1IVV Oxidoreductase date Mar 29, 2002
title Crystal Structure Of Copper Amine Oxidase From Arthrobacter Globiformis: Early Intermediate In Topaquinone Biogenesis
authors M.Kim, T.Okajima, S.Kishishita, M.Yoshimura, A.Kawamori, K.Taniza H.Yamaguchi
compound source
Molecule: Amine Oxidase
Chain: A, B
Synonym: Phenylethylamine Oxidase
Ec: 1.4.3.6
Engineered: Yes
Organism_scientific: Arthrobacter Globiformis
Organism_taxid: 1665
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Cd03
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pepo2
symmetry Space Group: I 1 2 1
R_factor 0.190 R_Free 0.263
crystal
cell
length a length b length c angle alpha angle beta angle gamma
157.802 63.069 183.461 90.00 111.64 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand CU, DAH enzyme Oxidoreductase E.C.1.4.3.6 BRENDA
related structures by homologous chain: 1AVK, 1IQX
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceX-ray snapshots of quinone cofactor biogenesis in bacterial copper amine oxidase., Kim M, Okajima T, Kishishita S, Yoshimura M, Kawamori A, Tanizawa K, Yamaguchi H, Nat Struct Biol 2002 Aug;9(8):591-6. PMID:12134140
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (222 Kb) [Save to disk]
  • Biological Unit Coordinates (1ivv.pdb1.gz) 217 Kb
  • LPC: Ligand-Protein Contacts for 1IVV
  • CSU: Contacts of Structural Units for 1IVV
  • Likely Quarternary Molecular Structure file(s) for 1IVV
  • Structure Factors (966 Kb)
  • Retrieve 1IVV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1IVV from S2C, [Save to disk]
  • Re-refined 1ivv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1IVV in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 1IVV
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1IVV, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ivva1, region A:212-628 [Jmol] [rasmolscript] [script source]
        - Domain d1ivva2, region A:9-96 [Jmol] [rasmolscript] [script source]
        - Domain d1ivva3, region A:97-211 [Jmol] [rasmolscript] [script source]
        - Domain d1ivvb1, region B:212-628 [Jmol] [rasmolscript] [script source]
        - Domain d1ivvb2, region B:9-96 [Jmol] [rasmolscript] [script source]
        - Domain d1ivvb3, region B:97-211 [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ivv] [1ivv_B] [1ivv_A]
  • SWISS-PROT database: [P46881]
  • Domain organization of [PAOX_ARTGO] by SWISSPFAM
  • Other resources with information on 1IVV
  • Community annotation for 1IVV at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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