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(-) Description

Title :  THE CRYSTAL STRUCUTURE OF PPAZOR IN COMPLEX WITH REACTIVE BLACK 5 (RB5)
 
Authors :  A. M. D. Goncalves, D. De Sanctis, I. Bento
Date :  09 Aug 13  (Deposition) - 30 Oct 13  (Release) - 18 Dec 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. M. D. Goncalves, S. Mendes, D. De Sanctis, L. O. Martins, I. Bento
The Crystal Structure Of Pseudomonas Putida Azor: The Active Site Revisited.
Febs J. V. 280 6643 2013
PubMed-ID: 24127652  |  Reference-DOI: 10.1111/FEBS.12568

(-) Compounds

Molecule 1 - FMN-DEPENDENT NADH-AZOREDUCTASE 1
    Chains: A
    EC Number: 1.7.-.-, 1.6.5.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: TUNER
    Expression System Vector: PET-21A
    Expression System Vector Type: PLASMID
    Organism Scientific: PSEUDOMONAS PUTIDA
    Organism Taxid: 303
    Other Details: FMN-BINDING PROTEIN
    Strain: MET94
    Synonym: AZO-DYE REDUCTASE 1, FMN-DEPENDENT NADH-AZO COMPOUND OXIDOREDUCTASE 1, AZOREDUCTASE, NAD(P)H QUINONE OXIDOREDUCTASE

 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
112P1Ligand/IonDODECAETHYLENE GLYCOL
2FD51Ligand/Ion[5-[3-[2-[[4-[2-[1-AZANYL-7-[2-[4-[METHYL-BIS(OXIDANYL)-$L^{4}-SULFANYL]PHENYL]HYDRAZINYL]-8-OXIDANYL-3,6-BIS[TRIS(OXIDANYL)-$L^{4}-SULFANYL]NAPHTHALEN-2-YL]HYDRAZINYL]PHENYL]-BIS(OXIDANYL)-$L^{4}-SULFANYL]ETHOXY]-7,8-DIMETHYL-2,4-BIS(OXIDANYLIDENE)BENZO[G]PTERIDIN-10-YL]-2,3,4-TRIS(OXIDANYL)PENTYL] DIHYDROGENPHOSPHATE
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
112P2Ligand/IonDODECAETHYLENE GLYCOL
2FD52Ligand/Ion[5-[3-[2-[[4-[2-[1-AZANYL-7-[2-[4-[METHYL-BIS(OXIDANYL)-$L^{4}-SULFANYL]PHENYL]HYDRAZINYL]-8-OXIDANYL-3,6-BIS[TRIS(OXIDANYL)-$L^{4}-SULFANYL]NAPHTHALEN-2-YL]HYDRAZINYL]PHENYL]-BIS(OXIDANYL)-$L^{4}-SULFANYL]ETHOXY]-7,8-DIMETHYL-2,4-BIS(OXIDANYLIDENE)BENZO[G]PTERIDIN-10-YL]-2,3,4-TRIS(OXIDANYL)PENTYL] DIHYDROGENPHOSPHATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:9 , LEU A:11 , ASN A:14 , SER A:15 , ALA A:16 , SER A:17 , PHE A:50 , LEU A:55 , VAL A:56 , GLY A:59 , PRO A:94 , MET A:95 , TYR A:96 , ASN A:97 , PHE A:98 , TYR A:120 , THR A:139 , ALA A:140 , GLY A:141 , GLY A:142 , HIS A:144 , PHE A:163 , LEU A:177 , ALA A:178 , ARG A:184 , HOH A:2011 , HOH A:2015BINDING SITE FOR RESIDUE FD5 A1201
2AC2SOFTWARETYR A:120 , ALA A:178BINDING SITE FOR RESIDUE 12P A1202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4C14)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4C14)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4C14)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4C14)

(-) Exons   (0, 0)

(no "Exon" information available for 4C14)

(-) Sequences/Alignments

Asymmetric 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:201
 aligned with AZOR1_PSEPK | Q88IY3 from UniProtKB/Swiss-Prot  Length:203

    Alignment length:201
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200 
          AZOR1_PSEPK     1 MKLLHIDSSILGDNSASRQLSREVVEAWKAADPSVEVVYRDLAADAIAHFSAATLVAAGTPEDVRDAAQAFEAKLSAETLEEFLAADAVVIGAPMYNFTVPTQLKAWIDRVAVAGKTFRYTEAGPQGLCGNKKVVLVSTAGGLHAGQPTGAGHEDFLKVFLGFIGITDLEIVRAHGLAYGPEQRSQAIDAAQAQIASELFA 201
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...hhhhhhhhhhhhhhhhhhhhhh...eeeeee.........hhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee......hhhhhhhhhhhh.....eeee..eeee.....eeeeeee.......hhhhh.hhhhhhhhhhhh...eeeeeee.....hhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4c14 A   1 MKLLHIDSSILGDNSASRQLSREVVEAWKAADPSVEVVYRDLAADAIAHFSAATLVAAGTPEDVRDAAQAFEAKLSAETLEEFLAADAVVIGAPMYNFTVPTQLKAWIDRVAVAGKTFRYTEAGPQGLCGNKKVVLVSTAGGLHAGQPTGAGHEDFLKVFLGFIGITDLEIVRAHGLAYGPEQRSQAIDAAQAQIASELFA 201
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200
   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  (0, 0)

(no "SCOP Domain" information available for 4C14)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4C14)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4C14)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A   (AZOR1_PSEPK | Q88IY3)
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:0008752    FMN reductase activity    Catalysis of the reaction: FMNH2 + NAD(P)+ = FMN + NAD(P)H + H+.
    GO:0009055    electron carrier activity    Any molecular entity that serves as an electron acceptor and electron donor in an electron transport chain. An electron transport chain is a process in which a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient.
    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.
    GO:0016652    oxidoreductase activity, acting on NAD(P)H, NAD(P) as acceptor    Catalysis of an oxidation-reduction (redox) reaction in which NADH or NADPH acts as a hydrogen or electron donor and reduces NAD+ or NADP.
    GO:0016661    oxidoreductase activity, acting on other nitrogenous compounds as donors    Catalysis of an oxidation-reduction (redox) reaction in which a nitrogenous group, excluding NH and NH2 groups, acts as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
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/Swiss-Prot
        AZOR1_PSEPK | Q88IY3: 4c0w 4c0x

(-) Related Entries Specified in the PDB File

4c0w THE CRYSTAL STRUCUTURE OF NATIVE PPAZOR