4JUO Isomerase Dna date Mar 25, 2013
title A Low-Resolution Three-Gate Structure Of Topoisomerase Iv Fr Streptococcus Pneumoniae In Space Group H32
authors I.Laponogov, D.A.Veselkov, X.S.Pan, I.Crevel, L.M.Fisher, M.R.Sa
compound source
Molecule: Dna Topoisomerase 4 Subunit A
Chain: A
Fragment: Parc55
Synonym: Topoisomerase Iv Subunit A
Ec: 5.99.1.3
Engineered: Yes
Organism_scientific: Streptococcus Pneumoniae
Organism_taxid: 170187
Strain: Atcc Baa-334 Tigr4
Gene: Parc, Sp_0855
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna Topoisomerase 4 Subunit B
Chain: C
Fragment: Pare
Ec: 5.99.1.3
Engineered: Yes

Organism_scientific: Streptococcus Pneumoniae Serotype 4
Organism_taxid: 170187
Strain: Atcc Baa-334 Tigr4
Gene: Pare
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: E-Site Dna
Chain: E
Engineered: Yes

Synthetic: Yes

Molecule: E-Site Dna
Chain: F
Engineered: Yes

Synthetic: Yes

Molecule: E-Site Dna
Chain: G
Engineered: Yes

Synthetic: Yes

Molecule: E-Site Dna
Chain: H
Engineered: Yes

Synthetic: Yes
symmetry Space Group: H 3 2
R_factor 0.247 R_Free 0.298
crystal
cell
length a length b length c angle alpha angle beta angle gamma
213.580 213.580 211.830 90.00 90.00 120.00
method X-Ray Diffractionresolution 6.53 Å
ligand LFX, MG enzyme Isomerase E.C.5.99.1.3 BRENDA
Gene SP
Gene
Ontology
ChainFunctionProcessComponent
A


C


Primary referenceStructure of an 'open' clamp type II topoisomerase-DNA complex provides a mechanism for DNA capture and transport., Laponogov I, Veselkov DA, Crevel IM, Pan XS, Fisher LM, Sanderson MR, Nucleic Acids Res. 2013 Aug 21. PMID:23965305
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (357 Kb) [Save to disk]
  • Biological Unit Coordinates (4juo.pdb1.gz) 345 Kb
  • LPC: Ligand-Protein Contacts for 4JUO
  • CSU: Contacts of Structural Units for 4JUO
  • Structure Factors (56 Kb)
  • Retrieve 4JUO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4JUO from S2C, [Save to disk]
  • Re-refined 4juo structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4JUO 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 4JUO
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4JUO, from MSDmotif at EBI
  • Fold representative 4juo from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4juo_F] [4juo_H] [4juo] [4juo_E] [4juo_G] [4juo_C] [4juo_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4JUO: [HATPase_c] [TOP2c] [TOP4c ] by SMART
  • Other resources with information on 4JUO
  • Community annotation for 4JUO at PDBWiki (http://pdbwiki.org)

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