1FQ6

X-RAY STRUCTURE OF GLYCOL INHIBITOR PD-133,450 BOUND TO SACCHAROPEPSIN

Structural Biology Knowledgebase: 1FQ6 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Observed: 0.180

Literature

Macromolecules
Sequence Display for 1FQ6

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 37563.86

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
0QF
Query on 0QF

A N-[(1R)-2-{[(1R,2R,3S)-1-(cyclohexylmethyl)- 2,3-dihydroxy-5-methylhexyl]amino}-1-(ethylsulfanyl)- 2-oxoethyl]-Nalpha-(morpholin-4-ylsulfonyl)- D-phenylalaninamide
450, (Synonym)
C31 H52 N4 O7 S2
KJPRBAWNGKPDKH-WKEJTYEPSA-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)
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)
GUP
Query on GUP

A ALPHA-L-GULOPYRANOSIDE
C6 H12 O6
WQZGKKKJIJFFOK-BYIBVSMXSA-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)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Observed: 0.180
  • Space Group: P 32 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 86.91 α = 90.00
b = 86.91 β = 90.00
c = 110.23 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

  • 2013-02-27
    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 PDB Exchange Dictionary V4