3DA2

X-ray structure of human carbonic anhydrase 13 in complex with inhibitor

Structural Biology Knowledgebase: 3DA2 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.221
  • R-Value Work: 0.159

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3DA2

Classification: LYASE

Total Structure Weight: 59813.98

Macromolecule Entities
Molecule Chains Length Organism Details
Carbonic anhydrase 13 A, B 262 Homo sapiens EC#: 4.2.1.1 IUBMB
Gene Name(s): CA13 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
4MD
Query on 4MD

A, B N-(4-chlorobenzyl)-N-methylbenzene-1,4-disulfonamide
C14 H15 Cl N2 O4 S2
IPPUTOHDQOYDIL-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A, B ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

B CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
CL Ki: 138000000 nM (91) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.221
  • R-Value Work: 0.159
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 153.64 α = 90.00
b = 45.14 β = 116.28
c = 87.94 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-05-28
  • Released Date: 2008-07-15
  • Deposition author(s): Pilka, E.S., Picaud, S.S., Yue, W.W., King, O.N.F., Bray, J.E., Filippakopoulos, P., Roos, A.K., Pike, A.C.W., von Delft, F., Arrowsmith, C.H., Wikstrom, M., Edwards, A.M., Bountra, C., Oppermann, U., Structural Genomics Consortium (SGC)

Revision History

  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4