5MB0

Cocktail experiment A: fragments 63, 267, and 291 in complex with Endothiapepsin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.149 Å
  • R-Value Free: 0.151 
  • R-Value Work: 0.131 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Comparison of cocktail versus single soaking experimets

Radeva, N.Heine, A.Klebe, G.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Endothiapepsin
A
330Cryphonectria parasiticaMutation(s): 0 
Gene Names: EAPA (EPN-1)
EC: 3.4.23.22
Find proteins for P11838 (Cryphonectria parasitica)
Go to UniProtKB:  P11838
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
47V
Query on 47V

Download SDF File 
Download CCD File 
A
2,5-dimethyl-N-(pyridin-4-yl)furan-3-carboxamide
C12 H12 N2 O2
LSWLYNGTJMNMRF-UHFFFAOYSA-N
 Ligand Interaction
GOL
Query on GOL

Download SDF File 
Download CCD File 
A
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
F63
Query on F63

Download SDF File 
Download CCD File 
A
N-methyl-1-[5-(pyridin-3-yloxy)furan-2-yl]methanamine
C11 H12 N2 O2
MUKCVLFJCGZPKF-UHFFFAOYSA-N
 Ligand Interaction
DMS
Query on DMS

Download SDF File 
Download CCD File 
A
DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
 Ligand Interaction
F91
Query on F91

Download SDF File 
Download CCD File 
A
N-(pyridin-4-ylmethyl)-2,3-dihydro-1,4-benzodioxin-6-amine
C14 H14 N2 O2
ZEHRBOVXNPCYAK-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.149 Å
  • R-Value Free: 0.151 
  • R-Value Work: 0.131 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 45.377α = 90.00
b = 73.079β = 109.59
c = 52.529γ = 90.00
Software Package:
Software NamePurpose
Cootmodel building
XSCALEdata scaling
PHASERphasing
XDSdata reduction
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
BMBFGermany05K13RM1

Revision History 

  • Version 1.0: 2017-12-20
    Type: Initial release