1BMM

HUMAN ALPHA-THROMBIN COMPLEXED WITH [S-(R*,R*)]-4-[(AMINOIMINOMETHYL)AMINO]-N-[[1-[3-HYDROXY-2-[(2-NAPHTHALENYLSULFONYL)AMINO]-1-OXOPROPYL]-2-PYRROLIDINYL] METHYL]BUTANAMIDE (BMS-186282)

Structural Biology Knowledgebase: 1BMM SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Observed: 0.177

Literature

Macromolecules
Sequence Display for 1BMM

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 35850.13

Macromolecule Entities
Molecule Chains Length Organism Details
ALPHA-THROMBIN L 36 Homo sapiens EC#: 3.4.21.5 IUBMB
Gene Name(s): F2 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
ALPHA-THROMBIN H 259 Homo sapiens EC#: 3.4.21.5 IUBMB
Gene Name(s): F2 Gene View
HIRUDIN I I 12 Hirudo medicinalis Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
BM2
Query on BM2

H S-(R*,R*)]-4-[AMINOIMINOMETHYL)AMINO]-N-[[1- [3-HYDROXY -2-[(2-NAPHTHALENYLSULFONYL)AMINO]- 1-OXOPROPYL]-2-PYRROLIDINYL] METHYL]BUTANAMIDE
BMS-186282 (Synonym)
C23 H32 N6 O5 S
NTVCMEJZWNSEFW-ICSRJNTNSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
BM2 IC50: 390 nM (100) BindingDB

N/A in BindingMoad
Ki: 79 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Observed: 0.177
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 108.17 α = 90.00
b = 81.22 β = 90.00
c = 46.00 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1995-11-14
  • Released Date: 1996-12-07
  • Deposition author(s): Malley, M., Sack, J.

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