- EMDB-9783: Cryo-EM structure of human DOT1L in complex with an H2B-monoubiqu... -
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Basic information
Entry
Database: EMDB / ID: EMD-9783
Title
Cryo-EM structure of human DOT1L in complex with an H2B-monoubiquitinated nucleosome
Map data
The main map for the overall structure of human DOT1L-ubNCP complex
Sample
Complex: Human DOT1L in complex with an H2B-monoubiquitinated nucleosome
Protein or peptide: Histone H3
Protein or peptide: Histone H4
Protein or peptide: Histone H2A
Protein or peptide: Histone H2B 1.1
DNA: DNA (144-MER)
DNA: DNA (145-MER)
Protein or peptide: Ubiquitin
Protein or peptide: Histone-lysine N-methyltransferase, H3 lysine-79 specificHistone methyltransferase
Complex: Human DOT1L in complex with an H2B-monoubiquitinated nucleosome
Complex: Human DOT1L in complex with an H2B-monoubiquitinated nucleosome
Ligand: S-ADENOSYL-L-HOMOCYSTEINE
Function / homology
Function and homology information
[histone H3]-lysine79 N-trimethyltransferase / histone methyltransferase activity (H3-K79 specific) / regulation of transcription regulatory region DNA binding / histone H3-K79 methylation / Formation of the ternary complex, and subsequently, the 43S complex / regulation of receptor signaling pathway via JAK-STAT / Ribosomal scanning and start codon recognition / histone methyltransferase activity / Translation initiation complex formation / Peptide chain elongation ...[histone H3]-lysine79 N-trimethyltransferase / histone methyltransferase activity (H3-K79 specific) / regulation of transcription regulatory region DNA binding / histone H3-K79 methylation / Formation of the ternary complex, and subsequently, the 43S complex / regulation of receptor signaling pathway via JAK-STAT / Ribosomal scanning and start codon recognition / histone methyltransferase activity / Translation initiation complex formation / Peptide chain elongation / Selenocysteine synthesis / Formation of a pool of free 40S subunits / histone-lysine N-methyltransferase activity / SRP-dependent cotranslational protein targeting to membrane / Eukaryotic Translation Termination / Response of EIF2AK4 (GCN2) to amino acid deficiency / Viral mRNA Translation / GTP hydrolysis and joining of the 60S ribosomal subunit / Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC) / L13a-mediated translational silencing of Ceruloplasmin expression / Major pathway of rRNA processing in the nucleolus and cytosol / cytosolic ribosome / gene expression / subtelomeric heterochromatin assembly / Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC) / telomere organization / Maturation of protein E / Maturation of protein E / Myoclonic epilepsy of Lafora / ER Quality Control Compartment (ERQC) / Glycogen synthesis / FLT3 signaling by CBL mutants / Prevention of phagosomal-lysosomal fusion / IRAK2 mediated activation of TAK1 complex / Alpha-protein kinase 1 signaling pathway / Regulation of FZD by ubiquitination / IRAK1 recruits IKK complex upon TLR7/8 or 9 stimulation / IRAK1 recruits IKK complex / NOTCH2 Activation and Transmission of Signal to the Nucleus / TICAM1,TRAF6-dependent induction of TAK1 complex / Constitutive Signaling by NOTCH1 HD Domain Mutants / Negative regulation of FLT3 / Membrane binding and targetting of GAG proteins / TICAM1-dependent activation of IRF3/IRF7 / Endosomal Sorting Complex Required For Transport (ESCRT) / IRAK2 mediated activation of TAK1 complex upon TLR7/8 or 9 stimulation / PTK6 Regulates RTKs and Their Effectors AKT1 and DOK1 / Regulation of BACH1 activity / APC/C:Cdc20 mediated degradation of Cyclin B / Downregulation of ERBB4 signaling / Regulation of innate immune responses to cytosolic DNA / p75NTR recruits signalling complexes / TRAF6-mediated induction of TAK1 complex within TLR4 complex / TRAF6 mediated IRF7 activation in TLR7/8 or 9 signaling / PINK1-PRKN Mediated Mitophagy / APC-Cdc20 mediated degradation of Nek2A / Pexophagy / InlA-mediated entry of Listeria monocytogenes into host cells / Downregulation of ERBB2:ERBB3 signaling / Activated NOTCH1 Transmits Signal to the Nucleus / NRIF signals cell death from the nucleus / Translesion synthesis by REV1 / Regulation of PTEN localization / NF-kB is activated and signals survival / MAP3K8 (TPL2)-dependent MAPK1/3 activation / TICAM1, RIP1-mediated IKK complex recruitment / Translesion synthesis by POLK / Synthesis of active ubiquitin: roles of E1 and E2 enzymes / TGF-beta receptor signaling in EMT (epithelial to mesenchymal transition) / Gap-filling DNA repair synthesis and ligation in GG-NER / Activation of IRF3/IRF7 mediated by TBK1/IKK epsilon / Translesion synthesis by POLI / Josephin domain DUBs / Regulation of activated PAK-2p34 by proteasome mediated degradation / Downregulation of TGF-beta receptor signaling / IKK complex recruitment mediated by RIP1 / CDT1 association with the CDC6:ORC:origin complex / InlB-mediated entry of Listeria monocytogenes into host cell / N-glycan trimming in the ER and Calnexin/Calreticulin cycle / JNK (c-Jun kinases) phosphorylation and activation mediated by activated human TAK1 / Recognition of DNA damage by PCNA-containing replication complex / Autodegradation of Cdh1 by Cdh1:APC/C / Degradation of DVL / APC/C:Cdc20 mediated degradation of Securin / Asymmetric localization of PCP proteins / SCF-beta-TrCP mediated degradation of Emi1 / Downregulation of SMAD2/3:SMAD4 transcriptional activity / NIK-->noncanonical NF-kB signaling / TNFR1-induced NFkappaB signaling pathway / DNA damage checkpoint signaling / Ubiquitin-dependent degradation of Cyclin D / Regulation of TNFR1 signaling / TCF dependent signaling in response to WNT / Vpu mediated degradation of CD4 / AUF1 (hnRNP D0) binds and destabilizes mRNA / TNFR2 non-canonical NF-kB pathway / NOTCH3 Activation and Transmission of Signal to the Nucleus / DNA Damage Recognition in GG-NER / Vif-mediated degradation of APOBEC3G / Negative regulators of DDX58/IFIH1 signaling Similarity search - Function
Journal: Cell Res / Year: 2019 Title: Structural basis of the crosstalk between histone H2B monoubiquitination and H3 lysine 79 methylation on nucleosome. Authors: Tonghui Yao / Wei Jing / Zhiguo Hu / Ming Tan / Mi Cao / Qianmin Wang / Yan Li / Guiyong Yuan / Ming Lei / Jing Huang /
History
Deposition
Jan 22, 2019
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Header (metadata) release
Feb 27, 2019
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Map release
Feb 27, 2019
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Update
Apr 10, 2019
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Current status
Apr 10, 2019
Processing site: PDBj / Status: Released
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Structure visualization
Movie
Surface view with section colored by density value
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