1GVW

Endothiapepsin complex with PD-130,328

Structural Biology Knowledgebase: 1GVW SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.0 Å
  • R-Value Observed: 0.128

Literature

Macromolecules
Sequence Display for 1GVW

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 34652.04

Macromolecule Entities
Molecule Chains Length Organism Details
ENDOTHIAPEPSIN A 330 Cryphonectria parasitica EC#: 3.4.23.22 IUBMB
Mutation: D54X, G54X
Gene Name(s): EAPA EPN-1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
0EM
Query on 0EM

N-(tert-butoxycarbonyl)-L-phenylalanyl-N- {(1S)-1-[(R)-hydroxy(2-{[(2S)-2-methylbutyl]amino}- 2-oxoethyl)phosphoryl]-3-methylbutyl}-3-(1H- imidazol-3-ium-4-yl)-L-alaninamide
328, (Synonym)
C32 H52 N6 O7 P
ZQDBBPUTYSTPQE-DYYCDWSUSA-O
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
0EM N/A in BindingDB
Ki: 110 nM  BindingMOAD
N/A in PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
SUI
Query on SUI
L-PEPTIDE LINKING C6 H8 N2 O4 ASP , GLY

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.0 Å
  • R-Value Observed: 0.128
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 43.88 α = 90.00
b = 75.45 β = 97.47
c = 43.23 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-02-27
  • Released Date: 2002-07-04
  • Deposition author(s): Coates, L., Erskine, P.T., Crump, M.P., Wood, S.P., Cooper, J.B.

Revision History

  • 2012-12-12
    Type: Other | Details: Add PRD info
  • 2011-07-13
    Type: Atom nomenclature | Details: Atom nomenclature
  • 2011-07-13
    Type: Binding sites and description | Details: Binding sites and description
  • 2011-07-13
    Type: Non-polymer description | Details: Non-polymer description
  • 2011-07-13
    Type: Function and keywords | Details: Function and keywords
  • 2011-07-13
    Type: Linkage | Details: Linkage
  • 2011-07-13
    Type: Sequence database correspondence | Details: Sequence database correspondence
  • 2011-07-13
    Type: Polymer description | Details: Changed inhibitor presentation or chemistry
  • 2011-07-13
    Type: Version format compliance | Details: Compliance with PDBx exchange dictionary V4