1FQ5

X-ray structure of a cyclic statine inhibitor PD-129,541 bound to yeast proteinase A


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Observed: 0.200

Literature

Macromolecules
Sequence Display for 1FQ5

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 37818.70

Macromolecule Entities
Molecule Chains Length Organism Details
SACCHAROPEPSIN A 329 Saccharomyces cerevisiae EC#: 3.4.23.25 IUBMB
Mutation: L315I
Gene Name(s): PEP4 PHO9 PRA1 YPL154C P2585
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
0GM
Query on 0GM

A N-[(5S,9S,10S,13S)-9-hydroxy-5,10-bis(2-methylpropyl)- 4,7,12,16-tetraoxo-3,6,11,17-tetraazabicyclo[17.3.1]tricosa- 1(23),19,21-trien-13-yl]-3-(naphthalen-1- yl)-2-(naphthalen-1-ylmethyl)propanamide
541, (Synonym)
C51 H61 N5 O6
KFCMUWOMPCWWCH-AXYJRABVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NDG
Query on NDG

A 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

A N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MAN
Query on MAN

A ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BMA
Query on BMA

A BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
0GM N/A in BindingDB
Ki: 4 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Observed: 0.200
  • Space Group: P 32 2 1

Unit Cell:

Length (Å) Angle (°)
a = 87.30 α = 90.00
b = 87.30 β = 90.00
c = 110.70 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-09-03
  • Released Date: 2000-09-20
  • Deposition author(s): Cronin, N.B., Badasso, M.O., Tickle, I.J., Dreyer, T., Hoover, D.J., Rosati, R.L., Humblet, C.C., Lunney, E.A., Cooper, J.B.

Revision History

  • 2008-04-01
    Type: Version format compliance
  • 2011-07-13
    Type: Atomic model, Database references, Derived calculations, Non-polymer description, Structure summary, Version format compliance
  • 2016-12-14
    Type: Structure summary