1BA8

THROMBIN INHIBITOR WITH A RIGID TRIPEPTIDYL ALDEHYDES

Structural Biology Knowledgebase: 1BA8 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Work: 0.152

Literature

Macromolecules
Sequence Display for 1BA8

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 36127.35

Macromolecule Entities
Molecule Chains Length Organism Details
THROMBIN A 36 Homo sapiens EC#: 3.4.21.5 IUBMB
Gene Name(s): F2 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
THROMBIN B 259 Homo sapiens EC#: 3.4.21.5 IUBMB
Gene Name(s): F2 Gene View
HIRUGEN C 13 Hirudo medicinalis Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

B amino({(4S)-4-[({(3S)-3-[(benzylsulfonyl)amino]- 2-oxopiperidin-1-yl}acetyl)amino]-5-oxopentyl}amino)methaniminium
CVS1578 (Synonym)
C20 H31 N6 O5 S
WZYFZDIYCCGIQM-IRXDYDNUSA-O
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

B N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
ACE
Query on ACE
C NON-POLYMER C2 H4 O --
TYS
Query on TYS
C L-PEPTIDE LINKING C9 H11 N O6 S TYR

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Observed:
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 71.26 α = 90.00
b = 72.29 β = 100.90
c = 72.99 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1998-04-23
  • Released Date: 1999-04-27
  • Deposition author(s): Krishnan, R., Zhang, E., Hakansson, K., Arni, R.K., Tulinsky, A., Lim-Wilby, M.S.L., Levy, O.E., Semple, J.E., Brunck, T.K.

Revision History

  • 2012-12-12
    Type: Other | Details: Add PRD info
  • 2011-07-27
    Type: Sequence database correspondence | Details: --
  • 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
  • 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