4KP8

Crystal structure of catalytic domain of human carbonic anhydrase isozyme XII with 3-[(Pyrimidin-2-ylsulfanyl)acetyl]benzenesulfonamide

Structural Biology Knowledgebase: 4KP8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.251
  • R-Value Work: 0.198

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4KP8

Classification: LYASE / LYASE INHIBITOR

Total Structure Weight: 121212.43

Macromolecule Entities
Molecule Chains Length Organism Details
Carbonic anhydrase 12 A, B, C, D 263 Homo sapiens EC#: 4.2.1.1 IUBMB
Fragment: Catalytic domain, UNP residues 30-291
Gene Name(s): CA12 Gene View

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
E1G
Query on E1G

A, B, D 3-[(pyrimidin-2-ylsulfanyl)acetyl]benzenesulfonamide
C12 H11 N3 O3 S2
BWAZRCOFUQSGBG-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PEG
Query on PEG

B, D DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-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, B, C, D ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
EDO
Query on EDO

B 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
E1G N/A in BindingDB
Kd: 3330 nM  BindingMOAD
Kd: 3330 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.251
  • R-Value Work: 0.198
  • Space Group: P 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 46.82 α = 81.88
b = 67.26 β = 83.99
c = 81.19 γ = 86.51

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-05-13
  • Released Date: 2013-11-06
  • Deposition author(s): Smirnov, A., Manakova, E., Grazulis, S.

Revision History

No revisions since initial release