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Yorodumi- PDB-1aue: FKBP-RAPAMYCIN BINDING DOMAIN (FRB) OF THE FKBP-RAPAMYCIN ASSOCIA... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1aue | ||||||
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Title | FKBP-RAPAMYCIN BINDING DOMAIN (FRB) OF THE FKBP-RAPAMYCIN ASSOCIATED PROTEIN | ||||||
Components | FKBP-RAPAMYCIN ASSOCIATED PROTEIN | ||||||
Keywords | TRANSFERASE / FKBP-RAPAMYCIN ASSOCIATED PROTEIN G1/S CELL CYCLE / KINASE | ||||||
Function / homology | Function and homology information RNA polymerase III type 2 promoter sequence-specific DNA binding / positive regulation of cytoplasmic translational initiation / RNA polymerase III type 1 promoter sequence-specific DNA binding / positive regulation of pentose-phosphate shunt / T-helper 1 cell lineage commitment / regulation of locomotor rhythm / positive regulation of wound healing, spreading of epidermal cells / cellular response to leucine starvation / TFIIIC-class transcription factor complex binding / TORC2 complex ...RNA polymerase III type 2 promoter sequence-specific DNA binding / positive regulation of cytoplasmic translational initiation / RNA polymerase III type 1 promoter sequence-specific DNA binding / positive regulation of pentose-phosphate shunt / T-helper 1 cell lineage commitment / regulation of locomotor rhythm / positive regulation of wound healing, spreading of epidermal cells / cellular response to leucine starvation / TFIIIC-class transcription factor complex binding / TORC2 complex / regulation of membrane permeability / heart valve morphogenesis / negative regulation of lysosome organization / RNA polymerase III type 3 promoter sequence-specific DNA binding / TORC1 complex / positive regulation of transcription of nucleolar large rRNA by RNA polymerase I / calcineurin-NFAT signaling cascade / regulation of autophagosome assembly / TORC1 signaling / voluntary musculoskeletal movement / regulation of osteoclast differentiation / positive regulation of keratinocyte migration / cellular response to L-leucine / MTOR signalling / Amino acids regulate mTORC1 / cellular response to nutrient / energy reserve metabolic process / Energy dependent regulation of mTOR by LKB1-AMPK / nucleus localization / ruffle organization / negative regulation of cell size / cellular response to osmotic stress / anoikis / cardiac muscle cell development / negative regulation of protein localization to nucleus / positive regulation of transcription by RNA polymerase III / regulation of myelination / negative regulation of calcineurin-NFAT signaling cascade / Macroautophagy / regulation of cell size / negative regulation of macroautophagy / lysosome organization / positive regulation of oligodendrocyte differentiation / positive regulation of actin filament polymerization / positive regulation of myotube differentiation / behavioral response to pain / TOR signaling / oligodendrocyte differentiation / mTORC1-mediated signalling / Constitutive Signaling by AKT1 E17K in Cancer / germ cell development / cellular response to nutrient levels / CD28 dependent PI3K/Akt signaling / positive regulation of translational initiation / positive regulation of phosphoprotein phosphatase activity / neuronal action potential / HSF1-dependent transactivation / regulation of macroautophagy / positive regulation of epithelial to mesenchymal transition / endomembrane system / 'de novo' pyrimidine nucleobase biosynthetic process / response to amino acid / positive regulation of lamellipodium assembly / phagocytic vesicle / positive regulation of lipid biosynthetic process / regulation of cellular response to heat / heart morphogenesis / cardiac muscle contraction / positive regulation of stress fiber assembly / cytoskeleton organization / cellular response to amino acid starvation / T cell costimulation / cellular response to starvation / positive regulation of glycolytic process / response to nutrient levels / negative regulation of autophagy / response to nutrient / post-embryonic development / positive regulation of translation / VEGFR2 mediated vascular permeability / Regulation of PTEN gene transcription / regulation of signal transduction by p53 class mediator / regulation of cell growth / regulation of actin cytoskeleton organization / cellular response to amino acid stimulus / TP53 Regulates Metabolic Genes / macroautophagy / phosphoprotein binding / protein catabolic process / protein destabilization / multicellular organism growth / regulation of circadian rhythm / PML body / cellular response to insulin stimulus / rhythmic process / positive regulation of peptidyl-tyrosine phosphorylation / Regulation of TP53 Degradation / ribosome binding / PIP3 activates AKT signaling / nuclear envelope Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.33 Å | ||||||
Authors | Odagaki, Y. / Clardy, J. | ||||||
Citation | Journal: J.Am.Chem.Soc. / Year: 1997 Title: Structural Basis for Peptidomimicry by the Effector Element of Rapamycin Authors: Odagaki, Y. / Clardy, J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1aue.cif.gz | 59.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1aue.ent.gz | 46.1 KB | Display | PDB format |
PDBx/mmJSON format | 1aue.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/au/1aue ftp://data.pdbj.org/pub/pdb/validation_reports/au/1aue | HTTPS FTP |
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-Related structure data
Related structure data | 1fapS S: Starting model for refinement |
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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: 12101.867 Da / Num. of mol.: 2 / Fragment: FKBP-RAPAMYCIN BINDING DOMAIN Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: JURKAT TCELL CDNA LIBRARY / Plasmid: PGPX-2T / Species (production host): Escherichia coli / Production host: Escherichia coli BL21 (bacteria) / Strain (production host): BL21 / References: UniProt: P42345 #2: 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: 2.25 Å3/Da / Density % sol: 45 % | |||||||||||||||||||||||||
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 8 Details: HANGING DROPS AT 4 C, pH 8.0, vapor diffusion - hanging drop, temperature 277K | |||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 4 ℃ / Method: vapor diffusion, hanging drop | |||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: CHESS / Beamline: F2 / Wavelength: 1.01 |
Detector | Type: PRINCETON 2K / Detector: CCD / Date: Feb 1, 1997 |
Radiation | Monochromator: SI(111) / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.01 Å / Relative weight: 1 |
Reflection | Resolution: 2.33→10 Å / Num. obs: 7307 / % possible obs: 73 % / Observed criterion σ(I): 2 / Redundancy: 1.73 % / Rsym value: 0.067 / Net I/σ(I): 6567.9 |
Reflection shell | Resolution: 2.33→2.42 Å / Redundancy: 1.12 % / Mean I/σ(I) obs: 1324 / % possible all: 28.9 |
Reflection | *PLUS Rmerge(I) obs: 0.032 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 1FAP Resolution: 2.33→20 Å / Cross valid method: FREE R / σ(F): 2
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Displacement parameters | Biso mean: 15.5 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine analyze | Luzzati d res low obs: 20 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.33→20 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.3→2.4 Å / Total num. of bins used: 8 /
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Xplor file |
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Software | *PLUS Name: X-PLOR / Version: 3.1 / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS σ(F): 2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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