7Y5U
Cryo-EM structure of the monomeric human CAF1LC-H3-H4 complex
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| B | 0006335 | biological_process | DNA replication-dependent chromatin assembly |
| C | 0000118 | cellular_component | histone deacetylase complex |
| C | 0000122 | biological_process | negative regulation of transcription by RNA polymerase II |
| C | 0000781 | cellular_component | chromosome, telomeric region |
| C | 0000785 | cellular_component | chromatin |
| C | 0000978 | molecular_function | RNA polymerase II cis-regulatory region sequence-specific DNA binding |
| C | 0005515 | molecular_function | protein binding |
| C | 0005634 | cellular_component | nucleus |
| C | 0005654 | cellular_component | nucleoplasm |
| C | 0005694 | cellular_component | chromosome |
| C | 0005829 | cellular_component | cytosol |
| C | 0006260 | biological_process | DNA replication |
| C | 0006325 | biological_process | chromatin organization |
| C | 0006334 | biological_process | nucleosome assembly |
| C | 0006335 | biological_process | DNA replication-dependent chromatin assembly |
| C | 0006338 | biological_process | chromatin remodeling |
| C | 0006355 | biological_process | regulation of DNA-templated transcription |
| C | 0007420 | biological_process | brain development |
| C | 0008094 | molecular_function | ATP-dependent activity, acting on DNA |
| C | 0008285 | biological_process | negative regulation of cell population proliferation |
| C | 0016581 | cellular_component | NuRD complex |
| C | 0016589 | cellular_component | NURF complex |
| C | 0030336 | biological_process | negative regulation of cell migration |
| C | 0030512 | biological_process | negative regulation of transforming growth factor beta receptor signaling pathway |
| C | 0031492 | molecular_function | nucleosomal DNA binding |
| C | 0032991 | cellular_component | protein-containing complex |
| C | 0033186 | cellular_component | CAF-1 complex |
| C | 0035098 | cellular_component | ESC/E(Z) complex |
| C | 0042393 | molecular_function | histone binding |
| C | 0042659 | biological_process | regulation of cell fate specification |
| C | 0042826 | molecular_function | histone deacetylase binding |
| C | 0045892 | biological_process | negative regulation of DNA-templated transcription |
| C | 0045893 | biological_process | positive regulation of DNA-templated transcription |
| C | 0070822 | cellular_component | Sin3-type complex |
| C | 1902455 | biological_process | negative regulation of stem cell population maintenance |
| C | 1902459 | biological_process | positive regulation of stem cell population maintenance |
| C | 1904949 | cellular_component | ATPase complex |
| C | 2000736 | biological_process | regulation of stem cell differentiation |
| D | 0000786 | cellular_component | nucleosome |
| D | 0003677 | molecular_function | DNA binding |
| D | 0005515 | molecular_function | protein binding |
| D | 0005576 | cellular_component | extracellular region |
| D | 0005634 | cellular_component | nucleus |
| D | 0005654 | cellular_component | nucleoplasm |
| D | 0005694 | cellular_component | chromosome |
| D | 0006325 | biological_process | chromatin organization |
| D | 0006334 | biological_process | nucleosome assembly |
| D | 0010467 | biological_process | gene expression |
| D | 0016020 | cellular_component | membrane |
| D | 0030527 | molecular_function | structural constituent of chromatin |
| D | 0032200 | biological_process | telomere organization |
| D | 0032991 | cellular_component | protein-containing complex |
| D | 0040029 | biological_process | epigenetic regulation of gene expression |
