1YQC | pdb_00001yqc

Crystal Structure of Ureidoglycolate Hydrolase (AllA) from Escherichia coli O157:H7

• PDB DOI: https://doi.org/10.2210/pdb1YQC/pdb

• Classification: HYDROLASE
• Organism(s): Escherichia coli O157:H7
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2005-02-01 Released: 2005-10-18 
• Deposition Author(s): Raymond, S., Tocilj, A., Matte, A., Cygler, M., Montreal-Kingston Bacterial Structural Genomics Initiative (BSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.71 Å
• R-Value Free: 
  0.269 (Depositor), 0.268 (DCC) 
• R-Value Work: 
  0.226 (Depositor), 0.225 (DCC) 
• R-Value Observed: 
  0.228 (Depositor) 

Literature

Crystal structure of ureidoglycolate hydrolase (AllA) from Escherichia coli O157:H7

Raymond, S., Tocilj, A., Ajamian, E., Li, Y., Hung, M.-N., Matte, A., Cygler, M.

(2005) Proteins 61: 454-459

• PubMed: 16114032 
• DOI: https://doi.org/10.1002/prot.20537
• Primary Citation Related Structures: 
  1YQC

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Organizational Affiliation: 
• Biotechnology Research Institute, NRC, Montréal, Québec, Canada.

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: 39.24 kDa 
• Atom Count: 2,878 
• Modeled Residue Count: 320 
• Deposited Residue Count: 340 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ureidoglycolate hydrolase	A, B	170	Escherichia coli O157:H7	Mutation(s): 2  Gene Names: AllA EC: 3.5.3.19 (PDB Primary Data), 4.3.2.3 (UniProt)
UniProt
Find proteins for P63486 (Escherichia coli O157:H7) Explore P63486  Go to UniProtKB:  P63486

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GLV	C [auth A]	GLYOXYLIC ACID C2 H2 O3 HHLFWLYXYJOTON-UHFFFAOYSA-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: 1.71 Å
• R-Value Free:  0.269 (Depositor), 0.268 (DCC) 
• R-Value Work:  0.226 (Depositor), 0.225 (DCC) 
• R-Value Observed: 0.228 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.047	α = 90
b = 74.466	β = 103.894
c = 56.364	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing
RESOLVE	phasing
REFMAC	refinement
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-10-18 
Deposition Author(s): Raymond, S., Tocilj, A., Matte, A., Cygler, M., Montreal-Kingston Bacterial Structural Genomics Initiative (BSGI)

Revision History  

• Version 1.0: 2005-10-18
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Source and taxonomy, Version format compliance
• Version 1.3: 2017-10-11
  Changes: Refinement description
• Version 1.4: 2024-11-13
  Changes: Data collection, Database references, Derived calculations, Structure summary