6TB5

The crystal structure of the DPS2 from DEINOCOCCUS RADIODURANS to 1.83A resolution (sequentially soaked in CaCl2 [5mM] for 20 min, then in Ammonium iron(II) sulfate [10mM] for 2h).

• PDB DOI: https://doi.org/10.2210/pdb6TB5/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Deinococcus radiodurans
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2019-10-31 Released: 2020-11-18 
• Deposition Author(s): Cuypers, M.G., McSweeney, S., Romao, C.V., Mitchell, E.P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.83 Å
• R-Value Free: 0.212 
• R-Value Work: 0.173 
• R-Value Observed: 0.175 

Literature

The crystal structure of the DPS2 from DEINOCOCCUS RADIODURANS to 1.83A resolution (sequentially soaked in CaCl2 [5mM] for 20 min, then in Ammonium iron(II) sulfate [10mM] for 2h).

Cuypers, M.G., McSweeney, S., Romao, C.V., Mitchell, E.P.

To be published.

Biological Assembly 1  

Global Symmetry: Tetrahedral - T  (Explore in 3D)
Global Stoichiometry: Homo 12-mer - A12 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 23.59 kDa 
• Atom Count: 1,498 
• Modelled Residue Count: 165 
• Deposited Residue Count: 211 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA protection during starvation protein 2	A	211	Deinococcus radiodurans	Mutation(s): 0  Gene Names: dps2, dps-2, DR_B0092 EC: 1.16
UniProt
Find proteins for Q9RZN1 (Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / CCUG 27074 / LMG 4051 / NBRC 15346 / NCIMB 9279 / VKM B-1422 / R1)) Explore Q9RZN1  Go to UniProtKB:  Q9RZN1

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FE (Subject of Investigation/LOI)	D [auth A], E [auth A], F [auth A], G [auth A]	FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N
CA (Subject of Investigation/LOI)	B [auth A], C [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.83 Å
• R-Value Free: 0.212 
• R-Value Work: 0.173 
• R-Value Observed: 0.175 
• Space Group: P 2 3
• Diffraction Data: https://doi.org/10.18430/m36tb5

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.83	α = 90
b = 88.83	β = 90
c = 88.83	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
iMOSFLM	data reduction
Aimless	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-11-18 
Deposition Author(s): Cuypers, M.G., McSweeney, S., Romao, C.V., Mitchell, E.P.

Revision History  

• Version 1.0: 2020-11-18
  Type: Initial release
  
• Version 1.1: 2024-01-24
  Changes: Data collection, Database references, Refinement description