3M40

Crystal structure of human carbonic anhydrase isozyme II with 4-[N-(6-chloro-5-nitropyrimidin-4-yl)amino]benzenesulfonamide

Structural Biology Knowledgebase: 3M40 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.154

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3M40

Classification: LYASE / LYASE INHIBITOR

Total Structure Weight: 29762.53

Macromolecule Entities
Molecule Chains Length Organism Details
Carbonic anhydrase 2 A 260 Homo sapiens EC#: 4.2.1.1 IUBMB
Gene Name(s): CA2 Gene View

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
J45
Query on J45

A 4-[(6-chloro-5-nitropyrimidin-4-yl)amino]benzenesulfonamide
C10 H8 Cl N5 O4 S
DCTSAUVMCCOZNV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DMS
Query on DMS

A DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
J45 Kd: 90 - 170 nM (100) BindingDB

Kd: 170 nM  BindingMOAD
Kd: 170 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.154
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 42.18 α = 90.00
b = 41.17 β = 104.54
c = 72.48 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-03-10
  • Released Date: 2010-10-20
  • Deposition author(s): Grazulis, S., Manakova, E., Golovenko, D.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4