| D | 0043229 | cellular_component | intracellular organelle |
| D | 0045296 | molecular_function | cadherin binding |
| D | 0046982 | molecular_function | protein heterodimerization activity |
| D | 0070062 | cellular_component | extracellular exosome |
| E | 0000781 | cellular_component | chromosome, telomeric region |
| E | 0000786 | cellular_component | nucleosome |
| E | 0003677 | molecular_function | DNA binding |
| E | 0003723 | molecular_function | RNA binding |
| E | 0005515 | molecular_function | protein binding |
| E | 0005576 | cellular_component | extracellular region |
| E | 0005634 | cellular_component | nucleus |
| E | 0005654 | cellular_component | nucleoplasm |
| E | 0005694 | cellular_component | chromosome |
| E | 0006325 | biological_process | chromatin organization |
| E | 0006334 | biological_process | nucleosome assembly |
| E | 0016020 | cellular_component | membrane |
| E | 0030527 | molecular_function | structural constituent of chromatin |
| E | 0032200 | biological_process | telomere organization |
| E | 0032991 | cellular_component | protein-containing complex |
| E | 0043505 | cellular_component | CENP-A containing nucleosome |
| E | 0045653 | biological_process | negative regulation of megakaryocyte differentiation |
| E | 0046982 | molecular_function | protein heterodimerization activity |
| E | 0061644 | biological_process | protein localization to CENP-A containing chromatin |
| E | 0070062 | cellular_component | extracellular exosome |
Functional Information from PROSITE/UniProt
| site_id | PS00047 |
| Number of Residues | 5 |
| Details | HISTONE_H4 Histone H4 signature. GAKRH |
| Chain | Residue | Details |
| E | GLY14-HIS18 |
| site_id | PS00322 |
| Number of Residues | 7 |
| Details | HISTONE_H3_1 Histone H3 signature 1. KAPRKQL |
| Chain | Residue | Details |
| D | LYS14-LEU20 |
| site_id | PS00678 |
| Number of Residues | 15 |
| Details | WD_REPEATS_1 Trp-Asp (WD) repeats signature. MASAsvDnTAIIWDV |
| Chain | Residue | Details |
| B | MET144-VAL158 | |
| C | LEU193-ILE207 | |
| C | LEU289-LEU303 | |
| C | LEU333-LEU347 |
| site_id | PS00959 |
| Number of Residues | 9 |
| Details | HISTONE_H3_2 Histone H3 signature 2. PFqRLVREI |
| Chain | Residue | Details |
| D | PRO66-ILE74 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphothreonine => ECO:0007744|PubMed:23186163 |
| Chain | Residue | Details |
| B | THR394 |
| site_id | SWS_FT_FI2 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphoserine => ECO:0007744|PubMed:20068231 |
| Chain | Residue | Details |
| B | SER409 |
| site_id | SWS_FT_FI3 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphothreonine => ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:23186163 |
| Chain | Residue | Details |
| B | THR419 |
| site_id | SWS_FT_FI4 |
| Number of Residues | 1 |
| Details | MOD_RES: N6-acetyllysine; alternate => ECO:0000250|UniProtKB:Q60972 |
| Chain | Residue | Details |
| C | LYS160 |
| site_id | SWS_FT_FI5 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphoserine => ECO:0007744|PubMed:23186163 |
| Chain | Residue | Details |
| C | SER355 | |
| E | LYS16 | |
| E | LYS44 |
| site_id | SWS_FT_FI6 |
| Number of Residues | 1 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate |
| Chain | Residue | Details |
| C | LYS4 | |
| E | LYS31 | |
| E | LYS77 | |
| E | LYS91 |
| site_id | SWS_FT_FI7 |
| Number of Residues | 2 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate => ECO:0007744|PubMed:25755297, ECO:0007744|PubMed:28112733 |
| Chain | Residue | Details |
| E | LYS20 | |
| C | LYS160 |
