5EIX Isomerase Dna date Oct 30, 2015
title Quinolone-Stabilized Cleavage Complex Of Topoisomerase Iv Fr Klebsiella Pneumoniae
authors D.A.Veselkov, I.Laponogov, X.S.Pan, J.Selvarajah, A.Branstrom, L.M.Fisher, M.R.Sanderson
compound source
Molecule: Dna Topoisomerase 4 Subunit B,Dna Topoisomerase 4 A;
Chain: A, B, G, J
Synonym: Topoisomerase Iv Subunit B,Topoisomerase Iv Subuni
Ec: 5.99.1.3,5.99.1.3
Engineered: Yes
Organism_scientific: Klebsiella Pneumoniae
Organism_taxid: 573
Strain: Atcc 35657
Gene: Parc, Kpr_4469, Sl72_02036
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Symmetrised E-Site (Pre-Cut)
Chain: E, C, H, K
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
Other_details: Symmetrised E-Site

Molecule: Symmetrised E-Site (Pre-Cut)
Chain: F, D, I, L
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
Other_details: Symmetrised E-Site
symmetry Space Group: P 1 21 1
R_factor 0.224 R_Free 0.259
crystal
cell
length a length b length c angle alpha angle beta angle gamma
102.070 161.530 138.600 90.00 94.22 90.00
method X-Ray Diffractionresolution 3.35 Å
ligand LFX, MG enzyme Isomerase E.C.5.99.1.3 BRENDA
Gene KPR ; SL72
Gene
Ontology
ChainFunctionProcessComponent
A, J, G, B


Primary referenceStructure of a quinolone-stabilized cleavage complex of topoisomerase IV from Klebsiella pneumoniae and comparison with a related Streptococcus pneumoniae complex., Veselkov DA, Laponogov I, Pan XS, Selvarajah J, Skamrova GB, Branstrom A, Narasimhan J, Prasad JV, Fisher LM, Sanderson MR, Acta Crystallogr D Struct Biol. 2016 Apr 1;72(Pt 4):488-96. doi:, 10.1107/S2059798316001212. Epub 2016 Mar 24. PMID:27050128
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (881 Kb) [Save to disk]
  • Biological Unit Coordinates (5eix.pdb1.gz) 434 Kb
  • Biological Unit Coordinates (5eix.pdb2.gz) 432 Kb
  • LPC: Ligand-Protein Contacts for 5EIX
  • CSU: Contacts of Structural Units for 5EIX
  • Structure Factors (3321 Kb)
  • Retrieve 5EIX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5EIX from S2C, [Save to disk]
  • Re-refined 5eix structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5EIX 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 5EIX
  • 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
  • Fold representative 5eix from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5eix_H] [5eix_C] [5eix] [5eix_G] [5eix_K] [5eix_J] [5eix_A] [5eix_L] [5eix_D] [5eix_I] [5eix_B] [5eix_E] [5eix_F]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5EIX: [TOP2c] [TOP4c ] by SMART
  • Other resources with information on 5EIX
  • Community annotation for 5EIX at PDBWiki (http://pdbwiki.org)

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