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Yorodumi- PDB-3kar: THE MOTOR DOMAIN OF KINESIN-LIKE PROTEIN KAR3, A SACCHAROMYCES CE... -
+Open data
-Basic information
Entry | Database: PDB / ID: 3kar | ||||||
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Title | THE MOTOR DOMAIN OF KINESIN-LIKE PROTEIN KAR3, A SACCHAROMYCES CEREVISIAE KINESIN-RELATED PROTEIN | ||||||
Components | KINESIN-LIKE PROTEIN KAR3 | ||||||
Keywords | CONTRACTILE PROTEIN / KAR3 / KINESIN-RELATED PROTEIN / MOTOR PROTEIN / ATPASE / P-LOOP / MICROTUBULE BINDING PROTEIN | ||||||
Function / homology | Function and homology information minus-end-directed kinesin ATPase / microtubule bundle formation involved in mitotic spindle midzone assembly / nuclear migration involved in conjugation with cellular fusion / protein transport along microtubule to mitotic spindle pole body / karyogamy involved in conjugation with cellular fusion / minus-end-directed microtubule motor activity / spindle pole body / mitotic sister chromatid cohesion / cytoplasmic microtubule / regulation of mitotic spindle organization ...minus-end-directed kinesin ATPase / microtubule bundle formation involved in mitotic spindle midzone assembly / nuclear migration involved in conjugation with cellular fusion / protein transport along microtubule to mitotic spindle pole body / karyogamy involved in conjugation with cellular fusion / minus-end-directed microtubule motor activity / spindle pole body / mitotic sister chromatid cohesion / cytoplasmic microtubule / regulation of mitotic spindle organization / isomerase activity / meiotic cell cycle / spindle pole / mitotic cell cycle / chromosome / microtubule binding / microtubule / cell division / ATP hydrolysis activity / ATP binding / nucleus Similarity search - Function | ||||||
Biological species | Saccharomyces cerevisiae (brewer's yeast) | ||||||
Method | X-RAY DIFFRACTION / MIR / Resolution: 2.3 Å | ||||||
Authors | Gulick, A.M. / Song, H. / Endow, S. / Rayment, I. | ||||||
Citation | Journal: Biochemistry / Year: 1998 Title: X-ray crystal structure of the yeast Kar3 motor domain complexed with Mg.ADP to 2.3 A resolution. Authors: Gulick, A.M. / Song, H. / Endow, S.A. / Rayment, I. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3kar.cif.gz | 81 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3kar.ent.gz | 57.9 KB | Display | PDB format |
PDBx/mmJSON format | 3kar.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ka/3kar ftp://data.pdbj.org/pub/pdb/validation_reports/ka/3kar | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 38806.539 Da / Num. of mol.: 1 / Fragment: MOTOR DOMAIN, RESIDUES 383 - 722 / Mutation: L383M Source method: isolated from a genetically manipulated source Details: GENETICALLY TRUNCATED MOTOR DOMAIN OF SACCHAROMYCES CEREVISIAE MOTOR PROTEIN KAR3 LIGANDS MG2 AND ADP Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast) Gene: KAR3 / Plasmid: PMW-KAR3 / Production host: Escherichia coli (E. coli) / References: UniProt: P17119 |
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#2: Chemical | ChemComp-MG / |
#3: Chemical | ChemComp-ADP / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.14 Å3/Da / Density % sol: 42 % | ||||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 7 Details: 11 % MEPEG 2000, 50 MM NACL, 1% ETHYLENE GLYCOL, 1 MM MG ADP, pH 7. | ||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 7 / Method: batch method | ||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 269 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RUH2R / Wavelength: 1.5418 |
Detector | Type: SIEMENS HI-STAR / Detector: AREA DETECTOR / Date: Apr 9, 1997 |
Radiation | Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→30 Å / Num. obs: 22220 / % possible obs: 93 % / Redundancy: 2 % / Rmerge(I) obs: 0.034 |
Reflection shell | Resolution: 2.3→2.4 Å / Rmerge(I) obs: 0.074 / % possible all: 85 |
Reflection | *PLUS Num. measured all: 43898 |
Reflection shell | *PLUS % possible obs: 84.7 % |
-Processing
Software |
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Refinement | Method to determine structure: MIR / Resolution: 2.3→30 Å
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Refinement step | Cycle: LAST / Resolution: 2.3→30 Å
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Refine LS restraints |
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Software | *PLUS Name: TNT / Classification: refinement | ||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor all: 0.175 | ||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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