2WJ0 | pdb_00002wj0

Crystal structures of Holliday junction resolvases from Archaeoglobus fulgidus bound to DNA substrate

• PDB DOI: https://doi.org/10.2210/pdb2WJ0/pdb
• NAKB: 2WJ0

• Classification: HYDROLASE/DNA
• Organism(s): Archaeoglobus fulgidus, synthetic construct
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2009-05-18 Released: 2009-05-26 
• Deposition Author(s): Carolis, C., Koehler, C., Sauter, C., Basquin, J., Suck, D., Toeroe, I.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.10 Å
• R-Value Free: 
  0.278 (Depositor), 0.276 (DCC) 
• R-Value Work: 
  0.202 (Depositor), 0.209 (DCC) 
• R-Value Observed: 
  0.205 (Depositor) 

Starting Model: experimental

Literature

Crystal Structures of Holliday Junction Resolvases from Archaeoglobus Fulgidus Bound to DNA Substrate

Carolis, C., Koehler, C., Sauter, C., Basquin, J., Suck, D., Toeroe, I.

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: 46.25 kDa 
• Atom Count: 2,983 
• Modeled Residue Count: 298 
• Deposited Residue Count: 326 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ARCHAEAL HJC	A, B	139	Archaeoglobus fulgidus	Mutation(s): 0  EC: 3.1.21.10
UniProt
Find proteins for O28314 (Archaeoglobus fulgidus (strain ATCC 49558 / DSM 4304 / JCM 9628 / NBRC 100126 / VC-16)) Explore O28314  Go to UniProtKB:  O28314

Entity ID: 2
Molecule	Chains	Length	Organism	Image
HALF-JUNCTION	C	24	synthetic construct

Entity ID: 3
Molecule	Chains	Length	Organism	Image
HALF-JUNCTION	D	24	synthetic construct

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NCO	E [auth B]	COBALT HEXAMMINE(III) Co H18 N6 DYLMFCCYOUSRTK-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.10 Å
• R-Value Free:  0.278 (Depositor), 0.276 (DCC) 
• R-Value Work:  0.202 (Depositor), 0.209 (DCC) 
• R-Value Observed: 0.205 (Depositor) 

Space Group: P 6₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 110.98	α = 90
b = 110.98	β = 90
c = 150.5	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-05-26 
Deposition Author(s): Carolis, C., Koehler, C., Sauter, C., Basquin, J., Suck, D., Toeroe, I.

Revision History  

• Version 1.0: 2009-05-26
  Type: Initial release
  
• Version 1.1: 2015-10-28
  Changes: Derived calculations, Non-polymer description, Other, Refinement description, Source and taxonomy, Version format compliance
• Version 1.2: 2023-12-13
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description