4H0S | pdb_00004h0s

Crystal structure analysis of a basic phospholipase A2 from Trimeresurus stejnegeri venom

• PDB DOI: https://doi.org/10.2210/pdb4H0S/pdb

• Classification: HYDROLASE
• Organism(s): Trimeresurus stejnegeri
• Mutation(s): No 
• Membrane Protein: Yes  OPM


• Deposited: 2012-09-10 Released: 2012-09-19 
• Deposition Author(s): Zeng, F., Niu, L., Li, X., Teng, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 
  0.223 (Depositor), 0.221 (DCC) 
• R-Value Work: 
  0.181 (Depositor), 0.178 (DCC) 
• R-Value Observed: 
  0.183 (Depositor) 

Starting Model: experimental

Literature

Crystal structure analysis of a basic phospholipase A2 from Trimeresurus stejnegeri venom

Zeng, F., Niu, L., Li, X., Teng, M.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 46.08 kDa 
• Atom Count: 2,937 
• Modeled Residue Count: 345 
• Deposited Residue Count: 411 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Basic phospholipase A2 homolog CTs-R6	A, B, C	137	Trimeresurus stejnegeri	Mutation(s): 0  EC: 3.1.1.4 Membrane Entity: Yes
UniProt
Find proteins for Q6H3D7 (Trimeresurus stejnegeri) Explore Q6H3D7  Go to UniProtKB:  Q6H3D7

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NA	D [auth A], E [auth A], F [auth B], G [auth B], H [auth C]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free:  0.223 (Depositor), 0.221 (DCC) 
• R-Value Work:  0.181 (Depositor), 0.178 (DCC) 
• R-Value Observed: 0.183 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.946	α = 90
b = 71.436	β = 103.53
c = 53.607	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
MOLREP	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-09-19 
Deposition Author(s): Zeng, F., Niu, L., Li, X., Teng, M.

Revision History  

• Version 1.0: 2012-09-19
  Type: Initial release
  
• Version 1.1: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.2: 2024-10-30
  Changes: Structure summary