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Yorodumi- PDB-6n2b: The Crystal Structure of Caldicellulosiruptor kristjanssonii Tapi... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6n2b | ||||||
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Title | The Crystal Structure of Caldicellulosiruptor kristjanssonii Tapirin C-terminal domain | ||||||
Components | Tapirin | ||||||
Keywords | CELL ADHESION / BETA-HELIX / cellulose binding | ||||||
Function / homology | membrane => GO:0016020 / Uncharacterized protein Function and homology information | ||||||
Biological species | Caldicellulosiruptor kristjanssonii | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2.65 Å | ||||||
Authors | Alahuhta, P.M. / Lunin, V.V. | ||||||
Funding support | United States, 1items
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Citation | Journal: Appl. Environ. Microbiol. / Year: 2019 Title: Comparative Biochemical and Structural Analysis of Novel Cellulose Binding Proteins (Tapirins) from Extremely ThermophilicCaldicellulosiruptorSpecies. Authors: Lee, L.L. / Hart, W.S. / Lunin, V.V. / Alahuhta, M. / Bomble, Y.J. / Himmel, M.E. / Blumer-Schuette, S.E. / Adams, M.W.W. / Kelly, R.M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6n2b.cif.gz | 170.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6n2b.ent.gz | 128.1 KB | Display | PDB format |
PDBx/mmJSON format | 6n2b.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/n2/6n2b ftp://data.pdbj.org/pub/pdb/validation_reports/n2/6n2b | HTTPS FTP |
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-Related structure data
Related structure data | 6n2cC 4wa0S S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 62925.223 Da / Num. of mol.: 2 / Fragment: C-terminal domain residues 59-634 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Caldicellulosiruptor kristjanssonii (strain ATCC 700853 / DSM 12137 / I77R1B) (bacteria) Strain: ATCC 700853 / DSM 12137 / I77R1B / Gene: Calkr_0826 / Production host: Escherichia coli K-12 (bacteria) / References: UniProt: E4S4B2 #2: Chemical | #3: Chemical | ChemComp-GOL / | #4: 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: 2.57 Å3/Da / Density % sol: 52.12 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop Details: 0.1 M citric acid pH 3.0 to 4.0 and 10% to 15% w/v polyethylene glycol 3350 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ROTATING ANODE / Type: BRUKER AXS MICROSTAR / Wavelength: 1.5418 Å |
Detector | Type: Bruker Platinum 135 / Detector: CCD / Date: Aug 21, 2017 / Details: HELIOS MIRRORS |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.65→55 Å / Num. obs: 38585 / % possible obs: 100 % / Redundancy: 5.23 % / Rsym value: 0.2419 / Net I/σ(I): 4.89 |
Reflection shell | Resolution: 2.65→2.75 Å / Redundancy: 4.26 % / Mean I/σ(I) obs: 1.03 / Num. unique obs: 3969 / Rsym value: 0.6461 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 4WA0 Resolution: 2.65→54.425 Å / SU ML: 0.39 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 24.66
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.65→54.425 Å
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Refine LS restraints |
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LS refinement shell |
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