6JXD
Human nucleosome core particle with cohesive end DNA termini
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000786 | cellular_component | nucleosome |
| A | 0003677 | molecular_function | DNA binding |
| A | 0030527 | molecular_function | structural constituent of chromatin |
| A | 0046982 | molecular_function | protein heterodimerization activity |
| B | 0003677 | molecular_function | DNA binding |
| B | 0030527 | molecular_function | structural constituent of chromatin |
| B | 0046982 | molecular_function | protein heterodimerization activity |
| C | 0000786 | cellular_component | nucleosome |
| C | 0003677 | molecular_function | DNA binding |
| C | 0030527 | molecular_function | structural constituent of chromatin |
| C | 0046982 | molecular_function | protein heterodimerization activity |
| D | 0000786 | cellular_component | nucleosome |
| D | 0003677 | molecular_function | DNA binding |
| D | 0030527 | molecular_function | structural constituent of chromatin |
| D | 0046982 | molecular_function | protein heterodimerization activity |
| E | 0000786 | cellular_component | nucleosome |
| E | 0003677 | molecular_function | DNA binding |
| E | 0030527 | molecular_function | structural constituent of chromatin |
| E | 0046982 | molecular_function | protein heterodimerization activity |
| F | 0003677 | molecular_function | DNA binding |
| F | 0030527 | molecular_function | structural constituent of chromatin |
| F | 0046982 | molecular_function | protein heterodimerization activity |
| G | 0000786 | cellular_component | nucleosome |
| G | 0003677 | molecular_function | DNA binding |
| G | 0030527 | molecular_function | structural constituent of chromatin |
| G | 0046982 | molecular_function | protein heterodimerization activity |
| H | 0000786 | cellular_component | nucleosome |
| H | 0003677 | molecular_function | DNA binding |
| H | 0030527 | molecular_function | structural constituent of chromatin |
| H | 0046982 | molecular_function | protein heterodimerization activity |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 1 |
| Details | binding site for residue MN A 201 |
| Chain | Residue |
| A | ASP81 |
| site_id | AC2 |
| Number of Residues | 6 |
| Details | binding site for residue MN E 201 |
| Chain | Residue |
| D | VAL45 |
| D | HOH202 |
| E | ASP77 |
| E | HOH301 |
| E | HOH305 |
| F | HOH202 |
| site_id | AC3 |
| Number of Residues | 1 |
| Details | binding site for residue MN I 101 |
| Chain | Residue |
| I | DG71 |
| site_id | AC4 |
| Number of Residues | 2 |
| Details | binding site for residue MN I 102 |
| Chain | Residue |
| I | DG63 |
| I | DG62 |
| site_id | AC5 |
| Number of Residues | 3 |
| Details | binding site for residue MN I 103 |
| Chain | Residue |
| I | DG-61 |
| I | HOH204 |
| I | HOH206 |
| site_id | AC6 |
| Number of Residues | 1 |
| Details | binding site for residue MN I 105 |
| Chain | Residue |
| I | DG27 |
| site_id | AC7 |
| Number of Residues | 1 |
| Details | binding site for residue MN I 106 |
| Chain | Residue |
| I | DG-34 |
| site_id | AC8 |
| Number of Residues | 2 |
| Details | binding site for residue MN J 101 |
| Chain | Residue |
| J | DC-71 |
| J | DA-70 |
| site_id | AC9 |
| Number of Residues | 1 |
| Details | binding site for residue MN J 102 |
| Chain | Residue |
| J | DA-34 |
| site_id | AD1 |
| Number of Residues | 1 |
| Details | binding site for residue MN J 103 |
| Chain | Residue |
| J | DG-61 |
| site_id | AD2 |
| Number of Residues | 2 |
| Details | binding site for residue MN J 104 |
| Chain | Residue |
| J | DG62 |
| J | HOH203 |
| site_id | AD3 |
