1IAU

HUMAN GRANZYME B IN COMPLEX WITH AC-IEPD-CHO

Structural Biology Knowledgebase: 1IAU SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.296
  • R-Value Work: 0.239

Literature

Macromolecules
Sequence Display for 1IAU

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 27713.46

Macromolecule Entities
Molecule Chains Length Organism Details
GRANZYME B A 227 Homo sapiens EC#: 3.4.21.79 IUBMB
Mutation: Q48R
Gene Name(s): GZMB Gene View CGL1 CSPB CTLA1 GRB
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
acetyl-isoleucyl-glutamyl-prolyl-aspartyl-aldehyde peptide INHIBITOR B 5 synthetic

Small Molecules
Ligands 5 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)
FUC
Query on FUC

A ALPHA-L-FUCOSE
C6 H12 O5
SHZGCJCMOBCMKK-SXUWKVJYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Biologically Interesting Molecules 1 Unique
ID Chains Name Type/Class 2D Diagram 3D Interactions
PRD_000300
Query on PRD_000300
B N-acetyl-L-isoleucyl-L-alpha-glutamyl-N-[(1S)-2-carboxy-1-formylethyl]-L-prolinamide Peptide-like /
Inhibitor
Ligand Explorer Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol) Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.296
  • R-Value Work: 0.239
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 48.87 α = 90.00
b = 75.08 β = 90.00
c = 80.26 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-03-23
  • Released Date: 2001-05-02
  • Deposition author(s): Rotonda, J., Garcia-Calvo, M., Bull, H.G., Geissler, W.M., McKeever, B.M., Willoughby, C.A., Thornberry, N.A., Becker, J.W.

Revision History

  • 2012-12-12
    Type: Other | Details: Add PRD info
  • 2012-04-04
    Type: Polymer description | Details: ASA changed to ASJ in chain B
  • 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