6SKT | pdb_00006skt

Crystal structure of bovine carbonic anhydrase II in complex with a benzenesulfonamide-based ligand (SH0)

• PDB DOI: https://doi.org/10.2210/pdb6SKT/pdb

• Classification: LYASE
• Organism(s): Bos taurus
• Mutation(s): No 


• Deposited: 2019-08-16 Released: 2020-08-26 
• Deposition Author(s): Groves, M.R., Wang, W., van Oosterwijk, N.
• Funding Organization(s): Netherlands Organisation for Scientific Research

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.204 (Depositor), 0.210 (DCC) 
• R-Value Work: 
  0.177 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.178 (Depositor) 

Starting Model: experimental

Literature

Target diazotransfer reagents to label metalloenzymes

Groves, M.R., Wang, W., van Oosterwijk, N., Witte, M., Lohse, J.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 29.73 kDa 
• Atom Count: 2,252 
• Modeled Residue Count: 258 
• Deposited Residue Count: 260 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Carbonic anhydrase 2	A	260	Bos taurus	Mutation(s): 0  EC: 4.2.1.1 (PDB Primary Data), 4.2.1.69 (UniProt)
UniProt
Find proteins for P00921 (Bos taurus) Explore P00921  Go to UniProtKB:  P00921

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
E6B (Subject of Investigation/LOI)	E [auth A]	~{N}-[2-(1~{H}-imidazol-4-yl)ethyl]-4-sulfamoyl-benzamide C12 H14 N4 O3 S ZXCVQCNIEYRZRX-UHFFFAOYSA-N
GOL	D [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
ZN	C [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
CU	B [auth A], F [auth A]	COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.204 (Depositor), 0.210 (DCC) 
• R-Value Work:  0.177 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.178 (Depositor) 

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.619	α = 90
b = 67.619	β = 90
c = 123.429	γ = 120

Software Package:

Software Name	Purpose
Aimless	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2020-08-26 
Deposition Author(s): Groves, M.R., Wang, W., van Oosterwijk, N.

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Funding Organization	Location	Grant Number
Netherlands Organisation for Scientific Research	Netherlands	722.012.003

Revision History  

• Version 1.0: 2020-08-26
  Type: Initial release
  
• Version 1.1: 2024-01-24
  Changes: Data collection, Database references, Refinement description