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Structure paper

TitleThree-dimensional view of ultrafast dynamics in photoexcited bacteriorhodopsin.
Journal, issue, pagesNat Commun, Vol. 10, Page 3177-3177, Year 2019
Publish dateApr 11, 2018 (structure data deposition date)
AuthorsNass Kovacs, G. / Colletier, J.P. / Grunbein, M.L. / Yang, Y. / Stensitzki, T. / Batyuk, A. / Carbajo, S. / Doak, R.B. / Ehrenberg, D. / Foucar, L. ...Nass Kovacs, G. / Colletier, J.P. / Grunbein, M.L. / Yang, Y. / Stensitzki, T. / Batyuk, A. / Carbajo, S. / Doak, R.B. / Ehrenberg, D. / Foucar, L. / Gasper, R. / Gorel, A. / Hilpert, M. / Kloos, M. / Koglin, J.E. / Reinstein, J. / Roome, C.M. / Schlesinger, R. / Seaberg, M. / Shoeman, R.L. / Stricker, M. / Boutet, S. / Haacke, S. / Heberle, J. / Heyne, K. / Domratcheva, T. / Barends, T.R.M. / Schlichting, I.
External linksNat Commun / PubMed:31320619
MethodsX-ray diffraction
Resolution1.7 - 2.1 Å
Structure data

PDB-6ga1:
Bacteriorhodopsin, dark state, cell 1
Method: X-RAY DIFFRACTION / Resolution: 1.7 Å

PDB-6ga2:
Bacteriorhodopsin, dark state, cell 2
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6ga3:
Bacteriorhodopsin, 33 ms state, ensemble refinement
Method: X-RAY DIFFRACTION / Resolution: 2.1 Å

PDB-6ga4:
Bacteriorhodopsin, 1 ps state, real-space refined against 15% extrapolated map
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6ga5:
Bacteriorhodopsin, 3 ps state, REAL-SPACE REFINEMED AGAINST 10% EXTRAPOLATED MAP
Method: X-RAY DIFFRACTION / Resolution: 1.9 Å

PDB-6ga6:
Bacteriorhodopsin, 10 ps state, real-space refined against 10% extrapolated map
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6ga7:
BACTERIORHODOPSIN, 240FS STATE, REAL-SPACE REFINED AGAINST 10% EXTRAPOLATED MAP
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6ga8:
BACTERIORHODOPSIN, 330 FS STATE, REAL-SPACE REFINED AGAINST 15% EXTRAPOLATED STRUCTURE FACTORS
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6ga9:
BACTERIORHODOPSIN, 390 FS STATE, REAL-SPACE REFINED AGAINST 15% EXTRAPOLATED STRUCTURE FACTORS
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6gaa:
BACTERIORHODOPSIN, 430 FS STATE, REAL-SPACE REFINED AGAINST 15% EXTRAPOLATED STRUCTURE FACTORS
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6gab:
BACTERIORHODOPSIN, 460 FS STATE, REAL-SPACE REFINED AGAINST 15% EXTRAPOLATED STRUCTURE FACTORS
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6gac:
BACTERIORHODOPSIN, 490 FS STATE, REAL-SPACE REFINED AGAINST 15% EXTRAPOLATED STRUCTURE FACTORS
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6gad:
BACTERIORHODOPSIN, 530 FS STATE, REAL-SPACE REFINED AGAINST 15% EXTRAPOLATED STRUCTURE FACTORS
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6gae:
BACTERIORHODOPSIN, 560 FS STATE, REAL-SPACE REFINED AGAINST 15% EXTRAPOLATED STRUCTURE FACTORS
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6gaf:
BACTERIORHODOPSIN, 590 FS STATE, REAL-SPACE REFINED AGAINST 15% EXTRAPOLATED STRUCTURE FACTORS
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6gag:
BACTERIORHODOPSIN, 630 FS STATE, REAL-SPACE REFINED AGAINST 15% EXTRAPOLATED STRUCTURE FACTORS
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6gah:
BACTERIORHODOPSIN, 680 FS STATE, REAL-SPACE REFINED AGAINST 15% EXTRAPOLATED STRUCTURE FACTORS
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6gai:
BACTERIORHODOPSIN, 740 FS STATE, REAL-SPACE REFINED AGAINST 15% EXTRAPOLATED STRUCTURE FACTORS
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

PDB-6rmk:
Bacteriorhodopsin, dark state, cell 2, refined using the same protocol as sub-ps time delays
Method: X-RAY DIFFRACTION / Resolution: 1.8 Å

Chemicals

ChemComp-RET:
RETINAL

ChemComp-L2P:
2,3-DI-PHYTANYL-GLYCEROL

ChemComp-TRD:
TRIDECANE

ChemComp-D10:
DECANE

ChemComp-HP6:
HEPTANE

ChemComp-OCT:
N-OCTANE

ChemComp-MYS:
PENTADECANE

ChemComp-UND:
UNDECANE

ChemComp-DD9:
nonane

ChemComp-C14:
TETRADECANE

ChemComp-HOH:
WATER

Source
  • halobacterium salinarum (strain atcc 700922 / jcm 11081 / nrc-1) (Halophile)
  • halobacterium salinarum nrc-1 (Halophile)
KeywordsMEMBRANE PROTEIN / proton pump / time-resolved crystallography / free-electron laser

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