5JFG | pdb_00005jfg

Structure of humanised RadA-mutant humRadA22F in complex with peptide FHTA

• PDB DOI: https://doi.org/10.2210/pdb5JFG/pdb

• Classification: HYDROLASE
• Organism(s): Pyrococcus furiosus, synthetic construct
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2016-04-19 Released: 2016-10-26 
• Deposition Author(s): Fischer, G., Marsh, M., Moschetti, T., Sharpe, T., Scott, D., Morgan, M., Ng, H., Skidmore, J., Venkitaraman, A., Abell, C., Blundell, T.L., Hyvonen, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.77 Å
• R-Value Free: 
  0.192 (Depositor), 0.188 (DCC) 
• R-Value Work: 
  0.174 (Depositor), 0.175 (DCC) 
• R-Value Observed: 
  0.175 (Depositor) 

Starting Model: other

Literature

Humanisation of RadA from Pyrococcus furiosus

Fischer, G., Hyvonen, M.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Macromolecule Content 

• Total Structure Weight: 26.19 kDa 
• Atom Count: 1,993 
• Modeled Residue Count: 230 
• Deposited Residue Count: 237 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA repair and recombination protein RadA	A	231	Pyrococcus furiosus	Mutation(s): 11  Gene Names: radA, PF1926
UniProt
Find proteins for O74036 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore O74036  Go to UniProtKB:  O74036

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
PEPTIDE FHTA	B	6	synthetic construct	Mutation(s): 0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DMS	C [auth A], D [auth A], E [auth A]	DIMETHYL SULFOXIDE C2 H6 O S IAZDPXIOMUYVGZ-UHFFFAOYSA-N
CA	F [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.77 Å
• R-Value Free:  0.192 (Depositor), 0.188 (DCC) 
• R-Value Work:  0.174 (Depositor), 0.175 (DCC) 
• R-Value Observed: 0.175 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.515	α = 90
b = 59.269	β = 90
c = 88.144	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing
Coot	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-10-26 
Deposition Author(s): Fischer, G., Marsh, M., Moschetti, T., Sharpe, T., Scott, D., Morgan, M., Ng, H., Skidmore, J., Venkitaraman, A., Abell, C., Blundell, T.L., Hyvonen, M.

Revision History  

• Version 1.0: 2016-10-26
  Type: Initial release
  
• Version 1.1: 2024-05-01
  Changes: Data collection, Database references, Refinement description