4UUI | pdb_00004uui

A case study for twinned data analysis: multiple crystal forms of the enzyme N-acetyl-neuraminic lyase

• PDB DOI: https://doi.org/10.2210/pdb4UUI/pdb

• Classification: LYASE
• Organism(s): Escherichia coli
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2014-07-29 Released: 2015-08-12 
• Deposition Author(s): Campeotto, I., Phillips, S.E.V., Pearson, A.R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.79 Å
• R-Value Free: 
  0.184 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.155 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.157 (Depositor) 

Starting Model: experimental

Literature

A Case Study for Twinned Data Analysis: Multiple Crystal Forms of the Enzyme N-Acetyl-Neuraminic Lyase

Campeotto, I., Phillips, S.E.V., Pearson, A.R.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content 

• Total Structure Weight: 135.34 kDa 
• Atom Count: 10,169 
• Modeled Residue Count: 1,196 
• Deposited Residue Count: 1,216 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
N-ACETYLNEURAMINATE LYASE	A, B, C, D	304	Escherichia coli	Mutation(s): 2  EC: 4.1.3.3
UniProt
Find proteins for P0A6L4 (Escherichia coli (strain K12)) Explore P0A6L4  Go to UniProtKB:  P0A6L4

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
1PE	G [auth B], J [auth D]	PENTAETHYLENE GLYCOL C10 H22 O6 JLFNLZLINWHATN-UHFFFAOYSA-N
PYR	E [auth A], H [auth B], I [auth C], K [auth D]	PYRUVIC ACID C3 H4 O3 LCTONWCANYUPML-UHFFFAOYSA-N
NA	F [auth B]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
KPI	A, B, C, D	L-PEPTIDE LINKING	C9 H16 N2 O4		LYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.79 Å
• R-Value Free:  0.184 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.155 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.157 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 77.985	α = 90
b = 116.665	β = 118.06
c = 83.678	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-08-12 
Deposition Author(s): Campeotto, I., Phillips, S.E.V., Pearson, A.R.

Revision History  

• Version 1.0: 2015-08-12
  Type: Initial release
  
• Version 2.0: 2023-11-15
  Changes: Atomic model, Data collection, Database references, Derived calculations, Other
• Version 2.1: 2023-11-29
  Changes: Data collection
• Version 2.2: 2024-01-10
  Changes: Refinement description