1DP5

THE STRUCTURE OF PROTEINASE A COMPLEXED WITH A IA3 MUTANT INHIBITOR

Structural Biology Knowledgebase: 1DP5 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.235
  • R-Value Work: 0.188

Literature

Macromolecules
Sequence Display for 1DP5

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 45060.89

Macromolecule Entities
Molecule Chains Length Organism Details
PROTEINASE A A 329 Saccharomyces cerevisiae EC#: 3.4.23.25 IUBMB
Gene Name(s): PEP4 PHO9 PRA1 YPL154C P2585
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
PROTEINASE INHIBITOR IA3 B 68 Saccharomyces cerevisiae Mutation: K31M, K32M
Gene Name(s): PAI3 YMR174C YM8010.04C
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-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)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.235
  • R-Value Work: 0.188
  • Space Group: P 62 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 192.66 α = 90.00
b = 192.66 β = 90.00
c = 52.08 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-12-23
  • Released Date: 2000-05-03
  • Deposition author(s): Li, M., Phylip, H.L., Lees, W.E., Winther, J.R., Dunn, B.M., Wlodawer, A., Kay, J., Guschina, A.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4