2CSB

Crystal structure of Topoisomerase V from Methanopyrus kandleri (61 kDa fragment)

Structural Biology Knowledgebase: 2CSB SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.292
  • R-Value Work: 0.217

Literature

Macromolecules
Sequence Display for 2CSB

Classification: ISOMERASE

Total Structure Weight: 120688.18

Macromolecule Entities
Molecule Chains Length Organism Details
Topoisomerase V A, B 519 Methanopyrus kandleri Fragment: N-term 61 kDa fragment
Mutation: M1M, M40M, M155M, M166M, M286M, M325M, M391M
Gene Name(s): top5
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.292
  • R-Value Work: 0.217
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 70.69 α = 90.00
b = 89.77 β = 90.00
c = 189.07 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-05-21
  • Released Date: 2006-01-31
  • Deposition author(s): Taneja, B., Patel, A., Slesarev, A., Mondragon, A.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor