3GE4

Crystal structure of ferritin:DNA-binding protein DPS from Brucella Melitensis

• PDB DOI: https://doi.org/10.2210/pdb3GE4/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Brucella melitensis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-02-25 Released: 2009-03-03 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.179 
• R-Value Work: 0.143 
• R-Value Observed: 0.145 

Literature

Crystal structure of ferritin:DNA-binding protein DPS from Brucella Melitensis

Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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 and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 232.2 kDa 
• Atom Count: 17,437 
• Modelled Residue Count: 1,932 
• Deposited Residue Count: 2,076 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA PROTECTION DURING STARVATION PROTEIN	A, B, C, D, E, F, G, H, I, J, K, L	173	Brucella melitensis	Mutation(s): 0  Gene Names: BMEI1980
UniProt
Find proteins for Q8YE98 (Brucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094)) Explore Q8YE98  Go to UniProtKB:  Q8YE98

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], R [auth F], S [auth G], T [auth H], U [auth I], V [auth J], W [auth K], X [auth L]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.179 
• R-Value Work: 0.143 
• R-Value Observed: 0.145 
• Space Group: P 1 2₁ 1
• Diffraction Data: https://doi.org/10.18430/M33GE4

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.24	α = 90
b = 98.33	β = 89.98
c = 105.45	γ = 90

Software Package:

Software Name	Purpose
BOS	data collection
PHASER	phasing
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-03-03 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2009-03-03
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-09-06
  Changes: Data collection, Database references, Derived calculations, Refinement description