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Yorodumi- PDB-1j4k: SOLUTION STRUCTURE OF THE FHA2 DOMAIN OF RAD53 COMPLEXED WITH A P... -
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-Basic information
Entry | Database: PDB / ID: 1j4k | |||||||||
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Title | SOLUTION STRUCTURE OF THE FHA2 DOMAIN OF RAD53 COMPLEXED WITH A PHOSPHOTYROSYL PEPTIDE DERIVED FROM RAD9 | |||||||||
Components |
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Keywords | TRANSFERASE / FHA DOMAIN / RAD53 / RAD9 / PHOSPHOTYROSINE / PHOSPHOPROTEIN | |||||||||
Function / homology | Function and homology information negative regulation of DNA strand resection involved in replication fork processing / deoxyribonucleoside triphosphate biosynthetic process / G2/M DNA damage checkpoint / Chk1/Chk2(Cds1) mediated inactivation of Cyclin B:Cdk1 complex / Ubiquitin Mediated Degradation of Phosphorylated Cdc25A / meiotic recombination checkpoint signaling / Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks / SUMOylation of transcription factors / negative regulation of phosphorylation / dual-specificity kinase ...negative regulation of DNA strand resection involved in replication fork processing / deoxyribonucleoside triphosphate biosynthetic process / G2/M DNA damage checkpoint / Chk1/Chk2(Cds1) mediated inactivation of Cyclin B:Cdk1 complex / Ubiquitin Mediated Degradation of Phosphorylated Cdc25A / meiotic recombination checkpoint signaling / Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks / SUMOylation of transcription factors / negative regulation of phosphorylation / dual-specificity kinase / mitotic intra-S DNA damage checkpoint signaling / DNA replication origin binding / negative regulation of DNA damage checkpoint / DNA replication initiation / enzyme activator activity / regulation of DNA repair / mitotic G1 DNA damage checkpoint signaling / protein serine/threonine/tyrosine kinase activity / DNA damage checkpoint signaling / nucleotide-excision repair / protein localization / double-strand break repair / histone binding / double-stranded DNA binding / protein tyrosine kinase activity / regulation of cell cycle / protein kinase activity / phosphorylation / DNA repair / protein serine kinase activity / protein serine/threonine kinase activity / chromatin / positive regulation of transcription by RNA polymerase II / ATP binding / nucleus / cytosol / cytoplasm Similarity search - Function | |||||||||
Biological species | Saccharomyces cerevisiae (brewer's yeast) | |||||||||
Method | SOLUTION NMR / simulated annealing | |||||||||
Authors | Byeon, I.-J.L. / Yongkiettrakul, S. / Tsai, M.-D. | |||||||||
Citation | Journal: J.Mol.Biol. / Year: 2001 Title: Solution structure of the yeast Rad53 FHA2 complexed with a phosphothreonine peptide pTXXL: comparison with the structures of FHA2-pYXL and FHA1-pTXXD complexes. Authors: Byeon, I.J. / Yongkiettrakul, S. / Tsai, M.D. #1: Journal: J.Mol.Biol. / Year: 2000 Title: II. Structure and Specificity of the Interaction between the Fha2 Domain of Rad53 and Phosphotyrosyl Peptides. Authors: Wang, P. / Byeon, I.J. / Liao, H. / Beebe, K.D. / Yongkiettrakul, S. / Pei, D. / Tsai, M.D. #2: Journal: J.Mol.Biol. / Year: 1999 Title: Structure and Function of a New Phosphopeptide-Binding Domain Containing the Fha2 of Rad53. Authors: Liao, H. / Byeon, I.J. / Tsai, M.D. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1j4k.cif.gz | 72 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1j4k.ent.gz | 53.3 KB | Display | PDB format |
PDBx/mmJSON format | 1j4k.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/j4/1j4k ftp://data.pdbj.org/pub/pdb/validation_reports/j4/1j4k | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 18148.758 Da / Num. of mol.: 1 / Fragment: C-TERMINAL FHA DOMAIN (FHA2) Source method: isolated from a genetically manipulated source Source: (gene. exp.) Saccharomyces cerevisiae (brewer's yeast) Gene: SPK1 OR RAD53 / Plasmid: PGEX-4T / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) References: UniProt: P22216, Transferases; Transferring phosphorus-containing groups; Phosphotransferases with an alcohol group as acceptor |
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#2: Protein/peptide | Mass: 1009.947 Da / Num. of mol.: 1 / Fragment: RESIDUES 826-832 / Source method: obtained synthetically Details: THIS PHOSPHOTYROSYL PEPTIDE WAS CHEMICALLY SYNTHESIZED. References: UniProt: P14737 |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||
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NMR experiment |
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NMR details | Text: THE STRUCTURE WAS DETERMINED USING TRIPLE- RESONANCE NMR SPECTROSCOPY. |
-Sample preparation
Details | Contents: 0.5 MM FHA2 U-15N,13C 1MM PHOSPHOTYROSYL PEPTIDE OF RAD9; 10 MM SODIUM PHOSPHATE (PH 6.5) , 1 MM DTT, AND 1 MM EDTA |
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Sample conditions | Ionic strength: 10 mM SODIUM PHOSPHATE(PH 6.5), 1 mM DTT, AND 1 mM EDTA pH: 6.50 / Pressure: AMBIENT / Temperature: 293.00 K |
Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer | Type: Bruker DRX / Manufacturer: Bruker / Model: DRX / Field strength: 800 MHz |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 Details: THE COMPLEX STRUCTURES ARE GENERATED USING A TOTAL OF 3398 RESTRAINTS, 3210 DISTANCE RESTRAINTS, AND 188 TOLOS-DERIVED DIHEDRAL ANGLE RESTRAINTS. | ||||||||||||
NMR ensemble | Conformers submitted total number: 1 |