6PWW
Cryo-EM structure of MLL1 in complex with RbBP5 and WDR5 bound to the nucleosome
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| A | 0000976 | molecular_function | transcription cis-regulatory region binding |
| A | 0005515 | molecular_function | protein binding |
| A | 0005634 | cellular_component | nucleus |
| A | 0005654 | cellular_component | nucleoplasm |
| A | 0005730 | cellular_component | nucleolus |
| A | 0006325 | biological_process | chromatin organization |
| A | 0006974 | biological_process | DNA damage response |
| A | 0035097 | cellular_component | histone methyltransferase complex |
| A | 0042393 | molecular_function | histone binding |
| A | 0043627 | biological_process | response to estrogen |
| A | 0044665 | cellular_component | MLL1/2 complex |
| A | 0044666 | cellular_component | MLL3/4 complex |
| A | 0045815 | biological_process | transcription initiation-coupled chromatin remodeling |
| A | 0048188 | cellular_component | Set1C/COMPASS complex |
| A | 0071339 | cellular_component | MLL1 complex |
| B | 0000122 | biological_process | negative regulation of transcription by RNA polymerase II |
| B | 0000123 | cellular_component | histone acetyltransferase complex |
| B | 0001501 | biological_process | skeletal system development |
| B | 0005515 | molecular_function | protein binding |
| B | 0005634 | cellular_component | nucleus |
| B | 0005654 | cellular_component | nucleoplasm |
| B | 0006094 | biological_process | gluconeogenesis |
| B | 0006325 | biological_process | chromatin organization |
| B | 0006355 | biological_process | regulation of DNA-templated transcription |
| B | 0006357 | biological_process | regulation of transcription by RNA polymerase II |
| B | 0035064 | molecular_function | methylated histone binding |
| B | 0035097 | cellular_component | histone methyltransferase complex |
| B | 0042393 | molecular_function | histone binding |
| B | 0042800 | molecular_function | histone H3K4 methyltransferase activity |
| B | 0044545 | cellular_component | NSL complex |
| B | 0044665 | cellular_component | MLL1/2 complex |
| B | 0044666 | cellular_component | MLL3/4 complex |
| B | 0045722 | biological_process | positive regulation of gluconeogenesis |
| B | 0045815 | biological_process | transcription initiation-coupled chromatin remodeling |
| B | 0045893 | biological_process | positive regulation of DNA-templated transcription |
| B | 0045995 | biological_process | regulation of embryonic development |
| B | 0048188 | cellular_component | Set1C/COMPASS complex |
| B | 0051302 | biological_process | regulation of cell division |
| B | 0051726 | biological_process | regulation of cell cycle |
| B | 0071339 | cellular_component | MLL1 complex |
| B | 0072686 | cellular_component | mitotic spindle |
| B | 0090043 | biological_process | regulation of tubulin deacetylation |
| B | 0140672 | cellular_component | ATAC complex |
| G | 0000786 | cellular_component | nucleosome |
| G | 0003677 | molecular_function | DNA binding |
| G | 0005515 | molecular_function | protein binding |
| G | 0005634 | cellular_component | nucleus |
| G | 0005654 | cellular_component | nucleoplasm |
| G | 0005694 | cellular_component | chromosome |
| 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 | 0005515 | molecular_function | protein binding |
| H | 0005634 | cellular_component | nucleus |
| H | 0005694 | cellular_component | chromosome |
| H | 0006334 | biological_process | nucleosome assembly |
| H | 0030527 | molecular_function | structural constituent of chromatin |
| H | 0046982 | molecular_function | protein heterodimerization activity |
| I | 0000786 | cellular_component | nucleosome |
| I | 0003677 | molecular_function | DNA binding |
| I | 0005634 | cellular_component | nucleus |
| I | 0005694 | cellular_component | chromosome |
| I | 0030527 | molecular_function | structural constituent of chromatin |
| I | 0046982 | molecular_function | protein heterodimerization activity |
| J | 0000786 | cellular_component | nucleosome |
| J | 0003677 | molecular_function | DNA binding |
| J | 0005515 | molecular_function | protein binding |
