4MD2

Ground state of bacteriorhodopsin from Halobacterium salinarum


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.73 Å
  • R-Value Free: 0.188 
  • R-Value Work: 0.139 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Low-dose X-ray radiation induces structural alterations in proteins

Borshchevskiy, V.Round, E.Erofeev, I.Weik, M.Ishchenko, A.Gushchin, I.Mishin, A.Willbold, D.Bueldt, G.Gordeliy, V.

(2014) Acta Crystallogr.,Sect.D 70: 2675-2685

  • DOI: 10.1371/journal.pone.0027811
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Radiation therapy treatment of breast cancer, Hodgkin's disease or childhood cancers expose the heart to high local radiation doses, causing an increased risk of cardiovascular disease in the survivors decades after the treatment. The mechanisms that ...

    Radiation therapy treatment of breast cancer, Hodgkin's disease or childhood cancers expose the heart to high local radiation doses, causing an increased risk of cardiovascular disease in the survivors decades after the treatment. The mechanisms that underlie the radiation damage remain poorly understood so far. Previous data show that impairment of mitochondrial oxidative metabolism is directly linked to the development of cardiovascular disease.


    Organizational Affiliation

    Institute of Radiation Biology, Helmholtz Zentrum M√ľnchen, German Research Center for Environmental Health, Neuherberg, Germany. zarko.barjaktarovic@helmholtz-muenchen.de




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Bacteriorhodopsin
A
248Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1)Mutation(s): 0 
Gene Names: bop
Find proteins for P02945 (Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1))
Go to UniProtKB:  P02945
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
RET
Query on RET

Download SDF File 
Download CCD File 
A
RETINAL
C20 H28 O
NCYCYZXNIZJOKI-OVSJKPMPSA-N
 Ligand Interaction
L2P
Query on L2P

Download SDF File 
Download CCD File 
A
2,3-DI-PHYTANYL-GLYCEROL
1,2-DI-1-(3,7,11,15-TETRAMETHYL-HEXADECANE)-SN-GLYCEROL
C43 H88 O3
ISDBCJSGCHUHFI-UMZPFTBHSA-N
 Ligand Interaction
SQL
Query on SQL

Download SDF File 
Download CCD File 
A
(6E,10E,14E,18E)-2,6,10,15,19,23-hexamethyltetracosa-2,6,10,14,18,22-hexaene
squalene
C30 H50
YYGNTYWPHWGJRM-AAJYLUCBSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.73 Å
  • R-Value Free: 0.188 
  • R-Value Work: 0.139 
  • Space Group: P 63
Unit Cell:
Length (Å)Angle (°)
a = 60.910α = 90.00
b = 60.910β = 90.00
c = 110.090γ = 120.00
Software Package:
Software NamePurpose
MOLREPphasing
MOSFLMdata reduction
MxCuBEdata collection
SCALAdata scaling
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-10-08
    Type: Initial release
  • Version 1.1: 2015-06-10
    Type: Non-polymer description, Structure summary