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8U5H

Cryo-em structure of human dnmt3a udr bound to h2ak119ub1-modified nucleosome

PDB DOI: 10.2210/pdb8u5h/pdb

Classification: STRUCTURAL PROTEIN/TRANSFERASE/DNA
Organism(s): Salmonella Enterica , Mucilaginibacter Paludis Dsm 18603

Deposited: 2023-09-12
Deposition Author(s): Chen, X. , Song, J.

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.23 Å

8u5h
Literature

Cryo-em structure of human dnmt3a udr bound to h2ak119ub1-modified nucleosome

Chen, X. , Song, J.

Primary Citation of Related Structures: 8U5H


Proteins
Molecule Chains Sequence Length Organism Sequence
DNA (cytosine-5)-methyltransferase 3A A 98 Salmonella Enterica , Mucilaginibacter Paludis Dsm 18603 PEASRAVENGCCTPKEGRGAPAEAGKEQKETNIESMKMEGSRGRLRGGLGWESSLRQRPMPRLTFQAGDPYYISKRKRDEWLARWKREAEKKAKVIAG
DNA (cytosine-5)-methyltransferase 3A B 98 Salmonella Enterica , Mucilaginibacter Paludis Dsm 18603 PEASRAVENGCCTPKEGRGAPAEAGKEQKETNIESMKMEGSRGRLRGGLGWESSLRQRPMPRLTFQAGDPYYISKRKRDEWLARWKREAEKKAKVIAG
Ubiquitin D 76 Salmonella Enterica , Mucilaginibacter Paludis Dsm 18603 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG
Histone H3.3C I 136 Salmonella Enterica , Mucilaginibacter Paludis Dsm 18603 MARTKQTARKSTGGKAPRKQLVTKAAKKCAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQRSAVMALQEASEAYLVALFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA
Histone H3.3C O 136 Salmonella Enterica , Mucilaginibacter Paludis Dsm 18603 MARTKQTARKSTGGKAPRKQLVTKAAKKCAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQRSAVMALQEASEAYLVALFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA
Histone H4 J 103 Salmonella Enterica , Mucilaginibacter Paludis Dsm 18603 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG
Histone H4 Q 103 Salmonella Enterica , Mucilaginibacter Paludis Dsm 18603 MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG
Histone H2A K 130 Salmonella Enterica , Mucilaginibacter Paludis Dsm 18603 MSGRGKQGGKTRAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKCTESSKSAKSK
Histone H2A R 130 Salmonella Enterica , Mucilaginibacter Paludis Dsm 18603 MSGRGKQGGKTRAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKCTESSKSAKSK
Histone H2B 1.1 M 123 Salmonella Enterica , Mucilaginibacter Paludis Dsm 18603 MAKSAPAPKKGSKKAVTKTQKKDGKKRRKTRKESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSAK
Histone H2B 1.1 S 123 Salmonella Enterica , Mucilaginibacter Paludis Dsm 18603 MAKSAPAPKKGSKKAVTKTQKKDGKKRRKTRKESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSAK

Nucleic Acids / Hybrid
Molecule Chains Sequence Length Organism Sequence
nucleosome DNA c 180 NA GCTCTCTACGTAAACATCCTGGAGAATCCCGGTGCCGAGGCCGCTCAATTGGTCGTAGACAGCTCTAGCACCGCTTAAACGCACGTACGCGCTGTCCCCCGCGTTTTAACCGCCAAGGGGATTACTCCCTAGTCTCCAGGCACGTGTCAGATATATACATCCTGTGACTTACCCACTTCG
nucleosome DNA h 180 NA CGAAGTGGGTAAGTCACAGGATGTATATATCTGACACGTGCCTGGAGACTAGGGAGTAATCCCCTTGGCGGTTAAAACGCGGGGGACAGCGCGTACGTGCGTTTAAGCGGTGCTAGAGCTGTCTACGACCAATTGAGCGGCCTCGGCACCGGGATTCTCCAGGATGTTTACGTAGAGAGC
Experimental Data

Method: ELECTRON MICROSCOPY

Deposited Date: 2023-09-12
Deposition Author(s): Chen, X. , Song, J.