2IVQ | pdb_00002ivq

SITE DIRECTED MUTAGENESIS OF KEY RESIDUES INVOLVED IN THE CATALYTIC MECHANISM OF CYANASE

• PDB DOI: https://doi.org/10.2210/pdb2IVQ/pdb

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


• Deposited: 2006-06-14 Released: 2008-10-28 
• Deposition Author(s): Guilloton, M., Walsh, M.A., Joachimiak, A., Anderson, P.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.243 (Depositor) 
• R-Value Work: 
  0.180 (Depositor) 
• R-Value Observed: 
  0.183 (Depositor) 

Starting Model: experimental

Literature

A Twin Set of Low Pka Arginines Ensures the Concerted Acid Base Catalytic Mechanism of Cyanase

Guilloton, M., Walsh, M.A., Joachimiak, A., Anderson, P.M.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D5  (Explore in 3D)
Global Stoichiometry: Homo 10-mer - A10 

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

Macromolecule Content 

• Total Structure Weight: 173.16 kDa 
• Atom Count: 13,229 
• Modeled Residue Count: 1,560 
• Deposited Residue Count: 1,560 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CYANATE HYDRATASE	A, B, C, D, E, F, G, H, I, J	156	Escherichia coli	Mutation(s): 1  EC: 4.2.1.104
UniProt
Find proteins for P00816 (Escherichia coli (strain K12)) Explore P00816  Go to UniProtKB:  P00816

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	AA [auth F], BA [auth F], CA [auth F], FA [auth G], GA [auth G], HA [auth G], K [auth A], KA [auth H], L [auth A], LA [auth H], MA [auth H], N [auth B], O [auth B], OA [auth I], PA [auth I], QA [auth I], R [auth C], SA [auth J], T [auth D], TA [auth J], U [auth D], V [auth D], X [auth E], Y [auth E]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
CL	DA [auth F], EA [auth F], IA [auth G], JA [auth H], M [auth A], NA [auth I], P [auth B], Q [auth C], RA [auth J], S [auth C], UA [auth J], W [auth D], Z [auth E]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.243 (Depositor) 
• R-Value Work:  0.180 (Depositor) 
• R-Value Observed: 0.183 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.883	α = 69.99
b = 80.845	β = 71.98
c = 82.647	γ = 66.17

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-10-28 
Deposition Author(s): Guilloton, M., Walsh, M.A., Joachimiak, A., Anderson, P.M.

Revision History  

• Version 1.0: 2008-10-28
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2019-05-08
  Changes: Data collection, Experimental preparation, Other
• Version 1.4: 2023-12-13
  Changes: Data collection, Database references, Other, Refinement description