| site_id | SWS_FT_FI8 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphoserine; by PAK2 => ECO:0000269|PubMed:21724829, ECO:0007744|PubMed:17081983, ECO:0007744|PubMed:18669648, ECO:0007744|PubMed:19690332, ECO:0007744|PubMed:20068231, ECO:0007744|PubMed:21406692, ECO:0007744|PubMed:23186163, ECO:0007744|PubMed:24275569 |
| Chain | Residue | Details |
| E | SER47 |
| site_id | SWS_FT_FI9 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphotyrosine => ECO:0007744|PubMed:15592455, ECO:0007744|PubMed:20068231 |
| Chain | Residue | Details |
| E | TYR51 |
| site_id | SWS_FT_FI10 |
| Number of Residues | 1 |
| Details | MOD_RES: N6-glutaryllysine; alternate => ECO:0000269|PubMed:31542297 |
| Chain | Residue | Details |
| E | LYS59 | |
| D | LYS56 |
| site_id | SWS_FT_FI11 |
| Number of Residues | 1 |
| Details | MOD_RES: N6-succinyllysine; alternate => ECO:0000250|UniProtKB:P62806 |
| Chain | Residue | Details |
| E | LYS79 |
| site_id | SWS_FT_FI12 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphothreonine => ECO:0000250|UniProtKB:P62806 |
| Chain | Residue | Details |
| E | THR80 | |
| D | LYS64 |
| site_id | SWS_FT_FI13 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphotyrosine => ECO:0007744|PubMed:24275569 |
| Chain | Residue | Details |
| E | TYR88 |
| site_id | SWS_FT_FI14 |
| Number of Residues | 1 |
| Details | CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate => ECO:0007744|PubMed:25218447 |
| Chain | Residue | Details |
| E | LYS12 |
| site_id | SWS_FT_FI15 |
| 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 |
| D | LYS27 | |
| E | LYS91 |
| site_id | SWS_FT_FI16 |
| 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 |
| E | LYS20 | |
| E | LYS59 | |
| E | LYS79 |
| site_id | SWS_FT_FI17 |
| 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 |
| E | LYS31 |
| site_id | SWS_FT_FI18 |
| Number of Residues | 1 |
| Details | MOD_RES: N6-methyllysine => ECO:0000269|PubMed:15983376 |
| Chain | Residue | Details |
| D | LYS37 |
| site_id | SWS_FT_FI19 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphotyrosine => ECO:0000269|PubMed:19783980 |
| Chain | Residue | Details |
| D | TYR41 |
| site_id | SWS_FT_FI20 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphoserine => ECO:0000269|PubMed:20850016 |
| Chain | Residue | Details |
| D | SER57 |
| site_id | SWS_FT_FI21 |
| Number of Residues | 1 |
| Details | MOD_RES: N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435, ECO:0000269|PubMed:29211711 |
| Chain | Residue | Details |
| D | LYS79 |
| site_id | SWS_FT_FI22 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphothreonine => ECO:0000269|PubMed:20850016 |
| Chain | Residue | Details |
| D | THR80 |
| site_id | SWS_FT_FI23 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphoserine => ECO:0000250|UniProtKB:P84243 |
| Chain | Residue | Details |
| D | SER86 |
| site_id | SWS_FT_FI24 |
| Number of Residues | 1 |
| Details | MOD_RES: Phosphothreonine => ECO:0000250|UniProtKB:Q71DI3 |
| Chain | Residue | Details |
| D | THR107 |
| site_id | SWS_FT_FI25 |
| Number of Residues | 1 |
| Details | MOD_RES: N6-glutaryllysine; alternate => ECO:0000269|PubMed:31542297 |
| Chain | Residue | Details |
| D | LYS115 |
| site_id | SWS_FT_FI26 |
| Number of Residues | 1 |
| Details | MOD_RES: N6-succinyllysine; alternate => ECO:0000269|PubMed:22389435, ECO:0000269|PubMed:27436229 |
| Chain | Residue | Details |
| D | LYS122 |
| site_id | SWS_FT_FI27 |
| Number of Residues | 1 |
| Details | LIPID: N6-decanoyllysine => ECO:0000269|PubMed:35939806 |
| Chain | Residue | Details |
| D | LYS18 |
