1EB1

Complex structure of human thrombin with N-methyl-arginine inhibitor

Structural Biology Knowledgebase: 1EB1 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.220
  • R-Value Work: 0.191

Literature

Macromolecules
Sequence Display for 1EB1

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 34430.76

Macromolecule Entities
Molecule Chains Length Organism Details
PEPTIDE INHIBITOR A 10 synthetic
THROMBIN HEAVY CHAIN H 257 Homo sapiens EC#: 3.4.21.5 IUBMB
Gene Name(s): F2 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
THROMBIN LIGHT CHAIN L 27 Homo sapiens EC#: 3.4.21.5 IUBMB
Fragment: CATALYTIC DOMAIN RESIDUES 364-620
Gene Name(s): F2 Gene View
3-CYCLOHEXYL-D-ALANYL-L-PROLYL-N~2~-METHYL-L-ARGININE B 3 synthetic

Small Molecules
Biologically Interesting Molecules 1 Unique
ID Chains Name Type/Class 2D Diagram 3D Interactions
PRD_000616
Query on PRD_000616
B 3-cyclohexyl-D-alanyl-L-prolyl-N~2~-methyl-L-arginine Peptide-like /
Thrombin Inhibitor
Ligand Explorer

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.220
  • R-Value Work: 0.191
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 69.84 α = 90.00
b = 71.51 β = 99.34
c = 71.71 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-07-18
  • Released Date: 2002-01-28
  • Deposition author(s): Friedrich, R., Steinmetzer, T., Bode, W.

Revision History

  • 2012-12-12
    Type: Other | Details: Add PRD info
  • 2012-11-21
    Type: Data collection | Details: REMARK 200
  • 2012-11-21
    Type: Other | Details: REMARK 525
  • 2012-11-21
    Type: Sequence database correspondence | Details: SEQADV, DBREF
  • 2011-07-13
    Type: Polymer description | Details: Changed inhibitor presentation or chemistry
  • 2011-07-13
    Type: Version format compliance | Details: Compliance with PDBx 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