1EB6

Deuterolysin from Aspergillus oryzae


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1 Å
  • R-Value Free: 0.126 
  • R-Value Work: 0.104 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

A Quick Solution: Ab Initio Structure Determination of a 19 kDa Metalloproteinase Using Acorn

Mcauley, K.E.Jia-Xing, Y.Dodson, E.J.Lehmbeck, J.Ostergaard, P.R.Wilson, K.S.

(2001) Acta Crystallogr.,Sect.D 57: 1571


  • PubMed Abstract: 
  • A data set from the metalloproteinase deuterolysin was collected at atomic resolution (1.0 A) with synchrotron radiation. The high resolution allowed the structure to be solved with the new direct-methods program ACORN using the coordinates of the Zn ...

    A data set from the metalloproteinase deuterolysin was collected at atomic resolution (1.0 A) with synchrotron radiation. The high resolution allowed the structure to be solved with the new direct-methods program ACORN using the coordinates of the Zn atom as a starting point. The phases obtained from ACORN were of sufficient quality to allow automated building to be carried out in ARP/wARP. Minimal manual rebuilding of the model was required and the structure determination was completed using the maximum-likelihood refinement program REFMAC. The whole process, starting from the processed and merged data and ending with a refined model, required less than 6 h of computational time.


    Organizational Affiliation

    York Structural Biology Laboratory, Chemistry Department, University of York, Heslington, York YO10 5DD, England.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
NEUTRAL PROTEASE II
A
177Aspergillus oryzae (strain ATCC 42149 / RIB 40)EC: 3.4.24.39
Find proteins for P46076 (Aspergillus oryzae (strain ATCC 42149 / RIB 40))
Go to UniProtKB:  P46076
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

Download SDF File 
Download CCD File 
A
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1 Å
  • R-Value Free: 0.126 
  • R-Value Work: 0.104 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 38.430α = 90.00
b = 34.764β = 106.03
c = 60.276γ = 90.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
DENZOdata reduction
ACORNphasing
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2001-11-23
    Type: Initial release
  • Version 1.1: 2011-05-08
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance