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Yorodumi- PDB-1s9k: Crystal Structure of Human NFAT1 and Fos-Jun on the IL-2 ARRE1 Site -
+Open data
-Basic information
Entry | Database: PDB / ID: 1s9k | ||||||
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Title | Crystal Structure of Human NFAT1 and Fos-Jun on the IL-2 ARRE1 Site | ||||||
Components |
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Keywords | TRANSCRIPTION/DNA / Beta Barrel / Protein-DNA Complex / Double Helix / Ternary / Complex / B-ZIP / Basic Leucine Zipper / Coiled Coil / TRANSCRIPTION-DNA COMPLEX | ||||||
Function / homology | Function and homology information cAMP response element binding / transcription factor AP-1 complex / negative regulation of vascular associated smooth muscle cell differentiation / integrated stress response signaling / positive regulation of DNA-templated transcription initiation / release from viral latency / myotube cell development / mononuclear cell differentiation / cellular response to prolactin / response to gravity ...cAMP response element binding / transcription factor AP-1 complex / negative regulation of vascular associated smooth muscle cell differentiation / integrated stress response signaling / positive regulation of DNA-templated transcription initiation / release from viral latency / myotube cell development / mononuclear cell differentiation / cellular response to prolactin / response to gravity / RUNX1 and FOXP3 control the development of regulatory T lymphocytes (Tregs) / calcineurin-NFAT signaling cascade / negative regulation by host of viral transcription / skeletal muscle cell proliferation / cellular response to zinc ion starvation / cellular response to phorbol 13-acetate 12-myristate / WNT5:FZD7-mediated leishmania damping / conditioned taste aversion / SMAD protein signal transduction / NGF-stimulated transcription / positive regulation of osteoclast differentiation / R-SMAD binding / positive regulation by host of viral transcription / cartilage development / cellular response to parathyroid hormone stimulus / myoblast proliferation / Estrogen-dependent nuclear events downstream of ESR-membrane signaling / CLEC7A (Dectin-1) induces NFAT activation / positive regulation of myoblast fusion / nuclear chromosome / response to corticosterone / Deregulated CDK5 triggers multiple neurodegenerative pathways in Alzheimer's disease models / negative regulation of DNA binding / Activation of the AP-1 family of transcription factors / skeletal muscle cell differentiation / ubiquitin-like protein ligase binding / Calcineurin activates NFAT / general transcription initiation factor binding / cellular response to epidermal growth factor stimulus / response to immobilization stress / cellular response to cadmium ion / response to light stimulus / RNA polymerase II core promoter sequence-specific DNA binding / phosphatase binding / positive regulation of B cell proliferation / positive regulation of vascular associated smooth muscle cell proliferation / 14-3-3 protein binding / Regulation of PTEN gene transcription / response to cAMP / response to muscle stretch / cellular response to calcium ion / transcription coregulator binding / NPAS4 regulates expression of target genes / response to endoplasmic reticulum stress / FCERI mediated Ca+2 mobilization / GTPase activator activity / transforming growth factor beta receptor signaling pathway / osteoclast differentiation / positive regulation of miRNA transcription / response to activity / response to progesterone / female pregnancy / protein-DNA complex / TP53 Regulates Transcription of DNA Repair Genes / FCERI mediated MAPK activation / B cell receptor signaling pathway / DNA-binding transcription repressor activity, RNA polymerase II-specific / cellular response to reactive oxygen species / MAPK6/MAPK4 signaling / response to insulin / euchromatin / response to toxic substance / RNA polymerase II transcription regulator complex / Pre-NOTCH Transcription and Translation / Activation of anterior HOX genes in hindbrain development during early embryogenesis / sequence-specific double-stranded DNA binding / Signaling by ALK fusions and activated point mutants / cell migration / Senescence-Associated Secretory Phenotype (SASP) / cellular response to tumor necrosis factor / cellular response to hypoxia / nervous system development / regulation of cell population proliferation / DNA-binding transcription activator activity, RNA polymerase II-specific / transcription regulator complex / Oxidative Stress Induced Senescence / Interleukin-4 and Interleukin-13 signaling / response to ethanol / Estrogen-dependent gene expression / RNA polymerase II-specific DNA-binding transcription factor binding / transcription cis-regulatory region binding / transcription by RNA polymerase II / response to lipopolysaccharide / molecular adaptor activity / DNA-binding transcription factor activity, RNA polymerase II-specific / regulation of cell cycle / ribonucleoprotein complex / response to xenobiotic stimulus / inflammatory response / RNA polymerase II cis-regulatory region sequence-specific DNA binding Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 3.1 Å | ||||||
Authors | Wang, D. / Stroud, J.C. / Chen, L. | ||||||
Citation | Journal: To be Published Title: Crystal Structure of Human NFAT1 and Fos-Jun on the IL-2 ARRE1 Site Authors: Wang, D. / Stroud, J.C. / Chen, L. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1s9k.cif.gz | 111.7 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1s9k.ent.gz | 83.4 KB | Display | PDB format |
PDBx/mmJSON format | 1s9k.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1s9k_validation.pdf.gz | 451.2 KB | Display | wwPDB validaton report |
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Full document | 1s9k_full_validation.pdf.gz | 470.2 KB | Display | |
Data in XML | 1s9k_validation.xml.gz | 18.7 KB | Display | |
Data in CIF | 1s9k_validation.cif.gz | 25.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/s9/1s9k ftp://data.pdbj.org/pub/pdb/validation_reports/s9/1s9k | HTTPS FTP |
-Related structure data
Related structure data | |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: DNA chain | Mass: 6211.063 Da / Num. of mol.: 1 / Source method: obtained synthetically / Details: Solid phase synthesis |
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#2: DNA chain | Mass: 6050.967 Da / Num. of mol.: 1 / Source method: obtained synthetically / Details: Solid phase synthesis |
#3: Protein | Mass: 31874.303 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: NFATC2, NFAT1, NFATP / Production host: Escherichia coli (E. coli) / References: UniProt: Q13469 |
#4: Protein | Mass: 6370.266 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: FOS, G0S7 / Production host: Escherichia coli (E. coli) / References: UniProt: P01100 |
#5: Protein | Mass: 6139.324 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: JUN / Production host: Escherichia coli (E. coli) / References: UniProt: P05412 |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.86 Å3/Da / Density % sol: 68.16 % | ||||||||||||||||||||
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 300-400 mM Ammonium Acetate Salt, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 289K | ||||||||||||||||||||
Components of the solutions |
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X12C / Wavelength: 1.1 Å |
Detector | Type: BRANDEIS - B4 / Detector: CCD / Date: Sep 16, 1996 |
Radiation | Monochromator: Synchrotron / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.1 Å / Relative weight: 1 |
Reflection | Resolution: 3.1→30 Å / Num. all: 16689 / Num. obs: 16172 / % possible obs: 96.9 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 |
Reflection shell | Resolution: 3.1→3.2 Å / % possible all: 71.4 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 3.1→30 Å / σ(F): 2 / Stereochemistry target values: Engh & Huber
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Solvent computation | Bsol: 18.2614 Å2 / ksol: 0.262883 e/Å3 | ||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 3.1→30 Å
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Refine LS restraints |
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