6N2L

Crystal structure of a histone family protein DNA-binding protein from Burkholderia ambifaria

• PDB DOI: https://doi.org/10.2210/pdb6N2L/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Burkholderia ambifaria MC40-6
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): No 


• Deposited: 2018-11-13 Released: 2018-12-05 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 0.295 
• R-Value Work: 0.245 
• R-Value Observed: 0.249 

Starting Model: experimental

Literature

Crystal structure of a histone family protein DNA-binding protein from Burkholderia ambifaria

Abendroth, J., Mayclin, S.J., Lorimer, D., Horanyi, P.S., Edwards, T.E.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 10.65 kDa 
• Atom Count: 672 
• Modelled Residue Count: 88 
• Deposited Residue Count: 100 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Histone family protein DNA-binding protein	A	100	Burkholderia ambifaria MC40-6	Mutation(s): 0  Gene Names: BamMC406_0065
UniProt
Find proteins for B1YQ53 (Burkholderia ambifaria (strain MC40-6)) Explore B1YQ53  Go to UniProtKB:  B1YQ53

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 0.295 
• R-Value Work: 0.245 
• R-Value Observed: 0.249 
• Space Group: C 2 2 2₁
• Diffraction Data: https://doi.org/10.18430/m36n2l

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 38.21	α = 90
b = 71.4	β = 90
c = 76.73	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
XSCALE	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
MoRDa	phasing
Coot	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2018-12-05 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2018-12-05
  Type: Initial release
  
• Version 1.1: 2018-12-19
  Changes: Data collection, Refinement description
• Version 1.2: 2023-10-11
  Changes: Data collection, Database references, Refinement description