2VKP

Crystal structure of BTB domain from BTBD6

Structural Biology Knowledgebase: 2VKP SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.234
  • R-Value Work: 0.194

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2VKP

Classification: PROTEIN-BINDING

Total Structure Weight: 24422.26

Macromolecule Entities
Molecule Chains Length Organism Details
BTB/POZ DOMAIN-CONTAINING PROTEIN 6 A, B 109 Homo sapiens Fragment: BTB DOMAIN, RESIDUES 2-108
Gene Name(s): BTBD6 Gene View BDPL

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

B 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
K
Query on K

B POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer
 
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: 1.9 Å
  • R-Value Free: 0.234
  • R-Value Work: 0.194
  • Space Group: P 65 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 58.13 α = 90.00
b = 58.13 β = 90.00
c = 332.46 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-12-21
  • Released Date: 2008-02-12
  • Deposition author(s): Cooper, C.D.O., Pike, A.C.W., Salah, E., Filippakopoulos, P., Bunkoczi, G., Elkins, J.M., von Delft, F., Gileadi, O., Edwards, A., Weigelt, J., Arrowsmith, C.H., Knapp, S.

Revision History

  • 2013-03-06
    Type: Biological assembly | Details: REMARK 350
  • 2013-03-06
    Type: Other | Details: MASTER
  • 2013-03-06
    Type: Sequence database correspondence | Details: SEQADV, DBREF
  • 2013-03-06
    Type: Geometry validation | Details: REMARK 500
  • 2013-03-06
    Type: Data collection | Details: REMARK 200
  • 2011-07-13
    Type: Version format compliance | Details: Compliance with PDBx exchange dictionary V4
  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor