Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Asym. Unit - sites
(-)Biological Unit 1
(-)Biol. Unit 1 - sites
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Asym. Unit - sites
Asym. Unit - sites  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)
Image Biol. Unit 1 - sites
Biol. Unit 1 - sites  (Jmol Viewer)

(-) Description

Title :  X-RAY CRYSTALLOGRAPHIC STRUCTURE OF A PSEUDOMONAS AERUGINOSA AZOREDUCTASE IN COMPLEX WITH BALSALAZIDE
 
Authors :  A. Ryan, N. Laurieri, I. Westwood, C. -J. Wang, E. Lowe, E. Sim
Date :  15 Feb 10  (Deposition) - 12 May 10  (Release) - 23 Jun 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (2x)
Keywords :  Azoreductase, Balsalazide, Hydrazo, Inflammatory Bowel Disease, P. Aeruginosa, Flavoprotein, Fmn, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. Ryan, N. Laurieri, I. Westwood, C. -J. Wang, E. Lowe, E. Sim
A Novel Mechanism For Azoreduction
J. Mol. Biol. V. 400 24 2010
PubMed-ID: 20417637  |  Reference-DOI: 10.1016/J.JMB.2010.04.023

(-) Compounds

Molecule 1 - FMN-DEPENDENT NADH-AZOREDUCTASE 1
    ChainsA, B
    EC Number1.7.-.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET28B
    Expression System StrainBL21(DE3) PLYSS
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    GenePAO785
    Organism ScientificPSEUDOMONAS AERUGINOSA
    Organism Taxid208964
    StrainPAO1
    SynonymFMN-DEPENDENT NADH-AZO COMPOUND OXIDOREDUCTASE 1, AZO-DYE REDUCTASE 1

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (2x)AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 7)

Asymmetric Unit (3, 7)
No.NameCountTypeFull Name
1BLQ2Ligand/Ion(3E)-3-({4-[(2-CARBOXYETHYL)CARBAMOYL]PHENYL}HYDRAZONO)-6-OXOCYCLOHEXA-1,4-DIENE-1-CARBOXYLIC ACID
2FMN2Ligand/IonFLAVIN MONONUCLEOTIDE
3GOL3Ligand/IonGLYCEROL
Biological Unit 1 (3, 14)
No.NameCountTypeFull Name
1BLQ4Ligand/Ion(3E)-3-({4-[(2-CARBOXYETHYL)CARBAMOYL]PHENYL}HYDRAZONO)-6-OXOCYCLOHEXA-1,4-DIENE-1-CARBOXYLIC ACID
2FMN4Ligand/IonFLAVIN MONONUCLEOTIDE
3GOL6Ligand/IonGLYCEROL

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:60 , BLQ A:215 , SER B:10 , ARG B:12 , SER B:16 , GLN B:17 , SER B:18 , PRO B:96 , MET B:97 , TYR B:98 , ASN B:99 , PHE B:100 , SER B:145 , ARG B:146 , GLY B:147 , GLY B:148 , PHE B:151 , GLU B:187 , HOH B:222 , HOH B:225BINDING SITE FOR RESIDUE FMN B 213
2AC2SOFTWARESER A:10 , ARG A:12 , SER A:16 , GLN A:17 , SER A:18 , PRO A:96 , MET A:97 , TYR A:98 , ASN A:99 , PHE A:100 , SER A:145 , ARG A:146 , GLY A:147 , GLY A:148 , PHE A:151 , GLU A:187 , GLU A:188 , BLQ A:216 , HOH A:229 , HOH A:272 , PHE B:60BINDING SITE FOR RESIDUE FMN A 213
3AC3SOFTWAREPRO B:47 , LEU B:48BINDING SITE FOR RESIDUE GOL B 214
4AC4SOFTWARELEU A:48 , SER A:104 , PRO B:47 , LEU B:48 , SER B:104 , GLY B:105 , HOH B:232 , HOH B:253BINDING SITE FOR RESIDUE GOL B 215
5AC5SOFTWARELEU A:90 , ARG A:139 , ALA A:140 , GLU A:178 , THR A:180 , ALA A:212BINDING SITE FOR RESIDUE GOL A 214
6AC6SOFTWAREPHE A:60 , TYR A:131 , PHE A:173 , PHE B:151 , ASN B:157 , GLU B:188 , FMN B:213BINDING SITE FOR RESIDUE BLQ A 215
7AC7SOFTWAREASN A:99 , PHE A:100 , PHE A:151 , ASN A:157 , GLU A:188 , FMN A:213 , PHE B:60 , TYR B:131 , PHE B:173BINDING SITE FOR RESIDUE BLQ A 216

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3LT5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3LT5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3LT5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3LT5)

(-) Exons   (0, 0)

(no "Exon" information available for 3LT5)

(-) 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:210
 aligned with AZOR1_PSEAE | Q9I5F3 from UniProtKB/Swiss-Prot  Length:212

    Alignment length:212
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210  
          AZOR1_PSEAE     1 MSRILAVHASPRGERSQSRRLAEVFLAAYREAHPQARVARREVGRVPLPAVTEAFVAAAFHPQPEQRSLAMQADLALSDQLVGELFDSDLLVISTPMYNFSVPSGLKAWIDQIVRLGVTFDFVLDNGVAQYRPLLRGKRALIVTSRGGHGFGPGGENQAMNHADPWLRTALGFIGIDEVTVVAAEGEESGGRSFEDSCDEAEQRLLALARSA 212
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee.......hhhhhhhhhhhhhhhhhh....eeeee.........hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeee......hhhhhhhhhhhh.....eeeeee..eeeeee.....eeeeeee...........hhhhh.hhhhhhhhhhhh....eeeeee......--hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lt5 A   1 MSRILAVHASPRGERSQSRRLAEVFLAAYREAHPQARVARREVGRVPLPAVTEAFVAAAFHPQPEQRSLAMQADLALSDQLVGELFDSDLLVISTPMYNFSVPSGLKAWIDQIVRLGVTFDFVLDNGVAQYRPLLRGKRALIVTSRGGHGFGPGGENQAMNHADPWLRTALGFIGIDEVTVVAAEGEESG--SFEDSCDEAEQRLLALARSA 212
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190  |    200       210  
                                                                                                                                                                                                                       190  |                   
                                                                                                                                                                                                                          193                   

Chain B from PDB  Type:PROTEIN  Length:198
 aligned with AZOR1_PSEAE | Q9I5F3 from UniProtKB/Swiss-Prot  Length:212

    Alignment length:211
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211 
          AZOR1_PSEAE     2 SRILAVHASPRGERSQSRRLAEVFLAAYREAHPQARVARREVGRVPLPAVTEAFVAAAFHPQPEQRSLAMQADLALSDQLVGELFDSDLLVISTPMYNFSVPSGLKAWIDQIVRLGVTFDFVLDNGVAQYRPLLRGKRALIVTSRGGHGFGPGGENQAMNHADPWLRTALGFIGIDEVTVVAAEGEESGGRSFEDSCDEAEQRLLALARSA 212
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) Flavodoxin_2-3lt5B01 B:2-209                                                                                                                                                                                    --- Pfam domains (1)
           Pfam domains (2) Flavodoxin_2-3lt5B02 B:2-209                                                                                                                                                                                    --- Pfam domains (2)
         Sec.struct. author .eeeeee.......hhhhhhhhhhhhhhhhhh...eeeeee.........hhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeee......hhhhhhhhhhhh.....ee..------..ee.....eeeeeee...........hhhhh.hhhhhhhhhhhhh..eeeeeee.....-------hhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lt5 B   2 SRILAVHASPRGERSQSRRLAEVFLAAYREAHPQARVARREVGRVPLPAVTEAFVAAAFHPQPEQRSLAMQADLALSDQLVGELFDSDLLVISTPMYNFSVPSGLKAWIDQIVRLGVTFDFV------QYRPLLRGKRALIVTSRGGHGFGPGGENQAMNHADPWLRTALGFIGIDEVTVVAAEGEES-------SCDEAEQRLLALARSA 212
                                    11        21        31        41        51        61        71        81        91       101       111       121 |     131       141       151       161       171       181       | -     | 201       211 
                                                                                                                                                   123    130                                                        189     197               

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 3LT5)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3LT5)

(-) Pfam Domains  (1, 2)

Asymmetric Unit

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (AZOR1_PSEAE | Q9I5F3)
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.

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    BLQ  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    FMN  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    GOL  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
    AC5  [ RasMol ]  +environment [ RasMol ]
    AC6  [ RasMol ]  +environment [ RasMol ]
    AC7  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3lt5)
 
Biological Unit
  Complete Structure
    Biological Unit 1  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  3lt5
    Family and Domain InformationProDom | SYSTERS
    General Structural InformationGlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in MembranesOPM
    Protein SurfaceSURFACE
    Secondary StructureDSSP (structure derived) | HSSP (homology derived)
    Structural GenomicsGeneCensus
    Structural NeighboursCE | VAST
    Structure ClassificationCATH | Dali | SCOP
    Validation and Original DataBMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  AZOR1_PSEAE | Q9I5F3
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  1.7.-.-
    General Enzyme InformationBRENDA | EC-PDB | Enzyme | IntEnz
    PathwayKEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease InformationOMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related InformationGenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain InformationXDom
    Interatomic Contacts of Structural UnitsCSU
    Ligand-protein ContactsLPC
    Protein CavitiescastP
    Sequence and Secondary StructurePDBCartoon
    Structure AlignmentSTRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence BrowserSTING
 
Access by UniProt ID/Accession number
  AZOR1_PSEAE | Q9I5F3
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        AZOR1_PSEAE | Q9I5F32v9c 3keg 3r6w 4n65 4n9q

(-) Related Entries Specified in the PDB File

2v9c SAME PROTEIN WITH METHYL RED BOUND
3keg MUTANT OF THE SAME PROTEIN WITH METHYL RED BOUND