8X7I
Cryo-em structures of rnf168/ubch5c-ub in complex with h2ak13ub nucleosomes determined by intein-based e2-ub-ncp conjugation strategy
PDB DOI: 10.2210/pdb8x7i/pdb
Classification: NUCLEAR PROTEIN/DNA Organism(s): Homo Sapiens
Deposited: 2023-11-24 Deposition Author(s): Ai, H.S. , Deng, Z.H. , Liu, L. , Pan, M. , Tong, Z.B.
Experimental Data Snapshot
Method: ELECTRON MICROSCOPY Resolution: 3.27 Å
Cryo-em structures of rnf168/ubch5c-ub in complex with h2ak13ub nucleosomes determined by intein-based e2-ub-ncp conjugation strategy
Ai, H.S. , Deng, Z.H. , Liu, L. , Pan, M. , Tong, Z.B.
Primary Citation of Related Structures: 8X7I
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| Histone H3.2 | A | 98 | Homo Sapiens | KPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLSAIHAKRVTIMPKDIQLARRIRGER |
| Histone H3.2 | E | 98 | Homo Sapiens | KPHRYRPGTVALREIRRYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVMALQEASEAYLVGLFEDTNLSAIHAKRVTIMPKDIQLARRIRGER |
| Ubiquitin | M | 76 | Homo Sapiens | MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGC |
| Histone H4 | B | 83 | Homo Sapiens | RKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFG |
| Histone H4 | F | 83 | Homo Sapiens | RKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFG |
| Histone H2A type 1-B/E | C | 111 | Homo Sapiens | ARAKACTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPKKT |
| Histone H2A type 1-B/E | G | 109 | Homo Sapiens | ARAKAKTRSSRAGLQFPVGRVHRLLRKGNYSERVGAGAPVYLAAVLEYLTAEILELAGNAARDNKKTRIIPRHLQLAIRNDEELNKLLGRVTIAQGGVLPNIQAVLLPK |
| Histone H2B type 1-K | D | 94 | Homo Sapiens | RSRKESYSVYVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSA |
| Histone H2B type 1-K | H | 94 | Homo Sapiens | RSRKESYSVYVYKVLKQVHPDTGISSKAMGIMNSFVNDIFERIAGEASRLAHYNKRSTITSREIQTAVRLLLPGELAKHAVSEGTKAVTKYTSA |
| Ubiquitin-conjugating enzyme E2 D3 | K | 147 | Homo Sapiens | MALKRINKELSDLARDPPAQSSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYPFKPPKVAFTTRIYHPNINSNGSICLDILRSQWSPALTISKVLLSISSLLSDPNPDDPLVPEIARIYKTDRDKYNRISREWTQKYAM |
| E3 ubiquitin-protein ligase RNF168 | L | 113 | Homo Sapiens | MALPKDAIPSLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLVNVELWTIIQKHYPRECKLRASGQESEEVADDYQPVRLLSKP |
| Nucleic Acids / Hybrid | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| DNA (147-MER) | i | 147 | NA | ACAGGATGTATATATCTGACACGTGCCTGGAGACTAGGGAGTAATCCCCTTGGCGGTTAAAACGCGGGGGACAGCGCGTACGTGCGTTTAAGCGGTGCTAGAGCTGTCTACGACCAATTGAGCGGCCTCGGCACCGGGATTCTCCAG |
| DNA (147-MER) | j | 147 | NA | CTGGAGAATCCCGGTGCCGAGGCCGCTCAATTGGTCGTAGACAGCTCTAGCACCGCTTAAACGCACGTACGCGCTGTCCCCCGCGTTTTAACCGCCAAGGGGATTACTCCCTAGTCTCCAGGCACGTGTCAGATATATACATCCTGT |
Experimental Data
Method: ELECTRON MICROSCOPY
Deposited Date: 2023-11-24 Deposition Author(s): Ai, H.S. , Deng, Z.H. , Liu, L. , Pan, M. , Tong, Z.B.