3C59

Crystal structure of the ligand-bound glucagon-like peptide-1 receptor extracellular domain

Structural Biology Knowledgebase: 3C59 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.241
  • R-Value Work: 0.196

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3C59

Classification: Signaling protein / Signaling protein

Total Structure Weight: 18310.26

Macromolecule Entities
Molecule Chains Length Organism Details
Glucagon-like peptide 1 receptor A 122 Homo sapiens Fragment: N-terminal extracellular domain, UNP residues 24-145
Gene Name(s): GLP1R Gene View
Exendin-4 B 31 Heloderma suspectum Fragment: UNP residues 56-86
Mutation: L21M
Gene Name(s):

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
10M
Query on 10M

A decyl 4-O-alpha-D-glucopyranosyl-1-thio-beta- D-glucopyranoside
4,,3R (Synonym)
C22 H42 O10 S
YZNNXXWNKQOETJ-HYLFJBCQSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
B L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.241
  • R-Value Work: 0.196
  • Space Group: P 31 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 75.85 α = 90.00
b = 75.85 β = 90.00
c = 87.55 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-01-31
  • Released Date: 2008-02-19
  • Deposition author(s): Runge, S.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor