Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 30.49 kDa 
• Atom Count: 2042 
• Modelled Residue Count: 237 
• Deposited Residue Count: 267 
• Unique protein chains: 1

3LBD

LIGAND-BINDING DOMAIN OF THE HUMAN RETINOIC ACID RECEPTOR GAMMA BOUND TO 9-CIS RETINOIC ACID

• DOI: 10.2210/pdb3LBD/pdb

• Classification: NUCLEAR RECEPTOR
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 1998-02-04 Released: 1999-03-02 
• Deposition Author(s): Klaholz, B.P., Renaud, J.-P., Mitschler, A., Moras, D., Structural Proteomics in Europe (SPINE)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.267 
• R-Value Work: 0.172 
• R-Value Observed: 0.172 

Literature

Conformational adaptation of agonists to the human nuclear receptor RAR gamma.

Klaholz, B.P., Renaud, J.P., Mitschler, A., Zusi, C., Chambon, P., Gronemeyer, H., Moras, D.

(1998) Nat Struct Biol 5: 199-202

• PubMed: 9501913 
• DOI: 10.1038/nsb0398-199
• Primary Citation of Related Structures:  
  4LBD, 3LBD

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RETINOIC ACID RECEPTOR GAMMA	A	267	Homo sapiens	Mutation(s): 0  Gene Names: HRARGAMMA, RARG, NR1B3
Find proteins for P13631 (Homo sapiens) Explore P13631  Go to UniProtKB:  P13631
NIH Common Fund Data Resources
PHAROS:  P13631 GTEx:  ENSG00000172819

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
9CR	A	(9cis)-retinoic acid C20 H28 O2 SHGAZHPCJJPHSC-ZVCIMWCZSA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
9CR	EC50:  6   nM  BindingDB
9CR	EC50:  52   nM  BindingDB
9CR	EC50:  50   nM  BindingDB
9CR	EC50:  3   nM  BindingDB
9CR	Ki:  0.699999988079071   nM  BindingDB
9CR	Kd:  22   nM  BindingDB
9CR	Ki:  20   nM  BindingDB
9CR	EC50:  50   nM  BindingDB
9CR	Kd:  17   nM  BindingDB
9CR	IC50:  17   nM  BindingDB
9CR	EC50:  45   nM  BindingDB
9CR	Kd:  0.800000011920929   nM  BindingDB
9CR	EC50:  4   nM  BindingDB
9CR	EC50:  74   nM  BindingDB
9CR	Kd:  7   nM  BindingDB
9CR	Kd:  100   nM  BindingDB
9CR	Kd:  97   nM  BindingDB
9CR	Kd:  148   nM  BindingDB
9CR	Kd:  150   nM  BindingDB
9CR	Ki:  1   nM  BindingDB
9CR	EC50:  12   nM  BindingDB
9CR	EC50:  29   nM  BindingDB
9CR	Ki:  11   nM  BindingDB
9CR	EC50:  22   nM  BindingDB
9CR	EC50:  3.299999952316284   nM  BindingDB
9CR	Ki:  0.5   nM  BindingDB
9CR	IC50:  7   nM  BindingDB

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.267 
• R-Value Work: 0.172 
• R-Value Observed: 0.172 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.666	α = 90
b = 60.666	β = 90
c = 155.134	γ = 90

Software Package:

Software Name	Purpose
X-PLOR	model building
X-PLOR	refinement
MARXDS	data reduction
MARSCALE	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1998-02-04 
• Released Date: 1999-03-02 
Deposition Author(s): Klaholz, B.P., Renaud, J.-P., Mitschler, A., Moras, D., Structural Proteomics in Europe (SPINE)

Revision History  

• Version 1.0: 1999-03-02
  Type: Initial release
  
• Version 1.1: 2008-03-25
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2016-11-16
  Changes: Non-polymer description