6SDH | pdb_00006sdh

Human Carbonic Anhydrase II in complex with an inhibitor soaked at a concentration of 5 mM

• PDB DOI: https://doi.org/10.2210/pdb6SDH/pdb

• Classification: LYASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2019-07-27 Released: 2020-08-26 
• Deposition Author(s): Gloeckner, S., Haake, M., Heine, A., Klebe, G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.04 Å
• R-Value Free: 
  0.147 (Depositor), 0.147 (DCC) 
• R-Value Work: 
  0.131 (Depositor), 0.132 (DCC) 
• R-Value Observed: 
  0.132 (Depositor) 

Starting Model: experimental

Literature

Human Carbonic Anhydrase II in complex with an inhibitor soaked at a concentration of 5 mM

Gloeckner, S., Haake, M., Heine, A., Klebe, G.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 30.73 kDa 
• Atom Count: 2,486 
• Modeled Residue Count: 257 
• Deposited Residue Count: 265 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Carbonic anhydrase 2	A	265	Homo sapiens	Mutation(s): 0  Gene Names: CA2 EC: 4.2.1.1 (PDB Primary Data), 4.2.1.69 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P00918 (Homo sapiens) Explore P00918  Go to UniProtKB:  P00918
PHAROS:  P00918 GTEx:  ENSG00000104267

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BE7	D [auth A]	(4-CARBOXYPHENYL)(CHLORO)MERCURY C7 H5 Cl Hg O2 YFZOUMNUDGGHIW-UHFFFAOYSA-M
0VV (Subject of Investigation/LOI)	F [auth A]	N-[(2E)-3,4-dihydroquinazolin-2(1H)-ylidene]sulfuric diamide C8 H10 N4 O2 S NQQBFHZTZMKZCO-UHFFFAOYSA-N
HG	E [auth A]	MERCURY (II) ION Hg BQPIGGFYSBELGY-UHFFFAOYSA-N
DMS	C [auth A]	DIMETHYL SULFOXIDE C2 H6 O S IAZDPXIOMUYVGZ-UHFFFAOYSA-N
ZN	B [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.04 Å
• R-Value Free:  0.147 (Depositor), 0.147 (DCC) 
• R-Value Work:  0.131 (Depositor), 0.132 (DCC) 
• R-Value Observed: 0.132 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.298	α = 90
b = 41.739	β = 104.106
c = 72.337	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-08-26 
Deposition Author(s): Gloeckner, S., Haake, M., Heine, A., Klebe, G.

Revision History  

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