4LDO

Structure of beta2 adrenoceptor bound to adrenaline and an engineered nanobody


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.254
  • R-Value Work: 0.222

Literature

Macromolecules
Sequence Display for 4LDO

Classification: MEMBRANE PROTEIN / HYDROLASE

Total Structure Weight: 66950.03

Macromolecule Entities
Molecule Chains Length Organism Details
Lysozyme, Beta-2 adrenergic receptor A 469 Homo sapiens Enterobacteria phage t4 sensu lato EC#: 3.2.1.17 IUBMB
Mutation: C919T, C962A, M1096T, M1098T, N1187E, C1265A
Gene Name(s): E ADRB2 Gene View ADRB2R B2AR
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Camelid Antibody Fragment B 120 Lama glama

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

A (2S)-2,3-dihydroxypropyl (7Z)-tetradec-7- enoate
C17 H32 O4
LVBAGTJIDOCNIJ-INIZCTEOSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ALE
Query on ALE

A L-EPINEPHRINE
ADRENALINE (Synonym)
C9 H13 N O3
UCTWMZQNUQWSLP-VIFPVBQESA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
ALE EC50: 15 - 1380 nM (85 - 90) BindingDB
Kd: 630 nM (90) BindingDB
Ki: 360 - 660 nM (85 - 90) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.254
  • R-Value Work: 0.222
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 49.67 α = 90.00
b = 66.48 β = 90.00
c = 303.10 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-06-24
  • Released Date: 2013-09-25
  • Deposition author(s): Ring, A.M., Manglik, A., Kruse, A.C., Enos, M.D., Weis, W.I., Garcia, K.C., Kobilka, B.K.

Revision History

  • Version 1_0: 2013-09-25

    Type: Initial release

  • Version 1_1: 2013-10-30

    Type: Database references

  • Version 1_2: 2017-08-09

    Type: Refinement description, Source and taxonomy