8K1W | pdb_00008k1w

Crystal structure of PLA2 from Saccharothrix espanaensis

• PDB DOI: https://doi.org/10.2210/pdb8K1W/pdb

• Classification: HYDROLASE
• Organism(s): Saccharothrix espanaensis DSM 44229
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-07-11 Released: 2024-07-24 
• Deposition Author(s): Zhang, Z.M., Wang, F.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 
  0.157 (Depositor), 0.150 (DCC) 
• R-Value Work: 
  0.153 (Depositor), 0.150 (DCC) 
• R-Value Observed: 
  0.153 (Depositor) 

Starting Model: in silico

Literature

Crystal structure of PLA2 from Saccharothrix espanaensis

Zhang, Z.M.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 14.47 kDa 
• Atom Count: 1,120 
• Modeled Residue Count: 120 
• Deposited Residue Count: 125 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PLA2	A	125	Saccharothrix espanaensis DSM 44229	Mutation(s): 0  Gene Names: BN6_69480
UniProt
Find proteins for K0KBJ2 (Saccharothrix espanaensis (strain ATCC 51144 / DSM 44229 / JCM 9112 / NBRC 15066 / NRRL 15764)) Explore K0KBJ2  Go to UniProtKB:  K0KBJ2

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free:  0.157 (Depositor), 0.150 (DCC) 
• R-Value Work:  0.153 (Depositor), 0.150 (DCC) 
• R-Value Observed: 0.153 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 32.741	α = 90
b = 37.679	β = 90
c = 84.557	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
autoPROC	data processing
HKL-3000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-07-24 
Deposition Author(s): Zhang, Z.M., Wang, F.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-07-24
  Type: Initial release
  
• Version 1.1: 2024-10-16
  Changes: Structure summary