1LQV

Crystal structure of the Endothelial protein C receptor with phospholipid in the groove in complex with Gla domain of protein C.

Structural Biology Knowledgebase: 1LQV SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.222
  • R-Value Work: 0.189

Literature

Macromolecules
Sequence Display for 1LQV

Classification: BLOOD CLOTTING

Total Structure Weight: 56168.86

Macromolecule Entities
Molecule Chains Length Organism Details
Endothelial protein C receptor A, B 193 Homo sapiens Fragment: Extracellular domain
Gene Name(s): PROCR Gene View EPCR
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Vitamin-K dependent protein C C, D 33 Homo sapiens EC#: 3.4.21.69 IUBMB
Fragment: Protein C Gla domain
Mutation: E6X, E7X, E14X, E16X, E19X, E20X, E25X, E26X, E29X
Gene Name(s): PROC Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PTY
Query on PTY

A, B PHOSPHATIDYLETHANOLAMINE
C40 H80 N O8 P
NJGIRBISCGPRPF-KXQOOQHDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

A, B N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NDG
Query on NDG

A 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

C, D CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
CGU
Query on CGU
C, D L-PEPTIDE LINKING C6 H9 N O6 GLU

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.222
  • R-Value Work: 0.189
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 59.22 α = 90.00
b = 62.36 β = 101.81
c = 71.03 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-05-13
  • Released Date: 2002-06-19
  • Deposition author(s): Oganesyan, V., Oganesyan, N., Terzyan, S., Dongfeng, Q., Dauter, Z., Esmon, N.L., Esmon, C.T.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update