2GQU | pdb_00002gqu

Crystal Structure of UDP-N-Acetylenolpyruvylglucosamine Reductase (MurB) from Thermus caldophilus

• PDB DOI: https://doi.org/10.2210/pdb2GQU/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Thermus caldophilus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2006-04-21 Released: 2006-12-19 
• Deposition Author(s): Eom, S.H., Kim, M.-K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.223 (Depositor), 0.222 (DCC) 
• R-Value Work: 
  0.170 (Depositor), 0.169 (DCC) 
• R-Value Observed: 
  0.172 (Depositor) 

Literature

Crystal structure of UDP-N-acetylenolpyruvylglucosamine reductase (MurB) from Thermus caldophilus

Kim, M.-K., Cho, M.K., Song, H.-E., Kim, D., Park, B.-H., Lee, J.H., Kang, G.B., Kim, S.H., Im, Y.J., Lee, D.-S., Eom, S.H.

(2006) Proteins 66: 751-754

• PubMed: 17120230 
• DOI: https://doi.org/10.1002/prot.21174
• Primary Citation Related Structures: 
  2GQT, 2GQU

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Organizational Affiliation: 
• Department of Life Science, Gwangju Institute of Science and Technology, Gwangju 500-712, Korea.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 31.09 kDa 
• Atom Count: 2,570 
• Modeled Residue Count: 266 
• Deposited Residue Count: 268 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
UDP-N-Acetylenolpyruvylglucosamine Reductase	A	268	Thermus caldophilus	Mutation(s): 0  EC: 1.1.1.158 (PDB Primary Data), 1.3.1.98 (UniProt)
UniProt
Find proteins for Q5SJC8 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SJC8  Go to UniProtKB:  Q5SJC8

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FAD	B [auth A]	FLAVIN-ADENINE DINUCLEOTIDE C27 H33 N9 O15 P2 VWWQXMAJTJZDQX-UYBVJOGSSA-N
EPU	C [auth A]	URIDINE-DIPHOSPHATE-2(N-ACETYLGLUCOSAMINYL) BUTYRIC ACID C20 H29 N3 O19 P2 BEGZZYPUNCJHKP-DBYWSUQTSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.223 (Depositor), 0.222 (DCC) 
• R-Value Work:  0.170 (Depositor), 0.169 (DCC) 
• R-Value Observed: 0.172 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 29.817	α = 65.26
b = 46.85	β = 76.13
c = 48.593	γ = 84.01

Software Package:

Software Name	Purpose
REFMAC	refinement
ADSC	data collection
HKL-2000	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-12-19 
Deposition Author(s): Eom, S.H., Kim, M.-K.

Revision History  

• Version 1.0: 2006-12-19
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-03-13
  Changes: Data collection, Database references, Derived calculations