1C1J | pdb_00001c1j

STRUCTURE OF CADMIUM-SUBSTITUTED PHOSPHOLIPASE A2 FROM AGKISTRONDON HALYS PALLAS AT 2.8 ANGSTROMS RESOLUTION

• PDB DOI: https://doi.org/10.2210/pdb1C1J/pdb

• Classification: HYDROLASE
• Organism(s): Gloydius halys
• Mutation(s): No 


• Deposited: 1999-07-22 Released: 2002-07-05 
• Deposition Author(s): Zhang, H.-l., Zhang, Y.-q., Song, S.-y., Zhou, Y., Lin, Z.-j.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.282 (Depositor), 0.279 (DCC) 
• R-Value Work: 
  0.201 (Depositor), 0.224 (DCC) 

Literature

Structure of Cadmium-substituted Phospholipase A2 from Agkistrodon halys Pallas at 2.8 Angstroms Resolution

Zhang, H.-l., Zhang, Y.-q., Song, S.-y., Zhou, Y., Lin, Z.-j.

(1999) Protein Pept Lett 6: 185-193

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 56.95 kDa 
• Atom Count: 3,949 
• Modeled Residue Count: 488 
• Deposited Residue Count: 488 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
BASIC PHOSPHOLIPASE A2	A, B, C, D	122	Gloydius halys	Mutation(s): 0  EC: 3.1.1.4
UniProt
Find proteins for O42187 (Gloydius halys) Explore O42187  Go to UniProtKB:  O42187

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BOG	E [auth A], H [auth B]	octyl beta-D-glucopyranoside C14 H28 O6 HEGSGKPQLMEBJL-RKQHYHRCSA-N
CD	F [auth A], G [auth A], I [auth B], J [auth C], K [auth D], L [auth D]	CADMIUM ION Cd WLZRMCYVCSSEQC-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.282 (Depositor), 0.279 (DCC) 
• R-Value Work:  0.201 (Depositor), 0.224 (DCC) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 100.18	α = 90
b = 54.01	β = 111.59
c = 108.49	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
X-PLOR	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2002-07-05 
Deposition Author(s): Zhang, H.-l., Zhang, Y.-q., Song, S.-y., Zhou, Y., Lin, Z.-j.

Revision History  

• Version 1.0: 2002-07-05
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.4: 2024-10-30
  Changes: Data collection, Database references, Structure summary