| J | 0005634 | cellular_component | nucleus |
| J | 0005694 | cellular_component | chromosome |
| J | 0030527 | molecular_function | structural constituent of chromatin |
| J | 0046982 | molecular_function | protein heterodimerization activity |
| K | 0000786 | cellular_component | nucleosome |
| K | 0003677 | molecular_function | DNA binding |
| K | 0005515 | molecular_function | protein binding |
| K | 0005634 | cellular_component | nucleus |
| K | 0005654 | cellular_component | nucleoplasm |
| K | 0005694 | cellular_component | chromosome |
| K | 0030527 | molecular_function | structural constituent of chromatin |
| K | 0046982 | molecular_function | protein heterodimerization activity |
| L | 0000786 | cellular_component | nucleosome |
| L | 0003677 | molecular_function | DNA binding |
| L | 0005515 | molecular_function | protein binding |
| L | 0005634 | cellular_component | nucleus |
| L | 0005694 | cellular_component | chromosome |
| L | 0006334 | biological_process | nucleosome assembly |
| L | 0030527 | molecular_function | structural constituent of chromatin |
| L | 0046982 | molecular_function | protein heterodimerization activity |
| M | 0000786 | cellular_component | nucleosome |
| M | 0003677 | molecular_function | DNA binding |
| M | 0005634 | cellular_component | nucleus |
| M | 0005694 | cellular_component | chromosome |
| M | 0030527 | molecular_function | structural constituent of chromatin |
| M | 0046982 | molecular_function | protein heterodimerization activity |
| N | 0000786 | cellular_component | nucleosome |
| N | 0003677 | molecular_function | DNA binding |
| N | 0005515 | molecular_function | protein binding |
| N | 0005634 | cellular_component | nucleus |
| N | 0005694 | cellular_component | chromosome |
| N | 0030527 | molecular_function | structural constituent of chromatin |
| N | 0046982 | molecular_function | protein heterodimerization activity |
Functional Information from PDB Data
| site_id | AC1 |
| Number of Residues | 16 |
| Details | binding site for residue SAH C 4001 |
| Chain | Residue |
| C | ILE3838 |
| C | HIS3907 |
| C | TYR3944 |
| C | LEU3955 |
| C | PRO3956 |
| C | CYS3957 |
| C | ASN3958 |
| C | LEU3968 |
| C | HIS3839 |
| C | GLY3840 |
| C | ARG3841 |
| C | TYR3883 |
| C | ARG3903 |
| C | PHE3904 |
| C | ILE3905 |
| C | ASN3906 |
| site_id | AC2 |
| Number of Residues | 5 |
| Details | binding site for residue ZN C 4002 |
| Chain | Residue |
| C | SER3908 |
| C | CYS3909 |
| C | CYS3957 |
| C | CYS3959 |
| C | CYS3964 |
Functional Information from PROSITE/UniProt
| site_id | PS00046 |
| Number of Residues | 7 |
| Details | HISTONE_H2A Histone H2A signature. AGLqFPV |
| Chain | Residue | Details |
| I | ALA21-VAL27 |
| site_id | PS00047 |
| Number of Residues | 5 |
| Details | HISTONE_H4 Histone H4 signature. GAKRH |
| Chain | Residue | Details |
| H | GLY14-HIS18 |
| site_id | PS00322 |
| Number of Residues | 7 |
| Details | HISTONE_H3_1 Histone H3 signature 1. KAPRKQL |
| Chain | Residue | Details |
| G | LYS14-LEU20 |
| site_id | PS00357 |
| Number of Residues | 23 |
| Details | HISTONE_H2B Histone H2B signature. REIQTavRlLLpGELaKHAVSEG |
| Chain | Residue | Details |
| J | ARG89-GLY111 |
| site_id | PS00678 |
| Number of Residues | 15 |
| Details | WD_REPEATS_1 Trp-Asp (WD) repeats signature. LVSAsdDkTLKIWDV |
| Chain | Residue | Details |
| B | LEU102-VAL116 | |
| B | ILE144-VAL158 | |
| B | ILE186-THR200 | |
| B | ILE274-LEU288 |
| site_id | PS00959 |
| Number of Residues | 9 |
| Details | HISTONE_H3_2 Histone H3 signature 2. PFqRLVREI |
| Chain | Residue | Details |
| G | PRO66-ILE74 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 8 |
| Details | MOD_RES: N6-acetyllysine => ECO:0000250|UniProtKB:P0C1H4 |
| Chain | Residue | Details |
| J | LYS2 | |
| J | LYS9 | |
| J | LYS12 | |
| J | LYS17 | |
| N | LYS2 | |
| N | LYS9 | |
| N | LYS12 | |
| N | LYS17 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 2 |
| Details | MOD_RES: Phosphoserine => ECO:0000269|PubMed:12757711 |
| Chain | Residue | Details |
| J | SER11 | |
| N | SER11 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 2 |
