3FOF Isomerase Dna date Dec 30, 2008
title Structural Insight Into The Quinolone-Dna Cleavage Complex O Topoisomerases
authors I.Laponogov, M.K.Sohi, D.A.Veselkov, X.S.Pan, R.Sawhney, A.W.Tho K.E.Mcauley, L.M.Fisher, M.R.Sanderson
compound source
Molecule: Dna Topoisomerase 4 Subunit A
Chain: A, B
Fragment: Residues 1-488
Synonym: Parc55, Topoisomerase Iv Subunit A
Ec: 5.99.1.-
Engineered: Yes
 Organism_scientific: Streptococcus Pneumoniae
Organism_taxid: 1313
Gene: Parc, Sp_0855
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna Topoisomerase 4 Subunit B
Chain: C, D
Fragment: Residues 404-647
Synonym: Pare30, Topoisomerase Iv Subunit B
Ec: 5.99.1.-
Engineered: Yes
Organism_scientific: Streptococcus Pneumoniae
Organism_taxid: 1313
Gene: Pare, Sp_0852
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (5'-D(Papcpcpapapgpgptpcpaptpgpa 3');
Chain: E
Engineered: Yes
Other_details: E-Site Dna
Synthetic: Yes

Molecule: Dna (5'- D(Papgptpcpaptptpcpaptpgpapcpcptptpgpgpt
Chain: F
Engineered: Yes
Other_details: E-Site Dna
Synthetic: Yes

Molecule: Dna (5'-D(Pcptpgptptptptpapcpgptpgpc 3');
Chain: G
Engineered: Yes
Other_details: E-Site Dna
Synthetic: Yes

Molecule: Dna (5'- D(Pgpapcptpaptpgpcpapcpgptpapapapapcpapg
Chain: H
Engineered: Yes
Other_details: E-Site Dna
Synthetic: Yes
symmetry Space Group: P 32
R_factor 0.239 R_Free 0.289
crystal
cell
length a length b length c angle alpha angle beta angle gamma
121.601 121.601 178.699 90.00 90.00 120.00
method X-Ray Diffractionresolution 4.00 Å
ligand MFX enzyme Isomerase E.C.5.99.1 BRENDA
Gene SP ; SP
Gene
Ontology
ChainFunctionProcessComponent
A, B


D, C


Primary referenceStructural insight into the quinolone-DNA cleavage complex of type IIA topoisomerases., Laponogov I, Sohi MK, Veselkov DA, Pan XS, Sawhney R, Thompson AW, McAuley KE, Fisher LM, Sanderson MR, Nat Struct Mol Biol. 2009 May 17. PMID:19448616
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (387 Kb) [Save to disk]
  • Biological Unit Coordinates (3fof.pdb1.gz) 371 Kb
  • LPC: Ligand-Protein Contacts for 3FOF
  • CSU: Contacts of Structural Units for 3FOF
  • Likely Quarternary Molecular Structure file(s) for 3FOF
  • Structure Factors (349 Kb)
  • Retrieve 3FOF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3FOF from S2C, [Save to disk]
  • Re-refined 3fof structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3FOF 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 3FOF
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3FOF, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3fof_D] [3fof_G] [3fof_A] [3fof_C] [3fof_E] [3fof_H] [3fof_F] [3fof_B] [3fof]
  • SWISS-PROT database: [P72525] [Q59961]
  • Domain organization of [PARC_STRPN] [PARE_STRPN] by SWISSPFAM
  • Domains found in 3FOF: [TOP2c] [TOP4c ] by SMART
    • Other resources with information on 3FOF
  • Community annotation for 3FOF 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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