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8G86

Human oct4 bound to nucleosome with human nmatn1 sequence (focused refinement of nucleosome)

PDB DOI: 10.2210/pdb8g86/pdb

Classification: DNA BINDING PROTEIN/DNA
Organism(s): Xenopus Laevis , Xenopus Laevis Laevis , Synthetic Construct

Deposited: 2023-02-17
Deposition Author(s): Bilokapic, S. , Du, Y. , Halic, M. , Malik, D. , Sinha, K.K.

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.3 Å

8g86
Literature

Human oct4 bound to nucleosome with human nmatn1 sequence (focused refinement of nucleosome)

Bilokapic, S. , Du, Y. , Halic, M. , Malik, D. , Sinha, K.K.

Primary Citation of Related Structures: 8G86


Proteins
Molecule Chains Sequence Length Organism Sequence
Histone H3 A 135 Xenopus Laevis , Xenopus Laevis Laevis , Synthetic Construct ARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA
Histone H3 E 135 Xenopus Laevis , Xenopus Laevis Laevis , Synthetic Construct ARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVALFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA
Histone H4 B 102 Xenopus Laevis , Xenopus Laevis Laevis , Synthetic Construct SGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG
Histone H4 F 102 Xenopus Laevis , Xenopus Laevis Laevis , Synthetic Construct SGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG
Histone H2A C 129 Xenopus Laevis , Xenopus Laevis Laevis , Synthetic Construct SGRGKQGGKTRAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTESSKSAKSK
Histone H2A G 129 Xenopus Laevis , Xenopus Laevis Laevis , Synthetic Construct SGRGKQGGKTRAKAKTRSSRAGLQFPVGRVHRLLRKGNYAERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAVRNDEELNKLLGRVTIAQGGVLPNIQSVLLPKKTESSKSAKSK
Histone H2B D 122 Xenopus Laevis , Xenopus Laevis Laevis , Synthetic Construct AKSAPAPKKGSKKAVTKTQKKDGKKRRKTRKESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSAK
Histone H2B H 122 Xenopus Laevis , Xenopus Laevis Laevis , Synthetic Construct AKSAPAPKKGSKKAVTKTQKKDGKKRRKTRKESYAIYVYKVLKQVHPDTGISSKAMSIMNSFVNDVFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSAK

Nucleic Acids / Hybrid
Molecule Chains Sequence Length Organism Sequence
nMatn1 DNA (top stand) i 186 NA ACATGCACACATGCTAATATATGCACACAATGCACACAGGTTAATATATACACATACACACACATGCACACACACGTGCACACATATATGCACATGCATGCACACACGTATATGCACACACATGCACATGCATGCGCACATAGTCACACACATGCACACATTAGCATATGCATACACATACATGCA
nMatn1 DNA (bottom strand) j 186 NA TGCATGTATGTGTATGCATATGCTAATGTGTGCATGTGTGTGACTATGTGCGCATGCATGTGCATGTGTGTGCATATACGTGTGTGCATGCATGTGCATATATGTGTGCACGTGTGTGTGCATGTGTGTGTATGTGTATATATTAACCTGTGTGCATTGTGTGCATATATTAGCATGTGTGCATGT
Experimental Data

Method: ELECTRON MICROSCOPY

Deposited Date: 2023-02-17
Deposition Author(s): Bilokapic, S. , Du, Y. , Halic, M. , Malik, D. , Sinha, K.K.