2IFR

Crystal structure of Scytalido-glutamic peptidase with a peptide based transition state analog

Structural Biology Knowledgebase: 2IFR SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.222
  • R-Value Work: 0.204

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2IFR

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 22570.21

Macromolecule Entities
Molecule Chains Length Organism Details
Scytalidopepsin B A 206 Scytalidium lignicola EC#: 3.4.23.32 IUBMB
Gene Name(s):
Octapeptide B 9 synthetic

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
ACY
Query on ACY

A ACETIC ACID
C2 H4 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 3 Unique
ID Chains Type Formula 2D Diagram Parent
ACE
Query on ACE
B NON-POLYMER C2 H4 O --
TA2
Query on TA2
B NON-POLYMER C9 H13 N O2 --
NH2
Query on NH2
B NON-POLYMER H2 N --

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.222
  • R-Value Work: 0.204
  • Space Group: P 63 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 108.78 α = 90.00
b = 108.78 β = 90.00
c = 114.65 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-09-21
  • Released Date: 2006-10-03
  • Deposition author(s): Pillai, B., Cherney, M.M., Hiraga, K., Takada, K., Oda, K., James, M.N.

Revision History

  • 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