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(-) Description

Title :  BINDING OF COUMARINS TO NAD(P)H:FMN OXIDOREDUCTASE
 
Authors :  T. Kobori, H. Koike, H. Sasaki, S. Zenno, K. Saigo, M. Tanokura
Date :  26 Nov 03  (Deposition) - 08 Mar 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Coumarin, Fmn Oxidoreductase, Inhibitor (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Kobori, H. Koike, H. Sasaki, S. Zenno, K. Saigo, M. Tanokura
Binding Of Coumarins To Nad(P)H:Fmn Oxidoreductase
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MAJOR NAD(P)H-FLAVIN OXIDOREDUCTASE
    Chains: A, B
    EC Number: 1.6.99.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: FRASEI
    Organism Scientific: ALIIVIBRIO FISCHERI
    Organism Taxid: 668

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
14HC2Ligand/Ion4-HYDROXY-2H-CHROMEN-2-ONE
2FMN2Ligand/IonFLAVIN MONONUCLEOTIDE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:40 , SER A:41 , SER A:42 , ASN A:44 , LEU A:145 , 4HC A:1455 , ARG B:12 , TYR B:13 , THR B:14 , LYS B:16 , ASN B:73 , THR B:163 , MET B:164 , GLU B:165 , GLY B:166 , LYS B:206 , ARG B:208 , HOH B:1215 , HOH B:1221 , HOH B:1233 , HOH B:1234 , HOH B:1243BINDING SITE FOR RESIDUE FMN B 454
2AC2SOFTWAREARG A:12 , TYR A:13 , THR A:14 , LYS A:16 , ASN A:73 , THR A:163 , MET A:164 , GLU A:165 , GLY A:166 , LYS A:206 , ARG A:208 , HOH A:1460 , HOH A:1463 , HOH A:1468 , HOH A:1470 , HOH A:1488 , ALA B:40 , SER B:41 , SER B:42 , ASN B:44 , LEU B:145 , 4HC B:1201BINDING SITE FOR RESIDUE FMN A 1454
3AC3SOFTWARESER A:42 , ILE A:43 , PHE A:124 , PHE B:72 , FMN B:454BINDING SITE FOR RESIDUE 4HC A 1455
4AC4SOFTWAREPHE A:72 , GLU A:165 , FMN A:1454 , SER B:42 , ILE B:43 , PHE B:124BINDING SITE FOR RESIDUE 4HC B 1201

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1V5Y)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1V5Y)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1V5Y)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1V5Y)

(-) Exons   (0, 0)

(no "Exon" information available for 1V5Y)

(-) 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:217
 aligned with FRA1_ALIFS | P46072 from UniProtKB/Swiss-Prot  Length:218

    Alignment length:217
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       
           FRA1_ALIFS     2 THPIIHDLENRYTSKKYDPSKKVSQEDLAVLLEALRLSASSINSQPWKFIVIESDAAKQRMHDSFANMHQFNQPHIKACSHVILFANKLSYTRDDYDVVLSKAVADKRITEEQKEAAFASFKFVELNCDENGEHKAWTKPQAYLALGNALHTLARLNIDSTTMEGIDPELLSEIFADELKGYECHVALAIGYHHPSEDYNASLPKSRKAFEDVITIL 218
               SCOP domains d1v5ya_ A: Flavin reductase P (NADPH:FMN oxidoreductase)                                                                                                                                                                  SCOP domains
               CATH domains 1v5yA00 A:2-218 NADH Oxidase                                                                                                                                                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh............hhhhhhhhhhhhhh..hhhhh..eeeeee.hhhhhhhhhhh....hhhhhhhhhhh.eeeeeeee...hhhhhhhhhhhhhhh...hhhhhhhhh..hhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhh.eeeee...hhhhhhhhh......eeeeeeeeee......hhhhhh.....hhhhheee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v5y A   2 THPIIHDLENRYTSKKYDPSKKVSQEDLAVLLEALRLSASSINSQPWKFIVIESDAAKQRMHDSFANMHQFNQPHIKACSHVILFANKLSYTRDDYDVVLSKAVADKRITEEQKEAAFASFKFVELNCDENGEHKAWTKPQAYLALGNALHTLARLNIDSTTMEGIDPELLSEIFADELKGYECHVALAIGYHHPSEDYNASLPKSRKAFEDVITIL 218
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       


Chain B from PDB  Type:PROTEIN  Length:217
 aligned with FRA1_ALIFS | P46072 from UniProtKB/Swiss-Prot  Length:218

    Alignment length:217
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       
           FRA1_ALIFS     2 THPIIHDLENRYTSKKYDPSKKVSQEDLAVLLEALRLSASSINSQPWKFIVIESDAAKQRMHDSFANMHQFNQPHIKACSHVILFANKLSYTRDDYDVVLSKAVADKRITEEQKEAAFASFKFVELNCDENGEHKAWTKPQAYLALGNALHTLARLNIDSTTMEGIDPELLSEIFADELKGYECHVALAIGYHHPSEDYNASLPKSRKAFEDVITIL 218
               SCOP domains d1v5yb_ B: Flavin reductase P (NADPH:FMN oxidoreductase)                                                                                                                                                                  SCOP domains
               CATH domains 1v5yB00 B:2-218 NADH Oxidase                                                                                                                                                                                              CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh............hhhhhhhhhhhhhh..hhhhh..eeeeee.hhhhhhhhhhh.........hhhhhh.eeeeeeee...hhhhhhhhhhhhhhh...hhhhhhhhh..hhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhh.eeeee...hhhhhhhhh......eeeeeeeeee......hhhhhh.....hhhhheee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v5y B   2 THPIIHDLENRYTSKKYDPSKKVSQEDLAVLLEALRLSASSINSQPWKFIVIESDAAKQRMHDSFANMHQFNQPHIKACSHVILFANKLSYTRDDYDVVLSKAVADKRITEEQKEAAFASFKFVELNCDENGEHKAWTKPQAYLALGNALHTLARLNIDSTTMEGIDPELLSEIFADELKGYECHVALAIGYHHPSEDYNASLPKSRKAFEDVITIL 218
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211
   Legend:   → Mismatch (orange background)
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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, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1V5Y)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (FRA1_ALIFS | P46072)
molecular function
    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:0008218    bioluminescence    The production of light by certain enzyme-catalyzed reactions in cells.
    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/Swiss-Prot
        FRA1_ALIFS | P46072: 1v5z 1vfr

(-) Related Entries Specified in the PDB File

1v5z THE SAME PROTEIN COMPLEXED WITH O-COUMARIC ACID
1vfr THE SAME PROTEIN WITHOUT COUMARINS