| Details | CARBOHYD: O-linked (GlcNAc) serine => ECO:0000250|UniProtKB:P62807 |
| Chain | Residue | Details |
| J | SER109 | |
| N | SER109 | |
| M | LYS9 | |
| M | LYS95 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 4 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000250|UniProtKB:P0C1H4 |
| Chain | Residue | Details |
| J | LYS117 | |
| M | LYS36 | |
| N | LYS117 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 4 |
| Details | MOD_RES: N6-(2-hydroxyisobutyryl)lysine => ECO:0000250|UniProtKB:P0C0S8 |
| Chain | Residue | Details |
| I | LYS74 | |
| I | LYS75 | |
| M | LYS74 | |
| M | LYS75 | |
| L | LYS8 | |
| L | LYS16 | |
| L | LYS44 | |
| L | LYS79 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 2 |
| Details | MOD_RES: N5-methylglutamine => ECO:0000250 |
| Chain | Residue | Details |
| I | GLN104 | |
| M | GLN104 | |
| L | LYS12 | |
| L | LYS20 |
| site_id | SWS_FT_FI7 |
| Number of Residues | 2 |
| Details | MOD_RES: N6-glutaryllysine; alternate => ECO:0000250|UniProtKB:P0C0S8 |
| Chain | Residue | Details |
| I | LYS118 | |
| M | LYS118 | |
| L | LYS31 | |
| L | LYS91 |
| site_id | SWS_FT_FI8 |
| Number of Residues | 8 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0000250 |
| Chain | Residue | Details |
| I | LYS13 | |
| L | SER47 | |
| I | LYS15 | |
| I | LYS119 | |
| M | LYS13 | |
| M | LYS15 | |
| M | LYS119 |
| site_id | SWS_FT_FI9 |
| Number of Residues | 4 |
| Details | MOD_RES: Phosphotyrosine => ECO:0000250|UniProtKB:P62805 |
| Chain | Residue | Details |
| H | TYR51 | |
| H | TYR88 | |
| L | TYR51 | |
| L | TYR88 |
| site_id | SWS_FT_FI10 |
| Number of Residues | 2 |
| Details | MOD_RES: N6-glutaryllysine; alternate => ECO:0000250|UniProtKB:P62805 |
| Chain | Residue | Details |
| H | LYS59 | |
| K | LYS64 | |
| L | LYS59 | |
| G | LYS27 | |
| G | LYS36 | |
| G | LYS64 | |
| K | LYS18 | |
| K | LYS23 | |
| K | LYS27 | |
| K | LYS36 |
| site_id | SWS_FT_FI11 |
| Number of Residues | 2 |
| Details | MOD_RES: N6-succinyllysine => ECO:0000250|UniProtKB:P62805 |
| Chain | Residue | Details |
| H | LYS77 | |
| L | LYS77 |
| site_id | SWS_FT_FI12 |
| Number of Residues | 2 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in UFM1); alternate => ECO:0000250|UniProtKB:P62805 |
| Chain | Residue | Details |
| H | LYS31 | |
| L | LYS31 |
| site_id | SWS_FT_FI13 |
| Number of Residues | 4 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate => ECO:0000250|UniProtKB:P62805 |
| Chain | Residue | Details |
| G | LYS37 | |
| H | LYS91 | |
| L | LYS91 |
| site_id | SWS_FT_FI14 |
| Number of Residues | 2 |
| Details | MOD_RES: Phosphotyrosine => ECO:0000250|UniProtKB:Q71DI3 |
| Chain | Residue | Details |
| G | TYR41 | |
| K | TYR41 |
| site_id | SWS_FT_FI15 |
| Number of Residues | 4 |
| Details | MOD_RES: N6-succinyllysine; alternate => ECO:0000250|UniProtKB:P84228 |
| Chain | Residue | Details |
| G | LYS56 | |
| G | LYS79 | |
| K | LYS56 | |
| K | LYS79 |
| site_id | SWS_FT_FI16 |
| Number of Residues | 2 |
| Details | MOD_RES: Phosphoserine => ECO:0000250|UniProtKB:Q71DI3 |
| Chain | Residue | Details |
| G | SER57 | |
| K | SER57 |
| site_id | SWS_FT_FI17 |
| Number of Residues | 4 |
| Details | MOD_RES: Phosphothreonine => ECO:0000250|UniProtKB:Q71DI3 |
| Chain | Residue | Details |
| G | THR80 | |
| G | THR107 | |
| K | THR80 | |
| K | THR107 |
| site_id | SWS_FT_FI18 |
| Number of Residues | 2 |
| Details | MOD_RES: Phosphoserine => ECO:0000250|UniProtKB:P84243 |
| Chain | Residue | Details |
| G | SER86 | |
| K | SER86 |
| site_id | SWS_FT_FI19 |
| Number of Residues | 2 |
| Details | MOD_RES: N6-glutaryllysine; alternate => ECO:0000250|UniProtKB:Q71DI3 |
| Chain | Residue | Details |
| G | LYS115 | |
| K | LYS115 |
| site_id | SWS_FT_FI20 |
| Number of Residues | 2 |
| Details | MOD_RES: N6-succinyllysine; alternate => ECO:0000250|UniProtKB:Q71DI3 |
| Chain | Residue | Details |
| G | LYS122 | |
| K | LYS122 |
| site_id | SWS_FT_FI21 |
| Number of Residues | 2 |
| Details | LIPID: S-palmitoyl cysteine => ECO:0000250|UniProtKB:Q71DI3 |
| Chain | Residue | Details |
| G | CYS110 | |
| K | CYS110 |