| Number of Residues | 1 |
| Details | binding site for residue MN J 105 |
| Chain | Residue |
| J | DG27 |
| site_id | AD4 |
| Number of Residues | 1 |
| Details | binding site for residue MN J 109 |
| Chain | Residue |
| J | DG50 |
Functional Information from PROSITE/UniProt
| site_id | PS00046 |
| Number of Residues | 7 |
| Details | HISTONE_H2A Histone H2A signature. AGLqFPV |
| Chain | Residue | Details |
| C | ALA21-VAL27 | |
| G | ALA21-VAL27 |
| site_id | PS00959 |
| Number of Residues | 9 |
| Details | HISTONE_H3_2 Histone H3 signature 2. PFqRLVREI |
| Chain | Residue | Details |
| A | PRO66-ILE74 | |
| E | PRO66-ILE74 |
| site_id | PS00357 |
| Number of Residues | 23 |
| Details | HISTONE_H2B Histone H2B signature. REIQTavRlLLpGELaKHAVSEG |
| Chain | Residue | Details |
| D | ARG89-GLY111 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 1 |
| Details | MOD_RES: N6-(beta-hydroxybutyryl)lysine; alternate => ECO:0000269|PubMed:27105115 |
| Chain | Residue | Details |
| G | LYS13 | |
| D | LYS113 | |
| D | LYS117 | |
| H | LYS31 | |
| H | LYS113 | |
| H | LYS117 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 1 |
| Details | MOD_RES: N6-crotonyllysine; alternate => ECO:0000269|PubMed:21925322 |
| Chain | Residue | Details |
| G | LYS36 | |
| F | LYS44 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 2 |
| Details | MOD_RES: N6-(2-hydroxyisobutyryl)lysine => ECO:0000269|PubMed:24681537 |
| Chain | Residue | Details |
| G | LYS74 | |
| G | LYS75 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 1 |
| Details | MOD_RES: N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435 |
| Chain | Residue | Details |
| G | LYS95 | |
| F | LYS77 | |
| F | LYS91 | |
| H | LYS82 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 1 |
| Details | MOD_RES: N5-methylglutamine => ECO:0000269|PubMed:24352239 |
| Chain | Residue | Details |
| H | LYS43 | |
| H | LYS105 | |
| G | GLN104 | |
| D | LYS105 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 1 |
| Details | MOD_RES: N6-glutaryllysine; alternate => ECO:0000269|PubMed:31542297 |
| Chain | Residue | Details |
| G | LYS118 | |
| H | LYS54 |
| site_id | SWS_FT_FI7 |
| Number of Residues | 1 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000269|PubMed:22713238, ECO:0000269|PubMed:22980979 |
| Chain | Residue | Details |
| G | LYS13 | |
| H | ARG76 |
| site_id | SWS_FT_FI8 |
| Number of Residues | 2 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000269|PubMed:22713238, ECO:0000269|PubMed:22980979 |
| Chain | Residue | Details |
| H | ARG83 | |
| H | ARG89 | |
| F | LYS79 | |
| G | LYS15 |
| site_id | SWS_FT_FI9 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphothreonine => ECO:0000250|UniProtKB:P62806 |
| Chain | Residue | Details |
| H | THR112 | |
| F | THR80 |
| site_id | SWS_FT_FI10 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphotyrosine => ECO:0007744|PubMed:24275569 |
| Chain | Residue | Details |
| H | SER109 | |
| F | TYR88 |
| site_id | SWS_FT_FI11 |
| Number of Residues | 3 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate => ECO:0007744|PubMed:28112733 |
| Chain | Residue | Details |
| F | LYS59 | |
| F | LYS79 | |
| F | LYS20 |
| site_id | SWS_FT_FI12 |
| Number of Residues | 2 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000269|PubMed:19818714 |
| Chain | Residue | Details |
| H | LYS117 | |
| F | LYS91 |
| site_id | SWS_FT_FI13 |
| Number of Residues | 1 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in UFM1); alternate => ECO:0000269|PubMed:30886146 |
| Chain | Residue | Details |
| F | LYS31 |
