1R1L

Structure of dimeric antithrombin complexed with a P14-P9 reactive loop peptide and an exogenous tripeptide (formyl-norleucine-LF)

Structural Biology Knowledgebase: 1R1L SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.204

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1R1L

Classification: HYDROLASE / HYDROLASE INHIBITOR

Total Structure Weight: 100825.66

Macromolecule Entities
Molecule Chains Length Organism Details
Antithrombin-III I, L 432 Homo sapiens Gene Name(s): SERPINC1 Gene View AT3 PRO0309
Antithrombin P14-P9 peptide C 7 synthetic
EXOGENOUS TRIPEPTIDE formyl-(NLE)LF D 3 synthetic

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

D FORMYL GROUP
C H2 O
WSFSSNUMVMOOMR-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
GOL
Query on GOL

C GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
NAG
Query on NAG

I, L N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer
 
JSmol
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
ACE
Query on ACE
C NON-POLYMER C2 H4 O --
NLE
Query on NLE
D L-PEPTIDE LINKING C6 H13 N O2 LEU

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.249
  • R-Value Work: 0.204
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 69.17 α = 90.00
b = 100.42 β = 104.29
c = 87.20 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-09-24
  • Released Date: 2004-10-05
  • Deposition author(s): Zhou, A., Huntington, J.A., Lomas, D.A., Stein, P.E., Carrell, R.W.

Revision History

  • 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
  • 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