6G57 | pdb_00006g57

Structure of the H1 domain of human KCTD8

• PDB DOI: https://doi.org/10.2210/pdb6G57/pdb

• Classification: LIGASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2018-03-29 Released: 2019-03-20 
• Deposition Author(s): Pinkas, D.M., Bufton, J.C., Strain-Damerell, C.M., Fairhead, M., Burgess-Brown, N.A., von Delft, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Bullock, A.N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.342 (Depositor), 0.332 (DCC) 
• R-Value Work: 
  0.295 (Depositor), 0.308 (DCC) 
• R-Value Observed: 
  0.296 (Depositor) 

Starting Model: other

Literature

Structure of the H1 domain of human KCTD8

Pinkas, D.M.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 57.75 kDa 
• Atom Count: 2,668 
• Modeled Residue Count: 360 
• Deposited Residue Count: 496 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BTB/POZ domain-containing protein KCTD8	A, B, C, D	124	Homo sapiens	Mutation(s): 0  Gene Names: KCTD8
UniProt & NIH Common Fund Data Resources
Find proteins for Q6ZWB6 (Homo sapiens) Explore Q6ZWB6  Go to UniProtKB:  Q6ZWB6
PHAROS:  Q6ZWB6 GTEx:  ENSG00000183783

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.342 (Depositor), 0.332 (DCC) 
• R-Value Work:  0.295 (Depositor), 0.308 (DCC) 
• R-Value Observed: 0.296 (Depositor) 

Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 92.117	α = 90
b = 92.117	β = 90
c = 219.355	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
xia2	data reduction
xia2	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-03-20 
Deposition Author(s): Pinkas, D.M., Bufton, J.C., Strain-Damerell, C.M., Fairhead, M., Burgess-Brown, N.A., von Delft, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Bullock, A.N.

Revision History  

• Version 1.0: 2019-03-20
  Type: Initial release
  
• Version 1.1: 2024-05-01
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-11-06
  Changes: Structure summary