2RL2 | pdb_00002rl2

Crystal structure of UDP-N-acetylglucosamine enolpyruvyl transferase from Haemophilus influenzae in complex with UDP-N-acetylglucosamine and fosfomycin

• PDB DOI: https://doi.org/10.2210/pdb2RL2/pdb

• Classification: TRANSFERASE
• Organism(s): Haemophilus influenzae
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2007-10-18 Released: 2008-03-25 
• Deposition Author(s): Yoon, H.J., Suh, S.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.233 (Depositor), 0.232 (DCC) 
• R-Value Work: 
  0.187 (Depositor), 0.186 (DCC) 

Literature

Crystal structure of UDP-N-acetylglucosamine enolpyruvyl transferase from Haemophilus influenzae in complex with UDP-N-acetylglucosamine and fosfomycin

Yoon, H.J., Lee, S.J., Mikami, B., Park, H.J., Yoo, J., Suh, S.W.

(2008) Proteins 71: 1032-1037

• PubMed: 18247346 
• DOI: https://doi.org/10.1002/prot.21959
• Primary Citation Related Structures: 
  2RL1, 2RL2

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Organizational Affiliation: 
• Department of Chemistry, College of Natural Sciences, Seoul National University, Seoul 151-747, Korea.

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: 46.29 kDa 
• Atom Count: 3,448 
• Modeled Residue Count: 420 
• Deposited Residue Count: 424 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
UDP-N-acetylglucosamine 1-carboxyvinyltransferase	A	424	Haemophilus influenzae	Mutation(s): 0  Gene Names: MurA or MurZ EC: 2.5.1.7
UniProt
Find proteins for P45025 (Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)) Explore P45025  Go to UniProtKB:  P45025

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
UD1	F [auth A]	URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE C17 H27 N3 O17 P2 LFTYTUAZOPRMMI-CFRASDGPSA-N
GG6	E [auth A]	[(1S,2S)-1,2-DIHYDROXYPROPYL]PHOSPHONIC ACID C3 H9 O5 P MXMXXUIOCREOTJ-HRFVKAFMSA-N
SO4	B [auth A], C [auth A], D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.233 (Depositor), 0.232 (DCC) 
• R-Value Work:  0.187 (Depositor), 0.186 (DCC) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.694	α = 90
b = 124.463	β = 90
c = 126.276	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection
HKL-2000	data reduction
HKL-2000	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-03-25 
Deposition Author(s): Yoon, H.J., Suh, S.W.

Revision History  

• Version 1.0: 2008-03-25
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-10-16
  Changes: Data collection, Database references, Derived calculations, Structure summary