5GVE Isomerase Protein Binding date Sep 05, 2016
title Human Top3b-Tdrd3 Complex
authors S.Goto-Ito, A.Yamagata, Y.Sato, T.S.Takahashi, S.Fukai
compound source
Molecule: Dna Topoisomerase 3-Beta-1
Chain: A
Fragment: Unp Residues 1-612
Synonym: Dna Topoisomerase III Beta-1
Ec: 5.99.1.2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Top3b, Top3b1
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108

Molecule: Tudor Domain-Containing Protein 3
Chain: B
Fragment: Unp Residues 1-161
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tdrd3
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 65
R_factor 0.198 R_Free 0.245
crystal
cell
length a length b length c angle alpha angle beta angle gamma
173.563 173.563 111.810 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.61 Å
ligand
enzyme Isomerase E.C.5.99.1.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (272 Kb) [Save to disk]
  • Biological Unit Coordinates (5gve.pdb1.gz) 268 Kb
  • CSU: Contacts of Structural Units for 5GVE
  • Structure Factors (336 Kb)
  • Retrieve 5GVE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5GVE from S2C, [Save to disk]
  • Re-refined 5gve structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5GVE 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 5GVE
  • 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
  • Fold representative 5gve from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5gve_A] [5gve_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5GVE
  • Community annotation for 5GVE at PDBWiki (http://pdbwiki.org)

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