2VV4

hPPARgamma Ligand binding domain in complex with 6-oxoOTE

Structural Biology Knowledgebase: 2VV4 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.252
  • R-Value Work: 0.226

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2VV4

Classification: RECEPTOR

Total Structure Weight: 63534.46

Macromolecule Entities
Molecule Chains Length Organism Details
PEROXISOME PROLIFERATOR-ACTIVATED RECEPTOR GAMMA A 276 Homo sapiens Fragment: LIGAND BINDING DOMAIN, RESIDUES 202-475
Details: 6-OXOOTE
Gene Name(s): PPARG Gene View NR1C3
PEROXISOME PROLIFERATOR-ACTIVATED RECEPTOR GAMMA B 276 Homo sapiens Fragment: LIGAND BINDING DOMAIN, RESIDUES 202-475
Mutation: N253Q
Details: 6-OXOOTE
Gene Name(s): PPARG Gene View NR1C3

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
6OB
Query on 6OB

B (8E,10S,12Z)-10-hydroxy-6-oxooctadeca-8,12- dienoic acid
C18 H30 O4
OJFOOCZBVPQYRS-PSDPTOBYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
6OC
Query on 6OC

A (8R,9Z,12Z)-8-hydroxy-6-oxooctadeca-9,12- dienoic acid
C18 H30 O4
MLHUENSFQCPBQH-ZBKJIUGYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.252
  • R-Value Work: 0.226
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 93.78 α = 90.00
b = 61.58 β = 103.64
c = 118.77 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-06-02
  • Released Date: 2008-08-19
  • Deposition author(s): Itoh, T., Fairall, L., Schwabe, J.W.R.

Revision History

  • 2012-06-06
    Type: Non-polymer description | Details: FORMUL
  • 2012-06-06
    Type: Other | Details: REMARK 525,REMARK 280
  • 2012-06-06
    Type: Version format compliance | Details: REMARK 4
  • 2012-06-06
    Type: Refinement description | Details: REMARK 3
  • 2012-06-06
    Type: Source and taxonomy | Details: SOURCE
  • 2012-06-06
    Type: Biological assembly | Details: REMARK 300,REMARK 350
  • 2012-06-06
    Type: Geometry validation | Details: REMARK 500
  • 2012-06-06
    Type: Citation | Details: JRNL