[English] 日本語
Yorodumi- PDB-2n9b: Solution NMR Structure of Antiparallel Myosin-10:GCN4 Tandem Coil... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2n9b | ||||||
---|---|---|---|---|---|---|---|
Title | Solution NMR Structure of Antiparallel Myosin-10:GCN4 Tandem Coiled-Coil | ||||||
Components | Unconventional myosin-X, General control protein GCN4 fusion | ||||||
Keywords | MOTOR PROTEIN/TRANSCRIPTION / anti-parallel coiled-coil / coiled-coil / MOTOR PROTEIN-TRANSCRIPTION complex | ||||||
Function / homology | Function and homology information plus-end directed microfilament motor activity / filopodium tip / cytoskeleton-dependent intracellular transport / protein localization to nuclear periphery / Activation of the AP-1 family of transcription factors / regulation of filopodium assembly / response to amino acid starvation / mediator complex binding / negative regulation of ribosomal protein gene transcription by RNA polymerase II / positive regulation of cellular response to amino acid starvation ...plus-end directed microfilament motor activity / filopodium tip / cytoskeleton-dependent intracellular transport / protein localization to nuclear periphery / Activation of the AP-1 family of transcription factors / regulation of filopodium assembly / response to amino acid starvation / mediator complex binding / negative regulation of ribosomal protein gene transcription by RNA polymerase II / positive regulation of cellular response to amino acid starvation / nitrogen catabolite activation of transcription from RNA polymerase II promoter / filopodium membrane / myosin complex / microfilament motor activity / phosphatidylinositol-3,4,5-trisphosphate binding / TFIID-class transcription factor complex binding / amino acid biosynthetic process / positive regulation of transcription initiation by RNA polymerase II / positive regulation of RNA polymerase II transcription preinitiation complex assembly / ruffle / cellular response to amino acid starvation / filopodium / RNA polymerase II transcription regulator complex / : / actin filament binding / lamellipodium / cell cortex / regulation of cell shape / DNA-binding transcription activator activity, RNA polymerase II-specific / transcription regulator complex / RNA polymerase II-specific DNA-binding transcription factor binding / sequence-specific DNA binding / calmodulin binding / DNA-binding transcription factor activity, RNA polymerase II-specific / intracellular signal transduction / RNA polymerase II cis-regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity / chromatin binding / negative regulation of transcription by RNA polymerase II / signal transduction / positive regulation of transcription by RNA polymerase II / ATP binding / identical protein binding / nucleus / cytosol Similarity search - Function | ||||||
Biological species | Bos taurus (cattle) Saccharomyces cerevisiae (brewer's yeast) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Model details | lowest energy, model1 | ||||||
Authors | Vavra, K.C. / Xia, Y. / Rock, R.S. | ||||||
Citation | Journal: Biophys.J. / Year: 2016 Title: Competition between Coiled-Coil Structures and the Impact on Myosin-10 Bundle Selection Authors: Vavra, K.C. / Xia, Y. / Rock, R.S. #1: Journal: Proc.Natl.Acad.Sci.USA / Year: 2012 Title: Antiparallel coiled-coil-mediated dimerization of myosin X. Authors: Lu, Q. / Ye, F. / Wei, Z. / Wen, Z. / Zhang, M. #2: Journal: Science / Year: 1991 Title: X-ray structure of the GCN4 leucine zipper, a two-stranded, parallel coiled coil Authors: Klemm, J.D. / Kim, P.S. / Alber, T. #3: Journal: Proc.Natl.Acad.Sci.USA / Year: 2008 Title: A myosin motor that selects bundled actin for motility Authors: Nagy, S. / Ricca, B.L. / Norstrom, M.F. / Courson, D.F. / Brawley, C.M. / Smithback, P.A. / Rock, R.S. #4: Journal: Proc.Natl.Acad.Sci.USA / Year: 1997 Title: Spare the rod, spoil the regulation: necessity for a myosin rod Authors: Trybus, K.M. / Freyzon, Y. / Faust, L.Z. / Sweeney, H. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 2n9b.cif.gz | 453.4 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb2n9b.ent.gz | 386.1 KB | Display | PDB format |
PDBx/mmJSON format | 2n9b.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/n9/2n9b ftp://data.pdbj.org/pub/pdb/validation_reports/n9/2n9b | HTTPS FTP |
---|
-Related structure data
Related structure data | |
---|---|
Similar structure data | |
Other databases |
-Links
-Assembly
Deposited unit |
| |||||||||
---|---|---|---|---|---|---|---|---|---|---|
1 |
| |||||||||
NMR ensembles |
|
-Components
#1: Protein | Mass: 8200.290 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Bos taurus (cattle), (gene. exp.) Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (yeast) Gene: MYO10, GCN4, AAS3, ARG9, YEL009C / Strain: ATCC 204508 / S288c / Production host: Escherichia coli (E. coli) / Strain (production host): BL21 / Variant (production host): DE3 pLysS / References: UniProt: P79114, UniProt: P03069 |
---|
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR Details: Tandem antiparallel coiled-coil fusion derived from Bos taurus myosin-10 coiled-coil and GCN4-p1. Structure solved by solution NMR. Tertiary structure supported by Small-Angle X-ray scattering (see reference). | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
NMR experiment |
|
-Sample preparation
Details | Contents: 1.1 mM [U-100% 13C; U-100% 15N] entity-1, 100 mM potassium phosphate-2, 1 mM EDTA-3, 0.03 % sodium azide-4, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Sample |
| ||||||||||||||||||||
Sample conditions | Ionic strength: 0.6 / pH: 6.5 / Pressure: ambient / Temperature: 308 K |
-NMR measurement
NMR spectrometer |
|
---|
-Processing
NMR software |
| ||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method: simulated annealing / Software ordinal: 1 | ||||||||||||||||||||||||||||
NMR constraints | NOE constraints total: 1561 / NOE intraresidue total count: 332 / NOE long range total count: 149 / NOE medium range total count: 610 / NOE sequential total count: 470 / Hydrogen bond constraints total count: 294 / Protein phi angle constraints total count: 147 / Protein psi angle constraints total count: 147 | ||||||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 10 |