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Open data
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Basic information
Entry | Database: PDB / ID: 1c3w | ||||||
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Title | BACTERIORHODOPSIN/LIPID COMPLEX AT 1.55 A RESOLUTION | ||||||
![]() | BACTERIORHODOPSIN (GROUND STATE WILD TYPE "BR") | ||||||
![]() | ION TRANSPORT / ION PUMP / MEMBRANE PROTEIN / RETINAL PROTEIN / LIPIDS / PHOTORECEPTOR / HALOARCHAEA / 7-TRANSMEMBRANE / SERPENTINE / MEROHEDRAL TWINNING | ||||||
Function / homology | ![]() photoreceptor activity / phototransduction / proton transmembrane transport / monoatomic ion channel activity / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Luecke, H. | ||||||
![]() | ![]() Title: Structure of bacteriorhodopsin at 1.55 A resolution. Authors: Luecke, H. / Schobert, B. / Richter, H.T. / Cartailler, J.P. / Lanyi, J.K. #1: ![]() Title: Proton Transfer Pathways in Bacteriorhodopsin at 2.3 Angstrom Resolution Authors: Luecke, H. / Richter, H.-T. / Lanyi, J.K. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 69.7 KB | Display | ![]() |
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PDB format | ![]() | 48.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 830.6 KB | Display | ![]() |
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Full document | ![]() | 857.1 KB | Display | |
Data in XML | ![]() | 12.2 KB | Display | |
Data in CIF | ![]() | 15.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1brxS S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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Unit cell |
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Details | homotrimer constructed from symmetry-related monomers |
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Components
#1: Protein | Mass: 24343.867 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: SCHIFF BASE LINKAGE BETWEEN LYS 216 (NZ) AND RET 301 (C15) DIETHER LIPID BILAYER Source: (gene. exp.) ![]() ![]() | ||||||
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#2: Chemical | ChemComp-LI1 / #3: Chemical | ChemComp-SQU / | #4: Chemical | ChemComp-RET / | #5: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.65 Å3/Da / Density % sol: 53.2 % | |||||||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: cubic lipid phase / pH: 5.6 Details: MO:WATER:PHOSPHATE, pH 5.6, CUBIC LIPID PHASE, temperature 20K | |||||||||||||||||||||||||
Crystal | *PLUS | |||||||||||||||||||||||||
Crystal grow | *PLUS Method: cubic lipid phaseDetails: Landau, E.M., (1996) Proc.Natl.Acad.Sci.USA., 93, 14532. | |||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC / Detector: CCD / Date: Jul 1, 1998 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.55→25 Å / Num. all: 372549 / Num. obs: 34002 / % possible obs: 99.1 % / Observed criterion σ(I): 0 / Rmerge(I) obs: 0.069 / Net I/σ(I): 19.9 |
Reflection shell | Resolution: 1.55→1.58 Å / Rmerge(I) obs: 0.381 / Mean I/σ(I) obs: 2 / % possible all: 97.2 |
Reflection | *PLUS Num. measured all: 372549 |
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Processing
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Refinement | Starting model: PDB ENTRY 1BRX Resolution: 1.55→12 Å / Num. parameters: 8300 / Num. restraintsaints: 8209 / Cross valid method: THROUGHOUT / σ(F): 0 / Details: MEROHEDRAL TWINNING RATIO OF 76:24
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Solvent computation | Solvent model: SHELXL-97 SWAT, BABINET'S PRINCIPLE | |||||||||||||||||||||||||||||||||
Refine analyze | Num. disordered residues: 0 / Occupancy sum non hydrogen: 2073 | |||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.55→12 Å
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Refine LS restraints |
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Software | *PLUS Name: SHELXL-97 / Classification: refinement | |||||||||||||||||||||||||||||||||
Refinement | *PLUS σ(F): 0 / % reflection Rfree: 5 % / Rfactor Rwork: 0.158 | |||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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