1WMW

Crystal structure of geranulgeranyl diphosphate synthase from Thermus thermophilus

• PDB DOI: https://doi.org/10.2210/pdb1WMW/pdb

• Classification: TRANSFERASE
• Organism(s): Thermus thermophilus HB8
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2004-07-21 Released: 2005-07-21 
• Deposition Author(s): Suto, K., Nishio, K., Nodake, Y., Hamada, K., Kawamoto, M., Nakagawa, N., Kuramitu, S., Miura, K., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 0.198 
• R-Value Work: 0.175 
• R-Value Observed: 0.175 

Literature

Crystal structure of geranulgeranyl diphosphate synthase from Thermus thermophilus

Suto, K., Nishio, K., Nodake, Y., Hamada, K., Kawamoto, M., Nakagawa, N., Kuramitu, S., Miura, K.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 146.21 kDa 
• Atom Count: 11,326 
• Modelled Residue Count: 1,299 
• Deposited Residue Count: 1,320 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
geranylgeranyl diphosphate synthetase	A, B, C, D	330	Thermus thermophilus HB8	Mutation(s): 0  EC: 2.5.1
UniProt
Find proteins for Q5SMD0 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SMD0  Go to UniProtKB:  Q5SMD0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 0.198 
• R-Value Work: 0.175 
• R-Value Observed: 0.175 
• Space Group: P 4₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 139.88	α = 90
b = 139.88	β = 90
c = 73.35	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-07-21 
Deposition Author(s): Suto, K., Nishio, K., Nodake, Y., Hamada, K., Kawamoto, M., Nakagawa, N., Kuramitu, S., Miura, K., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2005-07-21
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.3: 2024-03-13
  Changes: Data collection, Database references