5GVC Isomerase date Sep 05, 2016
title Human Topoisomerase Iiib Topo Domain
authors S.Goto-Ito, A.Yamagata, Y.Sato, T.S.Takahashi, S.Fukai
compound source
Molecule: Dna Topoisomerase 3-Beta-1
Chain: A, B
Fragment: Unp Residues 1-612
Synonym: Dna Topoisomerase III Beta-1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Top3b, Top3b1
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
symmetry Space Group: C 1 2 1
R_factor 0.182 R_Free 0.229
length a length b length c angle alpha angle beta angle gamma
176.088 93.665 91.608 90.00 91.88 90.00
method X-Ray Diffractionresolution 2.44 Å
enzyme Isomerase E.C. BRENDA
A, B

Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (412 Kb) [Save to disk]
  • Biological Unit Coordinates (5gvc.pdb1.gz) 206 Kb
  • Biological Unit Coordinates (5gvc.pdb2.gz) 204 Kb
  • CSU: Contacts of Structural Units for 5GVC
  • Structure Factors (916 Kb)
  • Retrieve 5GVC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5GVC from S2C, [Save to disk]
  • Re-refined 5gvc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5GVC 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 5GVC
  • 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 5gvc from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5gvc_B] [5gvc_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5GVC
  • Community annotation for 5GVC at PDBWiki (http://pdbwiki.org)

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