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Yorodumi- PDB-1cmo: IMMUNOGLOBULIN MOTIF DNA-RECOGNITION AND HETERODIMERIZATION FOR T... -
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-Basic information
Entry | Database: PDB / ID: 1cmo | ||||||
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Title | IMMUNOGLOBULIN MOTIF DNA-RECOGNITION AND HETERODIMERIZATION FOR THE PEBP2/CBF RUNT-DOMAIN | ||||||
Components | POLYOMAVIRUS ENHANCER BINDING PROTEIN 2 | ||||||
Keywords | TRANSCRIPTION / TRANSCRIPTION FACTOR / HEMATOPOIESIS / OSTEOGENESIS / IG-FOLD | ||||||
Function / homology | Function and homology information regulation of connective tissue replacement / peripheral nervous system neuron development / positive regulation of granulocyte differentiation / RUNX1 regulates transcription of genes involved in BCR signaling / Organic cation transport / RUNX1 regulates transcription of genes involved in interleukin signaling / myeloid leukocyte differentiation / core-binding factor complex / RUNX1 regulates expression of components of tight junctions / positive regulation of CD8-positive, alpha-beta T cell differentiation ...regulation of connective tissue replacement / peripheral nervous system neuron development / positive regulation of granulocyte differentiation / RUNX1 regulates transcription of genes involved in BCR signaling / Organic cation transport / RUNX1 regulates transcription of genes involved in interleukin signaling / myeloid leukocyte differentiation / core-binding factor complex / RUNX1 regulates expression of components of tight junctions / positive regulation of CD8-positive, alpha-beta T cell differentiation / regulation of cardiac muscle cell proliferation / cardiac muscle tissue regeneration / negative regulation of granulocyte differentiation / negative regulation of CD4-positive, alpha-beta T cell differentiation / RUNX1 and FOXP3 control the development of regulatory T lymphocytes (Tregs) / positive regulation of extracellular matrix organization / RUNX2 regulates genes involved in differentiation of myeloid cells / regulation of plasminogen activation / RUNX1 regulates transcription of genes involved in differentiation of keratinocytes / myeloid cell differentiation / RUNX1 regulates transcription of genes involved in differentiation of myeloid cells / Regulation of RUNX1 Expression and Activity / hematopoietic stem cell proliferation / RUNX1 regulates transcription of genes involved in WNT signaling / RUNX1 regulates estrogen receptor mediated transcription / regulation of cell differentiation / RUNX1 interacts with co-factors whose precise effect on RUNX1 targets is not known / RUNX3 regulates p14-ARF / hemopoiesis / positive regulation of collagen biosynthetic process / chondrocyte differentiation / positive regulation of interleukin-2 production / ossification / transcription corepressor binding / RNA polymerase II transcription regulatory region sequence-specific DNA binding / RUNX1 regulates genes involved in megakaryocyte differentiation and platelet function / neuron differentiation / transcription coactivator binding / Pre-NOTCH Transcription and Translation / Transcriptional regulation of granulopoiesis / positive regulation of angiogenesis / SARS-CoV-1 activates/modulates innate immune responses / RUNX1 regulates transcription of genes involved in differentiation of HSCs / DNA-binding transcription activator activity, RNA polymerase II-specific / DNA-binding transcription factor binding / Estrogen-dependent gene expression / DNA-binding transcription factor activity, RNA polymerase II-specific / transcription cis-regulatory region binding / protein heterodimerization activity / RNA polymerase II cis-regulatory region sequence-specific DNA binding / DNA-binding transcription factor activity / intracellular membrane-bounded organelle / calcium ion binding / chromatin / regulation of transcription by RNA polymerase II / positive regulation of DNA-templated transcription / negative regulation of transcription by RNA polymerase II / protein homodimerization activity / positive regulation of transcription by RNA polymerase II / DNA binding / nucleoplasm / ATP binding / nucleus Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / HYBRID DISTANCE GEOMETRY, SIMULATED ANNEALING | ||||||
Authors | Nagata, T. / Gupta, V. / Sorce, D. / Kim, W.Y. / Sali, A. / Chait, B.T. / Shigesada, K. / Ito, Y. / Werner, M.H. | ||||||
Citation | Journal: Nat.Struct.Biol. / Year: 1999 Title: Immunoglobulin motif DNA recognition and heterodimerization of the PEBP2/CBF Runt domain. Authors: Nagata, T. / Gupta, V. / Sorce, D. / Kim, W.Y. / Sali, A. / Chait, B.T. / Shigesada, K. / Ito, Y. / Werner, M.H. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1cmo.cif.gz | 1.6 MB | Display | PDBx/mmCIF format |
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PDB format | pdb1cmo.ent.gz | 1.3 MB | Display | PDB format |
PDBx/mmJSON format | 1cmo.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/cm/1cmo ftp://data.pdbj.org/pub/pdb/validation_reports/cm/1cmo | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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NMR ensembles |
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-Components
#1: Protein | Mass: 14008.942 Da / Num. of mol.: 1 / Fragment: CORE-BINDING FACTOR ALPHA B SUBUNIT, RUNT DOMAIN / Mutation: C81S Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Plasmid: PQE9 / Species (production host): Escherichia coli / Cellular location (production host): CYTOPLASM / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: Q01196 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR |
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NMR experiment | Type: ALL STANDARD |
NMR details | Text: ALL STANDARD |
-Sample preparation
Details | Contents: 96% H2O/4% D2O |
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Sample conditions | Ionic strength: 10mM / pH: 6.8 / Pressure: 1 atm / Temperature: 310 K |
Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: HYBRID DISTANCE GEOMETRY, SIMULATED ANNEALING / Software ordinal: 1 | ||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the least restraint violations Conformers calculated total number: 300 / Conformers submitted total number: 43 |