+Open data
-Basic information
Entry | Database: PDB / ID: 7sbe | ||||||
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Title | Structure of the K. lactis telomerase RNA binding domain | ||||||
Components | Telomerase reverse transcriptase | ||||||
Keywords | RNA BINDING PROTEIN / Telomerase | ||||||
Function / homology | Function and homology information telomerase catalytic core complex / telomerase RNA reverse transcriptase activity / telomeric DNA binding / telomere maintenance via telomerase / RNA-directed DNA polymerase / chromosome, telomeric region / nucleolus / metal ion binding Similarity search - Function | ||||||
Biological species | Kluyveromyces lactis (yeast) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.65 Å | ||||||
Authors | Skordalakes, E. / Tzfati, Y. | ||||||
Funding support | United States, 1items
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Citation | Journal: Int J Mol Sci / Year: 2022 Title: Structure of the K. lactis telomerase RNA binding domain Authors: Skordalakes, E. / Tzfati, Y. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7sbe.cif.gz | 106.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7sbe.ent.gz | 80.7 KB | Display | PDB format |
PDBx/mmJSON format | 7sbe.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 7sbe_validation.pdf.gz | 436.2 KB | Display | wwPDB validaton report |
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Full document | 7sbe_full_validation.pdf.gz | 448.7 KB | Display | |
Data in XML | 7sbe_validation.xml.gz | 18.6 KB | Display | |
Data in CIF | 7sbe_validation.cif.gz | 23.9 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/sb/7sbe ftp://data.pdbj.org/pub/pdb/validation_reports/sb/7sbe | HTTPS FTP |
-Related structure data
Related structure data | 2r4gS S: Starting model for refinement |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
-Assembly
Deposited unit |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 27902.664 Da / Num. of mol.: 2 / Fragment: RNA binding domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) Kluyveromyces lactis (yeast) / Gene: KLLA0_C18381g / Production host: Escherichia phage EcSzw-2 (virus) / References: UniProt: Q6CSS0, RNA-directed DNA polymerase #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.59 Å3/Da / Density % sol: 52.49 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, sitting drop / Details: 14% PEG3350 and 200 mM Na.citrate |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X25 / Wavelength: 1.1 Å |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Nov 10, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.1 Å / Relative weight: 1 |
Reflection | Resolution: 2.65→20 Å / Num. obs: 15880 / % possible obs: 99.3 % / Redundancy: 5.4 % / CC1/2: 0.99 / Net I/σ(I): 5.4 |
Reflection shell | Resolution: 2.65→2.72 Å / Num. unique obs: 1177 / CC1/2: 0.58 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 2R4G Resolution: 2.65→19.71 Å / SU ML: 0.47 / Cross valid method: THROUGHOUT / σ(F): 1.34 / Phase error: 38.12 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 183.96 Å2 / Biso mean: 91.4427 Å2 / Biso min: 41 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 2.65→19.71 Å
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0 / Total num. of bins used: 6
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