3UGS | pdb_00003ugs

Crystal structure of a probable undecaprenyl diphosphate synthase (uppS) from Campylobacter jejuni

• PDB DOI: https://doi.org/10.2210/pdb3UGS/pdb

• Classification: TRANSFERASE
• Organism(s): Campylobacter jejuni
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2011-11-02 Released: 2011-11-30 
• Deposition Author(s): Nocek, B., Gu, M., Grimshaw, S., Anderson, W.F., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.46 Å
• R-Value Free: 
  0.253 (Depositor), 0.261 (DCC) 
• R-Value Work: 
  0.202 (Depositor), 0.211 (DCC) 
• R-Value Observed: 
  0.207 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of a probable undecaprenyl diphosphate synthase (uppS) from Campylobacter jejuni

Nocek, B., Gu, M., Grimshaw, S., Anderson, W.F., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)

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)

Macromolecule Content 

• Total Structure Weight: 53.41 kDa 
• Atom Count: 3,370 
• Modeled Residue Count: 413 
• Deposited Residue Count: 450 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Undecaprenyl pyrophosphate synthase	A [auth B], B [auth A]	225	Campylobacter jejuni	Mutation(s): 0  Gene Names: uppS, Cj0824 EC: 2.5.1.31 (PDB Primary Data), 2.5.1 (UniProt)
UniProt
Find proteins for Q9PP99 (Campylobacter jejuni subsp. jejuni serotype O:2 (strain ATCC 700819 / NCTC 11168)) Explore Q9PP99  Go to UniProtKB:  Q9PP99

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FFT	C [auth B], D [auth A]	(2Z,6Z)-3,7,11-trimethyldodeca-2,6,10-trien-1-yl dihydrogen phosphate C15 H27 O4 P ALEWCKXBHSDCCT-FBXUGWQNSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.46 Å
• R-Value Free:  0.253 (Depositor), 0.261 (DCC) 
• R-Value Work:  0.202 (Depositor), 0.211 (DCC) 
• R-Value Observed: 0.207 (Depositor) 

Diffraction Data: https://doi.org/10.18430/m33ugs

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.643	α = 90
b = 67.234	β = 90
c = 118.85	γ = 90

Software Package:

Software Name	Purpose
SBC-Collect	data collection
MOLREP	phasing
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-11-30 
Deposition Author(s): Nocek, B., Gu, M., Grimshaw, S., Anderson, W.F., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History  

• Version 1.0: 2011-11-30
  Type: Initial release
  
• Version 1.1: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description