2IVB | pdb_00002ivb

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

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 
    0.207 (Depositor) 
  • R-Value Work: 
    0.145 (Depositor) 
  • R-Value Observed: 
    0.148 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 2IVB

This is version 1.4 of the entry. See complete history. 

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.

Macromolecule Content 

  • Total Structure Weight: 172.62 kDa 
  • Atom Count: 14,972 
  • Modeled Residue Count: 1,560 
  • Deposited Residue Count: 1,560 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:
|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
CYANATE HYDRATASE
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J
156Escherichia coliMutation(s): 1 
EC: 4.2.1.104
UniProt
Find proteins for P00816 (Escherichia coli (strain K12))
Explore P00816 
Go to UniProtKB:  P00816
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP00816
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
SO4

Query on SO4


Download:Ideal Coordinates CCD File
BA [auth G]
CA [auth G]
GA [auth H]
IA [auth I]
JA [auth I]
BA [auth G],
CA [auth G],
GA [auth H],
IA [auth I],
JA [auth I],
K [auth A],
KA [auth I],
M [auth B],
NA [auth J],
Q [auth D],
R [auth D],
S [auth D],
T [auth D],
V [auth E],
X [auth F],
Y [auth F]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
AZI

Query on AZI


Download:Ideal Coordinates CCD File
AA [auth F],
FA [auth G],
P [auth C],
U [auth D],
W [auth E]		AZIDE ION
N3
IVRMZWNICZWHMI-UHFFFAOYSA-N
CL

Query on CL


Download:Ideal Coordinates CCD File
DA [auth G]
EA [auth G]
HA [auth H]
L [auth A]
LA [auth I]
DA [auth G],
EA [auth G],
HA [auth H],
L [auth A],
LA [auth I],
MA [auth I],
N [auth B],
O [auth C],
OA [auth J],
Z [auth F]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free:  0.207 (Depositor) 
  • R-Value Work:  0.145 (Depositor) 
  • R-Value Observed: 0.148 (Depositor) 
Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 76.504α = 69.86
b = 80.601β = 71.38
c = 82.108γ = 66.43
Software Package:
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing

Structure Validation

View Full Validation Report



View more in-depth experimental data

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • 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