[English] 日本語
Yorodumi- PDB-3qmz: Crystal structure of the cytoplasmic dynein heavy chain motor domain -
+Open data
-Basic information
Entry | Database: PDB / ID: 3qmz | ||||||
---|---|---|---|---|---|---|---|
Title | Crystal structure of the cytoplasmic dynein heavy chain motor domain | ||||||
Components |
| ||||||
Keywords | MOTOR PROTEIN / AAA+ protein / ASCE protein / P-loop NTPase / Cytoskeletal motor / ATPase | ||||||
Function / homology | Function and homology information karyogamy / establishment of mitotic spindle localization / astral microtubule / nuclear migration along microtubule / minus-end-directed microtubule motor activity / cytoplasmic dynein complex / dynein light intermediate chain binding / spindle pole body / nuclear migration / dynein intermediate chain binding ...karyogamy / establishment of mitotic spindle localization / astral microtubule / nuclear migration along microtubule / minus-end-directed microtubule motor activity / cytoplasmic dynein complex / dynein light intermediate chain binding / spindle pole body / nuclear migration / dynein intermediate chain binding / mitotic sister chromatid segregation / establishment of mitotic spindle orientation / glutathione transferase / glutathione transferase activity / cytoplasmic microtubule / cytoplasmic microtubule organization / Neutrophil degranulation / mitotic spindle organization / cell cortex / ATP hydrolysis activity / ATP binding / cytoplasm Similarity search - Function | ||||||
Biological species | Saccharomyces cerevisiae (brewer's yeast) Schistosoma japonicum (invertebrata) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 6 Å | ||||||
Authors | Cho, C. / Carter, A.P. / Jin, L. / Vale, R.D. | ||||||
Citation | Journal: Science / Year: 2011 Title: Crystal structure of the dynein motor domain. Authors: Carter, A.P. / Cho, C. / Jin, L. / Vale, R.D. | ||||||
History |
| ||||||
Remark 700 | SHEET DETERMINATION METHOD: AUTHOR DETERMINED |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 3qmz.cif.gz | 714.6 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb3qmz.ent.gz | 445.6 KB | Display | PDB format |
PDBx/mmJSON format | 3qmz.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/qm/3qmz ftp://data.pdbj.org/pub/pdb/validation_reports/qm/3qmz | HTTPS FTP |
---|
-Related structure data
Similar structure data |
---|
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
2 |
| ||||||||
Unit cell |
|
-Components
#1: Protein | Mass: 285684.625 Da / Num. of mol.: 2 / Fragment: unp residues 1364-4092 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast) Production host: Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: P36022 #2: Protein | Mass: 25605.691 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Schistosoma japonicum (invertebrata) / Production host: Saccharomyces cerevisiae (brewer's yeast) / References: UniProt: P08515 |
---|
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
---|
-Sample preparation
Crystal | Density Matthews: 3.33 Å3/Da / Density % sol: 63.1 % |
---|---|
Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 5.7 Details: 16% PEG3350, 0.1 M sodium citrate, 0.2 M ammonium sulfate, VAPOR DIFFUSION, HANGING DROP, temperature 277K, pH 5.7 |
-Data collection
Diffraction |
| ||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Diffraction source | Source: SYNCHROTRON / Site: ALS / Beamline: 8.3.1 / Wavelength: 1 / Wavelength: 1.21476 1.15776 | ||||||||||||||||||
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Aug 25, 2009 | ||||||||||||||||||
Radiation |
| ||||||||||||||||||
Radiation wavelength |
| ||||||||||||||||||
Reflection | Resolution: 6→50.13 Å / Num. obs: 20819 |
-Processing
Software |
| ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MAD / Resolution: 6→50 Å / σ(F): 0
| ||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 6→50 Å
|