+Open data
-Basic information
Entry | Database: PDB / ID: 2i3t | ||||||
---|---|---|---|---|---|---|---|
Title | Bub3 complex with Mad3 (BubR1) GLEBS motif | ||||||
Components |
| ||||||
Keywords | CELL CYCLE / WD40 protein / beta propeller / mitotic spindle checkpoint | ||||||
Function / homology | Function and homology information : / bub1-bub3 complex / Inactivation of APC/C via direct inhibition of the APC/C complex / mitotic DNA integrity checkpoint signaling / kinetochore => GO:0000776 / distributive segregation / mitotic checkpoint complex / meiotic sister chromatid cohesion, centromeric / positive regulation of protein autoubiquitination / mitotic spindle assembly checkpoint signaling ...: / bub1-bub3 complex / Inactivation of APC/C via direct inhibition of the APC/C complex / mitotic DNA integrity checkpoint signaling / kinetochore => GO:0000776 / distributive segregation / mitotic checkpoint complex / meiotic sister chromatid cohesion, centromeric / positive regulation of protein autoubiquitination / mitotic spindle assembly checkpoint signaling / ubiquitin binding / kinetochore / protein kinase activity / cell division / nucleoplasm Similarity search - Function | ||||||
Biological species | Saccharomyces cerevisiae (brewer's yeast) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.8 Å | ||||||
Authors | Larsen, N.A. / Harrison, S.C. | ||||||
Citation | Journal: Proc.Natl.Acad.Sci.Usa / Year: 2007 Title: Structural analysis of Bub3 interactions in the mitotic spindle checkpoint. Authors: Larsen, N.A. / Al-Bassam, J. / Wei, R.R. / Harrison, S.C. #1: Journal: J.Mol.Biol. / Year: 2004 Title: Crystal structure of the spindle assembly checkpoint protein Bub3. Authors: Larsen, N.A. / Harrison, S.C. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 2i3t.cif.gz | 292.6 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb2i3t.ent.gz | 239.3 KB | Display | PDB format |
PDBx/mmJSON format | 2i3t.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/i3/2i3t ftp://data.pdbj.org/pub/pdb/validation_reports/i3/2i3t | HTTPS FTP |
---|
-Related structure data
Related structure data | 2i3sC 1u4cS S: Starting model for refinement C: citing same article (ref.) |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
2 |
| ||||||||
3 |
| ||||||||
4 |
| ||||||||
Unit cell |
| ||||||||
Details | The biological assembly is a single heterodimer composed of Bub3 and the Mad3 GLEBS peptide. There are 4 heterodimers in the asymmetric unit. |
-Components
#1: Protein | Mass: 38483.492 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast) Gene: BUB3, YOR026W, OR26.16 / Plasmid: pET-Duet (Novagen) / Production host: Escherichia coli (E. coli) / References: UniProt: P26449 #2: Protein | Mass: 6576.531 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast) Gene: MAD3, YJL013C, J1341 / Plasmid: pET-Duet (Novagen) / Production host: Escherichia coli (E. coli) / References: UniProt: P47074 |
---|
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 2.21 Å3/Da / Density % sol: 44.41 % |
---|---|
Crystal grow | Temperature: 296 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 17% PEG 4K 10% isopropanol 100 mM HEPES, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 296K |
-Data collection
Diffraction | Mean temperature: 120 K |
---|---|
Diffraction source | Source: SYNCHROTRON / Site: ALS / Beamline: 8.2.2 / Wavelength: 1.1807 Å |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Oct 17, 2004 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.1807 Å / Relative weight: 1 |
Reflection | Resolution: 2.8→50 Å / Num. obs: 40970 / % possible obs: 95.2 % / Observed criterion σ(F): 1.9 / Observed criterion σ(I): 1.9 |
Reflection shell | Resolution: 2.8→2.85 Å / Rmerge(I) obs: 0.367 / Mean I/σ(I) obs: 1.9 / % possible all: 76.1 |
-Processing
Software |
| ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB entry 1U4C Resolution: 2.8→50 Å / σ(F): 0 / Stereochemistry target values: Engh & Huber
| ||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.8→50 Å
| ||||||||||||||||||||
Refine LS restraints |
|