2X7M

Crystal structure of Archaemetzincin (amzA) from Methanopyrus kandleri at 1.5 A resolution

• PDB DOI: https://doi.org/10.2210/pdb2X7M/pdb

• Classification: HYDROLASE
• Organism(s): Methanopyrus kandleri AV19
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-03-01 Released: 2010-06-09 
• Deposition Author(s): Waltersperger, S.M., Widmer, C., Baumann, U.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.203 
• R-Value Work: 0.176 
• R-Value Observed: 0.178 

Literature

Crystal Structure of Archaemetzincin Amza from Methanopyrus Kandleri at 1.5A Resolution.

Waltersperger, S.M., Widmer, C., Baumann, U.

(2010) Proteins 78: 2720

• PubMed: 20597090 
• DOI: https://doi.org/10.1002/prot.22777
• Primary Citation of Related Structures:  
  2X7M

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Organizational Affiliation: 

Department of Chemistry and Biochemistry, University of Bern, Bern 3012, Switzerland.

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: 22.16 kDa 
• Atom Count: 1,534 
• Modelled Residue Count: 180 
• Deposited Residue Count: 195 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ARCHAEMETZINCIN	A	195	Methanopyrus kandleri AV19	Mutation(s): 0  EC: 3 (PDB Primary Data), 3.4 (UniProt)
UniProt
Find proteins for Q8TXW1 (Methanopyrus kandleri (strain AV19 / DSM 6324 / JCM 9639 / NBRC 100938)) Explore Q8TXW1  Go to UniProtKB:  Q8TXW1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	B [auth A], C [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.203 
• R-Value Work: 0.176 
• R-Value Observed: 0.178 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.51	α = 90
b = 55.08	β = 90
c = 58.27	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
SHELXCD	phasing
SHELXE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-06-09 
Deposition Author(s): Waltersperger, S.M., Widmer, C., Baumann, U.

Revision History  

• Version 1.0: 2010-06-09
  Type: Initial release
  
• Version 1.1: 2011-09-28
  Changes: Database references, Refinement description, Version format compliance
• Version 2.0: 2024-05-08
  Changes: Atomic model, Data collection, Database references, Derived calculations, Other