8JLA
Cryo-EM structure of the human nucleosome lacking N-terminal region of H2A, H2B, H3, and H4
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 | 0005515 | molecular_function | protein binding |
C | 0005634 | cellular_component | nucleus |
C | 0005694 | cellular_component | chromosome |
C | 0006325 | biological_process | chromatin organization |
C | 0008285 | biological_process | negative regulation of cell population proliferation |
C | 0030527 | molecular_function | structural constituent of chromatin |
C | 0031492 | molecular_function | nucleosomal DNA binding |
C | 0031507 | biological_process | heterochromatin formation |
C | 0043229 | cellular_component | intracellular organelle |
C | 0043505 | cellular_component | CENP-A containing nucleosome |
C | 0046982 | molecular_function | protein heterodimerization activity |
C | 0061644 | biological_process | protein localization to CENP-A containing chromatin |
C | 0070062 | cellular_component | extracellular exosome |
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 | 0005515 | molecular_function | protein binding |
G | 0005634 | cellular_component | nucleus |
G | 0005694 | cellular_component | chromosome |
G | 0006325 | biological_process | chromatin organization |
G | 0008285 | biological_process | negative regulation of cell population proliferation |
G | 0030527 | molecular_function | structural constituent of chromatin |
G | 0031492 | molecular_function | nucleosomal DNA binding |
G | 0031507 | biological_process | heterochromatin formation |
G | 0043229 | cellular_component | intracellular organelle |
G | 0043505 | cellular_component | CENP-A containing nucleosome |
G | 0046982 | molecular_function | protein heterodimerization activity |
G | 0061644 | biological_process | protein localization to CENP-A containing chromatin |
G | 0070062 | cellular_component | extracellular exosome |
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 PROSITE/UniProt
site_id | PS00046 |
Number of Residues | 7 |
Details | HISTONE_H2A Histone H2A signature. AGLqFPV |
Chain | Residue | Details |
C | ALA21-VAL27 |
site_id | PS00357 |
Number of Residues | 23 |
Details | HISTONE_H2B Histone H2B signature. REIQTavRlLLpGELaKHAVSEG |
Chain | Residue | Details |
D | ARG92-GLY114 |
site_id | PS00959 |
Number of Residues | 9 |
Details | HISTONE_H3_2 Histone H3 signature 2. PFqRLVREI |
Chain | Residue | Details |
A | PRO66-ILE74 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 6 |
Details | MOD_RES: N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435 |
Chain | Residue | Details |
D | LYS34 | |
D | LYS116 | |
D | LYS120 | |
H | LYS34 | |
H | LYS116 | |
H | LYS120 |
site_id | SWS_FT_FI2 |
Number of Residues | 2 |
Details | MOD_RES: PolyADP-ribosyl glutamic acid => ECO:0000250|UniProtKB:Q64475 |
Chain | Residue | Details |
D | GLU35 | |
H | GLU35 | |
F | LYS16 | |
F | LYS44 |
site_id | SWS_FT_FI3 |
Number of Residues | 2 |
Details | MOD_RES: Phosphoserine; by AMPK => ECO:0000250|UniProtKB:Q64475 |
Chain | Residue | Details |
D | SER36 | |
H | SER36 | |
G | LYS74 | |
G | LYS75 |
site_id | SWS_FT_FI4 |
Number of Residues | 4 |
Details | MOD_RES: N6-lactoyllysine; alternate => ECO:0000269|PubMed:31645732 |
Chain | Residue | Details |
D | LYS43 | |
D | LYS85 | |
H | LYS43 | |
H | LYS85 | |
F | LYS77 | |
F | LYS91 |
site_id | SWS_FT_FI5 |
Number of Residues | 4 |
Details | MOD_RES: N6-methyllysine; alternate => ECO:0000269|PubMed:16627869 |
Chain | Residue | Details |
D | LYS46 | |
D | LYS108 | |
H | LYS46 | |
H | LYS108 |
site_id | SWS_FT_FI6 |
Number of Residues | 2 |
Details | MOD_RES: N6-(2-hydroxyisobutyryl)lysine; alternate => ECO:0000269|PubMed:24681537 |
Chain | Residue | Details |
D | LYS57 | |
H | LYS57 | |
C | LYS125 | |
G | LYS118 | |
G | LYS119 | |
G | LYS125 |
site_id | SWS_FT_FI7 |
Number of Residues | 2 |
Details | MOD_RES: Dimethylated arginine => ECO:0000250|UniProtKB:Q96A08 |
Chain | Residue | Details |
D | ARG79 | |
H | ARG79 |
site_id | SWS_FT_FI8 |
Number of Residues | 4 |
Details | MOD_RES: Omega-N-methylarginine => ECO:0000250|UniProtKB:Q96A08 |
Chain | Residue | Details |
D | ARG86 | |
D | ARG92 | |
H | ARG86 | |
H | ARG92 |
site_id | SWS_FT_FI9 |
Number of Residues | 2 |
Details | MOD_RES: Phosphothreonine => ECO:0000250|UniProtKB:Q00729 |
Chain | Residue | Details |
D | THR115 | |
H | THR115 | |
G | LYS119 |
site_id | SWS_FT_FI10 |
Number of Residues | 2 |
Details | CARBOHYD: O-linked (GlcNAc) serine => ECO:0000250|UniProtKB:P62807 |
Chain | Residue | Details |
D | SER112 | |
H | SER112 |
site_id | SWS_FT_FI11 |
Number of Residues | 2 |
Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000269|PubMed:21726816 |
Chain | Residue | Details |
D | LYS34 | |
H | LYS34 | |
B | LYS79 | |
F | LYS20 | |
F | LYS59 | |
F | LYS79 |
site_id | SWS_FT_FI12 |
Number of Residues | 4 |
Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000269|PubMed:16307923, ECO:0000269|PubMed:16627869, ECO:0000269|PubMed:16713563 |
Chain | Residue | Details |
A | LYS115 | |
D | LYS120 | |
H | LYS120 |
site_id | SWS_FT_FI13 |
Number of Residues | 2 |
Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in UFM1); alternate => ECO:0000269|PubMed:30886146 |
Chain | Residue | Details |
B | LYS31 | |
F | LYS31 |