2XSO Oxidoreductase date Sep 29, 2010
title Crystal Structure Of P4 Variant Of Biphenyl Dioxygenase From Burkholderia Xenovorans Lb400
authors P.Kumar, J.T.Bolin
compound source
Molecule: Biphenyl Dioxygenase Subunit Alpha
Chain: A, C, E, G, I, K, M, O, Q, S, U, W
Ec: 1.14.12.18
Engineered: Yes
Mutation: Yes
Organism_scientific: Burkholderia Xenovorans
Organism_taxid: 266265
Strain: Lb400
Variant: P4
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Biphenyl Dioxygenase Subunit Beta
Chain: B, D, F, H, J, L, N, P, R, T, V, X
Ec: 1.14.12.18
Engineered: Yes

Organism_scientific: Burkholderia Xenovorans
Organism_taxid: 266265
Strain: Lb400
Variant: P4
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor 0.215 R_Free 0.266
crystal
cell
length a length b length c angle alpha angle beta angle gamma
133.472 133.585 133.229 102.51 104.99 102.75
method X-Ray Diffractionresolution 2.20 Å
ligand FE2, FES enzyme Oxidoreductase E.C.1.14.12.18 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
F, T, N, V, L, J, X, P, B, H, D, R


S, K, E, Q, M, C, A, O, W, I, G, U


Primary referenceStructural insight into the expanded PCB-degrading abilities of a biphenyl dioxygenase obtained by directed evolution., Kumar P, Mohammadi M, Viger JF, Barriault D, Gomez-Gil L, Eltis LD, Bolin JT, Sylvestre M, J Mol Biol. 2010 Nov 9. PMID:21073881
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (2538 Kb) [Save to disk]
  • Biological Unit Coordinates (2xso.pdb1.gz) 642 Kb
  • Biological Unit Coordinates (2xso.pdb2.gz) 641 Kb
  • Biological Unit Coordinates (2xso.pdb3.gz) 650 Kb
  • Biological Unit Coordinates (2xso.pdb4.gz) 645 Kb
  • Biological Unit Coordinates (2xso.pdb5.gz) 639 Kb
  • LPC: Ligand-Protein Contacts for 2XSO
  • CSU: Contacts of Structural Units for 2XSO
  • Structure Factors (2893 Kb)
  • Retrieve 2XSO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2XSO from S2C, [Save to disk]
  • Re-refined 2xso structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2XSO 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 2XSO
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2XSO, from MSDmotif at EBI
  • Fold representative 2xso from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2xso_S] [2xso_O] [2xso_R] [2xso_G] [2xso_N] [2xso_W] [2xso_J] [2xso_C] [2xso_I] [2xso_L] [2xso_H] [2xso_V] [2xso_A] [2xso_P] [2xso_M] [2xso_Q] [2xso_E] [2xso_U] [2xso_B] [2xso_X] [2xso_F] [2xso_T] [2xso_D] [2xso_K] [2xso]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 2XSO
  • Community annotation for 2XSO 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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