4HYJ

Crystal structure of Exiguobacterium sibiricum rhodopsin

Structural Biology Knowledgebase: 4HYJ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.215
  • R-Value Work: 0.175

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4HYJ

Classification: PROTON TRANSPORT

Total Structure Weight: 66309.44

Macromolecule Entities
Molecule Chains Length Organism Details
Rhodopsin A, B 258 Exiguobacterium sibiricum Gene Name(s): Exig_1419

Membrane Protein

Source: mpstruc | Group: ALPHA-HELICAL

Subgroup Name: Bacterial and Algal Rhodopsins

Protein Name: Proteorhodopsin


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

A, B RETINAL
C20 H28 O
NCYCYZXNIZJOKI-OVSJKPMPSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
LFA
Query on LFA

A, B EICOSANE
LIPID FRAGMENT (Synonym)
C20 H42
CBFCDTFDPHXCNY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.215
  • R-Value Work: 0.175
  • Space Group: P 3 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 96.10 α = 90.00
b = 96.10 β = 90.00
c = 124.38 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-11-13
  • Released Date: 2013-07-17
  • Deposition author(s): Gushchin, I., Chervakov, P., Kuzmichev, P., Popov, A., Round, E., Borshchevskiy, V., Dolgikh, D., Kirpichnikov, M., Petrovskaya, L., Chupin, V., Arseniev, A., Gordeliy, V.

Revision History

  • 2013-09-11
    Type: Citation | Details: Citation update