+
Open data
-
Basic information
Entry | Database: PDB / ID: 1s54 | ||||||
---|---|---|---|---|---|---|---|
Title | Thr24Ala Bacteriorhodopsin | ||||||
![]() | bacteriorhodopsin | ||||||
![]() | PROTON TRANSPORT / membrane protein / bacteriorhodopsin / bicelle | ||||||
Function / homology | ![]() light-driven active monoatomic ion transmembrane transporter activity / photoreceptor activity / phototransduction / proton transmembrane transport / monoatomic ion channel activity / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Yohannan, S. / Faham, S. / Yang, D. / Grosfeld, D. / Chamberlain, A.K. / Bowie, J.U. | ||||||
![]() | ![]() Title: A C(alpha)-H.O Hydrogen Bond in a Membrane Protein Is Not Stabilizing Authors: Yohannan, S. / Faham, S. / Yang, D. / Grosfeld, D. / Chamberlain, A.K. / Bowie, J.U. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 97.7 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 76 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
---|
-Related structure data
Related structure data | ![]() 1s51C ![]() 1s52C ![]() 1s53C ![]() 1py6S C: citing same article ( S: Starting model for refinement |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|
1 | ![]()
| ||||||||||
2 | ![]()
| ||||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 24831.396 Da / Num. of mol.: 2 / Mutation: T24A Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Description: DNA transformed into E. coli, then transformed into Halobacterium Salinarum where the protein is expressed. Production host: ![]() #2: Chemical | #3: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.46 Å3/Da / Density % sol: 49.94 % | ||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Crystal grow | Temperature: 310 K / Method: bicelle hanging drop vapor diffusion / pH: 3.7 Details: Sodium Phosphate, Hexanediol, pH 3.7, bicelle hanging drop vapor diffusion, temperature 310K | ||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 37 ℃ / Method: vapor diffusion | ||||||||||||||||||||||||||||
Components of the solutions | *PLUS
|
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Nov 16, 2003 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→30 Å / Num. all: 23072 / Num. obs: 23072 / % possible obs: 94.6 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 3.1 % / Rsym value: 0.131 / Net I/σ(I): 8.34 |
Reflection shell | Resolution: 2.2→2.28 Å / Redundancy: 2.8 % / Rmerge(I) obs: 0.256 / Mean I/σ(I) obs: 3.6 / Num. unique all: 2214 / % possible all: 91.8 |
-
Processing
Software |
| ||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: PDB entry 1PY6 Resolution: 2.2→30 Å / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber Details: Crystal twinning was observed. Twinning operation = -h, -k, h+l. Twinning Fraction = 0.5
| ||||||||||||||||||||||||||||||||||||
Displacement parameters |
| ||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.2→30 Å
| ||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 2.2 Å / Rfactor Rfree: 0.287 / Rfactor Rwork: 0.243 | ||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
|