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Open data
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Basic information
Entry | Database: PDB / ID: 1yod | ||||||
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Title | Crystal structure of a water soluble analog of phospholamban | ||||||
![]() | water-solublized phospholamban | ||||||
![]() | DE NOVO PROTEIN / protein design / water-soluble | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Slovic, A.M. / Stayrook, S.E. / North, B. / DeGrado, W.F. | ||||||
![]() | ![]() Title: X-ray structure of a water-soluble analog of the membrane protein phospholamban: sequence determinants defining the topology of tetrameric and pentameric coiled coils. Authors: Slovic, A.M. / Stayrook, S.E. / North, B. / DeGrado, W.F. | ||||||
History |
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Remark 999 | SEQUENCE At the time of processing no suitable sequence database reference was found |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 34.1 KB | Display | ![]() |
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PDB format | ![]() | 27.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
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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Components
#1: Protein/peptide | Mass: 3741.232 Da / Num. of mol.: 2 / Source method: obtained synthetically / Details: synthetic protein #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.1 Å3/Da / Density % sol: 42 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 5.6 Details: 1,6 hexanediol, sodium citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | ||||||||||||
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Mar 3, 2003 | ||||||||||||
Radiation | Monochromator: super-bend magnet / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 1.8→30 Å / Num. all: 7887 / Num. obs: 7658 / % possible obs: 99.8 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 18 % / Biso Wilson estimate: 25.5 Å2 / Rmerge(I) obs: 0.073 / Net I/σ(I): 13.1 | ||||||||||||
Reflection shell | Resolution: 1.8→1.85 Å / Redundancy: 18 % / Rmerge(I) obs: 0.43 / Mean I/σ(I) obs: 2.8 / Num. unique all: 625 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: BABINET MODEL WITH MASK | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 25.5 Å2
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Refinement step | Cycle: LAST / Resolution: 1.8→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.8→1.847 Å / Total num. of bins used: 20 /
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