3NO8 | pdb_00003no8

Crystal structure of the PHR domain from human BTBD2 Protein

• PDB DOI: https://doi.org/10.2210/pdb3NO8/pdb

• Classification: ISOMERASE REGULATOR
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-06-24 Released: 2010-08-25 
• Deposition Author(s): Sampathkumar, P., Miller, S., Rutter, M., Bain, K., Gheyi, T., Atwell, S., Thompson, D.A., Emtage, J.S., Wasserman, S., Sauder, J.M., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 
  0.255 (Depositor), 0.263 (DCC) 
• R-Value Work: 
  0.199 (Depositor), 0.206 (DCC) 
• R-Value Observed: 
  0.202 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of the PHR domain from human BTBD2 Protein

Sampathkumar, P.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 39.69 kDa 
• Atom Count: 2,514 
• Modeled Residue Count: 314 
• Deposited Residue Count: 352 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BTB/POZ domain-containing protein 2	A, B	176	Homo sapiens	Mutation(s): 0  Gene Names: BTBD, BTBD2
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BX70 (Homo sapiens) Explore Q9BX70  Go to UniProtKB:  Q9BX70
PHAROS:  Q9BX70 GTEx:  ENSG00000133243

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	F [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	C [auth A], D [auth A], E [auth A], G [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free:  0.255 (Depositor), 0.263 (DCC) 
• R-Value Work:  0.199 (Depositor), 0.206 (DCC) 
• R-Value Observed: 0.202 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.513	α = 90
b = 59.513	β = 90
c = 175.919	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-08-25 
Deposition Author(s): Sampathkumar, P., Miller, S., Rutter, M., Bain, K., Gheyi, T., Atwell, S., Thompson, D.A., Emtage, J.S., Wasserman, S., Sauder, J.M., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2010-08-25
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2018-11-21
  Changes: Data collection, Structure summary
• Version 1.3: 2021-02-10
  Changes: Database references, Derived calculations, Structure summary
• Version 1.4: 2023-09-06
  Changes: Data collection, Database references, Refinement description