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- PDB-6iqc: Wild-type Programmed Cell Death 5 protein from Sulfolobus solfataricus -
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Open data
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Basic information
Entry | Database: PDB / ID: 6iqc | ||||||
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Title | Wild-type Programmed Cell Death 5 protein from Sulfolobus solfataricus | ||||||
![]() | DNA-binding protein SSO0352 | ||||||
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Function / homology | DNA-binding protein, archaeal / ![]() ![]() ![]() ![]() | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Chen, C.Y. / Lin, K.F. / Hsu, C.Y. / Tsai, M.J. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Crystal structure of the programmed cell death 5 protein from Sulfolobus solfataricus. Authors: Lin, K.F. / Hsu, J.Y. / Hsieh, D.L. / Tsai, M.J. / Yeh, C.H. / Chen, C.Y. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 38.7 KB | Display | ![]() |
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PDB format | ![]() | 24.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 6iqoSC S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 14078.048 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Strain: ATCC 35092 / DSM 1617 / JCM 11322 / P2 / Gene: SSO0352 / Plasmid: pET21a / Production host: ![]() ![]() ![]() |
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#2: Chemical | ChemComp-PG4 / ![]() |
#3: Chemical | ChemComp-NA / |
#4: Water | ChemComp-HOH / ![]() |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.76 Å3/Da / Density % sol: 30.2 % |
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Crystal grow![]() | Temperature: 293 K / Method: liquid diffusion / pH: 6.9 / Details: 20% PEG 3350, 0.2M KSCN |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: RAYONIX MX300-HS / Detector: CCD / Date: Mar 17, 2018 |
Radiation | Monochromator: LN2-Cooled, Fixed-Exit Double Crystal Monochromator Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.49→23.48 Å / Num. obs: 15594 / % possible obs: 98.1 % / Redundancy: 4.1 % / Rmerge(I) obs: 0.062 / Rpim(I) all: 0.015 / Net I/σ(I): 48.25 |
Reflection shell | Resolution: 1.5→1.55 Å / Rmerge(I) obs: 0.563 / Num. unique obs: 1552 / CC1/2: 0.891 / Rpim(I) all: 0.316 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 6IQO Resolution: 1.49→23.48 Å / Cor.coef. Fo:Fc: 0.956 / Cor.coef. Fo:Fc free: 0.921 / SU B: 2.227 / SU ML: 0.081 / Cross valid method: THROUGHOUT / ESU R: 0.107 / ESU R Free: 0.12 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 28.423 Å2
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Refinement step | Cycle: 1 / Resolution: 1.49→23.48 Å
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Refine LS restraints |
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