3W94 | pdb_00003w94

Structure of Oryzias latipes enteropeptidase light chain

• PDB DOI: https://doi.org/10.2210/pdb3W94/pdb

• Classification: HYDROLASE
• Organism(s): Oryzias latipes
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2013-03-26 Released: 2014-02-19 
• Deposition Author(s): Hu, S., Xu, J., Wang, H., Guo, Y.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.241 (Depositor), 0.243 (DCC) 
• R-Value Work: 
  0.193 (Depositor), 0.194 (DCC) 
• R-Value Observed: 
  0.195 (Depositor) 

Literature

Structure basis for the unique specificity of medaka enteropeptidase light chain.

Xu, J., Hu, S., Wang, X., Zhao, Z., Zhang, X., Wang, H., Zhang, D., Guo, Y.

(2014) Protein Cell 5: 178-181

• PubMed: 24481630 
• DOI: https://doi.org/10.1007/s13238-013-0008-x
• Primary Citation Related Structures: 
  3W94

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Organizational Affiliation: 
• School of Pharmacy, Shanghai Jiao Tong University, Shanghai, 200240, China.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 52.07 kDa 
• Atom Count: 3,931 
• Modeled Residue Count: 470 
• Deposited Residue Count: 470 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Enteropeptidase-1	A, B	235	Oryzias latipes	Mutation(s): 0  Gene Names: EP-1
UniProt
Find proteins for A4UWM5 (Oryzias latipes) Explore A4UWM5  Go to UniProtKB:  A4UWM5

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.241 (Depositor), 0.243 (DCC) 
• R-Value Work:  0.193 (Depositor), 0.194 (DCC) 
• R-Value Observed: 0.195 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.47	α = 90
b = 71.641	β = 90
c = 134.433	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASES	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-02-19 
Deposition Author(s): Hu, S., Xu, J., Wang, H., Guo, Y.J.

Revision History  

• Version 1.0: 2014-02-19
  Type: Initial release
  
• Version 1.1: 2022-08-24
  Changes: Database references
• Version 1.2: 2024-10-30
  Changes: Data collection, Structure summary