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7UX9

Arabidopsis ddm1 bound to nucleosome (h2a.w, h2b, h3.3, h4, with 147 bp dna)

PDB DOI: 10.2210/pdb7ux9/pdb

Classification: GENE REGULATION
Organism(s): Arabidopsis Thaliana , Xenopus Laevis , Synthetic Construct

Deposited: 2022-05-05
Deposition Author(s): Adams, D.W. , Ipsaro, J.J. , Joshua-Tor, L.

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.2 Å

7ux9
Literature

Arabidopsis ddm1 bound to nucleosome (h2a.w, h2b, h3.3, h4, with 147 bp dna)

Adams, D.W. , Ipsaro, J.J. , Joshua-Tor, L.

Primary Citation of Related Structures: 7UX9


Proteins
Molecule Chains Sequence Length Organism Sequence
Probable histone H2A.7 A 150 Arabidopsis Thaliana , Xenopus Laevis , Synthetic Construct MESTGKVKKAFGGRKPPGAPKTKSVSKSMKAGLQFPVGRITRFLKKGRYAQRLGGGAPVYMAAVLEYLAAEVLELAGNAARDNKKSRIIPRHLLLAIRNDEELGKLLSGVTIAHGGVLPNINSVLLPKKSATKPAEEKATKSPVKSPKKA
Probable histone H2A.7 B 150 Arabidopsis Thaliana , Xenopus Laevis , Synthetic Construct MESTGKVKKAFGGRKPPGAPKTKSVSKSMKAGLQFPVGRITRFLKKGRYAQRLGGGAPVYMAAVLEYLAAEVLELAGNAARDNKKSRIIPRHLLLAIRNDEELGKLLSGVTIAHGGVLPNINSVLLPKKSATKPAEEKATKSPVKSPKKA
Histone H2B C 150 Arabidopsis Thaliana , Xenopus Laevis , Synthetic Construct MAPRAEKKPAEKKPAAEKPVEEKSKAEKAPAEKKPKAGKKLPKEAGAGGDKKKKMKKKSVETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLASESSKLARYNKKPTITSREIQTAVRLVLPGELAKHAVSEGTKAVTKFTSS
Histone H2B D 150 Arabidopsis Thaliana , Xenopus Laevis , Synthetic Construct MAPRAEKKPAEKKPAAEKPVEEKSKAEKAPAEKKPKAGKKLPKEAGAGGDKKKKMKKKSVETYKIYIFKVLKQVHPDIGISSKAMGIMNSFINDIFEKLASESSKLARYNKKPTITSREIQTAVRLVLPGELAKHAVSEGTKAVTKFTSS
Histone H3.3 E 136 Arabidopsis Thaliana , Xenopus Laevis , Synthetic Construct MARTKQTARKSTGGKAPRKQLATKAARKSAPTTGGVKKPHRYRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSHAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA
Histone H3.3 F 136 Arabidopsis Thaliana , Xenopus Laevis , Synthetic Construct MARTKQTARKSTGGKAPRKQLATKAARKSAPTTGGVKKPHRYRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSHAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA
Histone H4 G 103 Arabidopsis Thaliana , Xenopus Laevis , Synthetic Construct MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG
Histone H4 H 103 Arabidopsis Thaliana , Xenopus Laevis , Synthetic Construct MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG
ATP-dependent DNA helicase DDM1 P 764 Arabidopsis Thaliana , Xenopus Laevis , Synthetic Construct MVSLRSRKVIPASEMVSDGKTEKDASGDSPTSVLNEEENCEEKSVTVVEEEILLAKNGDSSLISEAMAQEEEQLLKLREDEEKANNAGSAVAPNLNETQFTKLDELLTQTQLYSEFLLEKMEDITINGIESESQKAEPEKTGRGRKRKAASQYNNTKAKRAVAAMISRSKEDGETINSDLTEEETVIKLQNELCPLLTGGQLKSYQLKGVKWLISLWQNGLNGILADQMGLGKTIQTIGFLSHLKGNGLDGPYLVIAPLSTLSNWFNEIARFTPSINAIIYHGDKNQRDELRRKHMPKTVGPKFPIVITSYEVAMNDAKRILRHYPWKYVVIDEGHRLKNHKCKLLRELKHLKMDNKLLLTGTPLQNNLSELWSLLNFILPDIFTSHDEFESWFDFSEKNKNEATKEEEEKRRAQVVSKLHGILRPFILRRMKCDVELSLPRKKEIIMYATMTDHQKKFQEHLVNNTLEAHLGENAIRGQGWKGKLNNLVIQLRKNCNHPDLLQGQIDGSYLYPPVEEIVGQCGKFRLLERLLVRLFANNHKVLIFSQWTKLLDIMDYYFSEKGFEVCRIDGSVKLDERRRQIKDFSDEKSSCSIFLLSTRAGGLGINLTAADTCILYDSDWNPQMDLQAMDRCHRIGQTKPVHVYRLSTAQSIETRVLKRAYSKLKLEHVVIGQGQFHQERAKSSTPLEEEDILALLKEDETAEDKLIQTDISDADLDRLLDRSDLTITAPGETQAAEAFPVKGPGWEVVLPSSGGMLSSLNS

Nucleic Acids / Hybrid
Molecule Chains Sequence Length Organism Sequence
DNA (sense strand) y 147 NA CTGGAGAATCCCGGTGCCGAGGCCGCTCAATTGGTCGTAGACAGCTCTAGCACCGCTTAAACGCACGTACGCGCTGTCCCCCGCGTTTTAACCGCCAAGGGGATTACTCCCTAGTCTCCAGGCACGTGTCACATATATACATCCTGT
DNA (antisense strand) z 147 NA ACAGGATGTATATATGTGACACGTGCCTGGAGACTAGGGAGTAATCCCCTTGGCGGTTAAAACGCGGGGGACAGCGCGTACGTGCGTTTAAGCGGTGCTAGAGCTGTCTACGACCAATTGAGCGGCCTCGGCACCGGGATTCTCCAG
Experimental Data

Method: ELECTRON MICROSCOPY

Deposited Date: 2022-05-05
Deposition Author(s): Adams, D.W. , Ipsaro, J.J. , Joshua-Tor, L.