Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 76992.16 
• Atom Count: 5124 
• Residue Count: 684 
• Unique protein chains: 1

1LNZ

Structure of the Obg GTP-binding protein

• DOI: 10.2210/pdb1LNZ/pdb

• Classification: CELL CYCLE
• Organism(s): Bacillus subtilis (strain 168)
• Expression System: Escherichia coli


• Deposited: 2002-05-04 Released: 2002-09-16 
• Deposition Author(s): Buglino, J., Shen, V., Hakimian, P., Lima, C.D., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.6 Å
• R-Value Free: 0.293 
• R-Value Work: 0.203 

Literature

Structural and biochemical analysis of the Obg GTP binding protein

Buglino, J., Shen, V., Hakimian, P., Lima, C.D.

(2002) Structure 10: 1581-1592

• PubMed: 12429099 


• PubMed Abstract: 
  

The Obg nucleotide binding protein family has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to man. Members of the family contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain. Structural analysis of Bacillus subtilis Obg revealed respective domain architectures and how they are coupled through the putative switch elements of the C-terminal GTPase domain in apo and nucleotide-bound configurations. Biochemical analysis of bacterial and human Obg proteins combined with the structural observation of the ppGpp nucleotide within the Obg active sight suggest a potential role for ppGpp modulation of Obg function in B. subtilis.

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Organizational Affiliation: 

Biochemistry Department, Structural Biology Program, Weill Medical College of Cornell University, New York, NY 10021, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
SPO0B-associated GTP-binding protein	A, B	342	Bacillus subtilis (strain 168)	Mutation(s): 0  Gene Names: obg EC: 3.6.5.-
Find proteins for P20964 (Bacillus subtilis (strain 168)) Go to UniProtKB:  P20964

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
MG	A, B	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N
G4P	B	GUANOSINE-5',3'-TETRAPHOSPHATE C10 H17 N5 O17 P4 BUFLLCUFNHESEH-UUOKFMHZSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.6 Å
• R-Value Free: 0.293 
• R-Value Work: 0.203 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 59.580	α = 90.00
b = 105.006	β = 90.00
c = 124.098	γ = 90.00

Software Package:

Software Name	Purpose
HKL-2000	data reduction
CNS	refinement
SCALEPACK	data scaling
SHARP	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2002-05-04 
• Released Date: 2002-09-16 
• Deposition Author(s): Buglino, J., Shen, V., Hakimian, P., Lima, C.D., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History 

• Version 1.0: 2002-09-16
  Type: Initial release
• Version 1.1: 2008-04-28
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance