3WKY

Crystal structure of hemolymph type prophenoloxidase (proPOb) from crustacean


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.801 Å
  • R-Value Free: 0.196 
  • R-Value Work: 0.175 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of a crustacean prophenoloxidase provides a clue to understanding the functionality of the type 3 copper proteins.

Masuda, T.Momoji, K.Hirata, T.Mikami, B.

(2014) Febs J. --: --


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Prophenoloxidase b
A, B
687Penaeus japonicusMutation(s): 0 
Gene Names: proPOb
Find proteins for G5EKM4 (Penaeus japonicus)
Go to UniProtKB:  G5EKM4
Small Molecules
Ligands 6 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

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A
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

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A, B
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
CUO
Query on CUO

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A, B
CU2-O2 CLUSTER
CU-O2-CU LINKAGE
Cu2 O2
PCGDDKBKPXANNY-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

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A, B
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

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B
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
NAG
Query on NAG

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A, B
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.801 Å
  • R-Value Free: 0.196 
  • R-Value Work: 0.175 
  • Space Group: H 3
Unit Cell:
Length (Å)Angle (°)
a = 156.706α = 90.00
b = 156.706β = 90.00
c = 283.830γ = 120.00
Software Package:
Software NamePurpose
SOLVEphasing
PHENIXrefinement
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2013-11-02 
  • Released Date: 2014-04-23 
  • Deposition Author(s): Masuda, T., Mikami, B.

Revision History 

  • Version 1.0: 2014-04-23
    Type: Initial release