. Venci, G. Zhao, M. S. Jorns, F. S. Mathews
Nikd, An Unusual Amino Acid Oxidase Essential For Nikkomycin Biosynthesis: Structures Of Closed And Open Forms At 1. 15 And 1. 90 A Resolution
Structure V. 15 928 2007
PubMed-ID: 17697998  |  Reference-DOI: 10.1016/J.STR.2007.06.010
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - NIKD PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PDV101
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: NIKD
    Organism Scientific: STREPTOMYCES TENDAE
    Organism Taxid: 1932
    Other Details: CLOSED FORM
    Strain: TU501

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
16PC1Ligand/IonPYRIDINE-2-CARBOXYLIC ACID
2FAD1Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
3NA1Ligand/IonSODIUM ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:266 , GLY A:268 , HOH A:9061 , HOH A:9133 , HOH A:9145 , HOH A:9297BINDING SITE FOR RESIDUE NA A 9001
2AC2SOFTWAREVAL A:10 , GLY A:11 , GLY A:13 , PRO A:14 , VAL A:15 , LEU A:33 , GLU A:34 , ARG A:35 , HIS A:36 , ASN A:40 , GLY A:44 , THR A:45 , ARG A:50 , HIS A:51 , GLU A:174 , VAL A:176 , ALA A:203 , CYS A:204 , GLY A:205 , TYR A:207 , TYR A:258 , PHE A:260 , CYS A:321 , LEU A:322 , TYR A:351 , GLY A:354 , TRP A:355 , ALA A:356 , PHE A:357 , LYS A:358 , 6PC A:5001 , HOH A:9006 , HOH A:9022 , HOH A:9027 , HOH A:9030 , HOH A:9050 , HOH A:9075 , HOH A:9087 , HOH A:9168 , HOH A:9469BINDING SITE FOR RESIDUE FAD A 1001
3AC3SOFTWAREHIS A:51 , ARG A:53 , GLU A:101 , PHE A:242 , TRP A:355 , LYS A:358 , FAD A:1001BINDING SITE FOR RESIDUE 6PC A 5001

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2OLN)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2OLN)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2OLN)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2OLN)

(-) Exons   (0, 0)

(no "Exon" information available for 2OLN)

(-) 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:385
 aligned with Q9X9P9_STRTE | Q9X9P9 from UniProtKB/TrEMBL  Length:389

    Alignment length:385
                                    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       372       382     
         Q9X9P9_STRTE     3 ESYDVVVVGGGPVGLATAWQVAERGHRVLVLERHTFFNENGGTSGAERHWRLQYTQEDLFRLTLETLPLWRALESRCERRLIHEIGSLWFGDTDVVTNEGQISGTAAMMDKLSVRYEWLKATDIERRFGFRGLPRDYEGFLQPDGGTIDVRGTLAALFTLAQAAGATLRAGETVTELVPDADGVSVTTDRGTYRAGKVVLACGPYTNDLLEPLGARLAYSVYEMAIAAYRQATPVTEAPFWFAFQQPTPQDTNLFYGFGHNPWAPGEFVRCGPDFEVDPLDHPSAATGVADRRQMDRLSGWLRDHLPTVDPDPVRTSTCLAVLPTDPERQFFLGTARDLMTHGEKLVVYGAGWAFKFVPLFGRICADLAVEDSTAYDISRLAPQS 387
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---DAO-2olnA01 A:6-370                                                                                                                                                                                                                                                                                                                                                          ----------------- Pfam domains
         Sec.struct. author .eeeeeee..hhhhhhhhhhhhhh...eeeee..............eeee.....hhhhhhhhhhhhhhhhhhhhhhh...ee...eeeee.........hhhhhhhhhhhh....eeeehhhhhhhhh........eeeee...eeeehhhhhhhhhhhhhhh..eeee...eeeeeee..eeeeee...eeeeeeeee.hhhhhhhhhhhhh....eeeeeeeeeeee.........eeeee..........eee..........eeeeee........hhhhh....hhhhhhhhhhhhhhhh........eeeeeeeeee.......eeee......hhh.eeeeee..hhhhhhhhhhhhhhhhhhh.....hhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2oln A   3 ESYDVVVVGGGPVGLATAWQVAERGHRVLVLERHTFFNENGGTSGAERHWRLQYTQEDLFRLTLETLPLWRALESRCERRLIHEIGSLWFGDTDVVTNEGQISGTAAMMDKLSVRYEWLKATDIERRFGFRGLPRDYEGFLQPDGGTIDVRGTLAALFTLAQAAGATLRAGETVTELVPDADGVSVTTDRGTYRAGKVVLACGPYTNDLLEPLGARLAYSVYEMAIAAYRQATPVTEAPFWFAFQQPTPQDTNLFYGFGHNPWAPGEFVRCGPDFEVDPLDHPSAATGVADRRQMDRLSGWLRDHLPTVDPDPVRTSTCLAVLPTDPERQFFLGTARDLMTHGEKLVVYGAGWAFKFVPLFGRICADLAVEDSTAYDISRLAPQS 387
                                    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       372       382
   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 2OLN)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2OLN)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: NADP_Rossmann (1239)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q9X9P9_STRTE | Q9X9P9)
molecular function
    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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  2oln
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 Related Entries

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        Q9X9P9_STRTE | Q9X9P9: 2olo 2q6u 3hzl

(-) Related Entries Specified in the PDB File

2oln 2olo