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Open data
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Basic information
Entry | Database: PDB / ID: 1brx | |||||||||
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Title | BACTERIORHODOPSIN/LIPID COMPLEX | |||||||||
![]() | BACTERIORHODOPSIN | |||||||||
![]() | PROTON PUMP / MEMBRANE PROTEIN / RETINAL PROTEIN / LIPIDS / PHOTORECEPTOR / HALOARCHAEA | |||||||||
Function / homology | ![]() photoreceptor activity / phototransduction / proton transmembrane transport / monoatomic ion channel activity / plasma membrane Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() | |||||||||
![]() | Luecke, H. / Richter, H.T. / Lanyi, J. | |||||||||
![]() | ![]() 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 | ![]() | 48.8 KB | Display | ![]() |
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PDB format | ![]() | 37.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 436.3 KB | Display | ![]() |
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Full document | ![]() | 444.8 KB | Display | |
Data in XML | ![]() | 6.6 KB | Display | |
Data in CIF | ![]() | 9.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related 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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Components
#1: Protein | Mass: 26797.381 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: SCHIFF BASE LINKAGE BETWEEN LYS 126 (NZ) AND RET 301 (C15) Source: (gene. exp.) ![]() ![]() |
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#2: Chemical | ChemComp-RET / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.23 Å3/Da / Density % sol: 43.08 % / Description: FLASH-COOLED IN LN2 STREAM | ||||||||||||||||||||
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Crystal grow | pH: 5.6 / Details: pH 5.6 | ||||||||||||||||||||
Crystal grow | *PLUS Temperature: 20 ℃ / Method: unknown | ||||||||||||||||||||
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: RIGAKU RAXIS IV / Detector: IMAGE PLATE / Date: Oct 1, 1997 / Details: MIRRORS |
Radiation | Monochromator: MIRROR / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→25 Å / Num. obs: 9769 / % possible obs: 96.5 % / Observed criterion σ(I): 0 / Redundancy: 25.6 % / Rsym value: 0.113 / Net I/σ(I): 15.1 |
Reflection shell | Resolution: 2.3→2.34 Å / Mean I/σ(I) obs: 1.7 / Rsym value: 0.443 / % possible all: 75.9 |
Reflection | *PLUS Num. measured all: 250474 / Rmerge(I) obs: 0.113 |
Reflection shell | *PLUS % possible obs: 75.9 % / Rmerge(I) obs: 0.443 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1AT9 AND 2BRD Resolution: 2.3→12 Å / Num. parameters: 6544 / Num. restraintsaints: 6912 / Cross valid method: FREE R-VALUE / σ(F): 0 / Stereochemistry target values: ENGH AND HUBER / Details: USED TWIN OPTION, REFINED TWIN RATIO: 0.54/0.46.
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Solvent computation | Solvent model: SWAT | |||||||||||||||||||||||||||||||||
Refine analyze | Num. disordered residues: 0 | |||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.3→12 Å
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Refine LS restraints |
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Software | *PLUS Name: SHELXL-97 / Classification: refinement | |||||||||||||||||||||||||||||||||
Refinement | *PLUS σ(F): 4 / Rfactor all: 0.223 / Rfactor obs: 0.18 | |||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |