8XBW
The cryo-EM structure of the RAD51 N-terminal lobe domain bound to the histone H4 tail of the nucleosome
Functional Information from GO Data
| Chain | GOid | namespace | contents |
| E | 0000786 | cellular_component | nucleosome |
| E | 0003677 | molecular_function | DNA 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 | 0031492 | molecular_function | nucleosomal DNA binding |
| E | 0031507 | biological_process | heterochromatin formation |
| E | 0032200 | biological_process | telomere organization |
| E | 0032991 | cellular_component | protein-containing complex |
| E | 0040029 | biological_process | epigenetic regulation of gene expression |
| E | 0045296 | molecular_function | cadherin binding |
| E | 0046982 | molecular_function | protein heterodimerization activity |
| E | 0070062 | cellular_component | extracellular exosome |
| F | 0000781 | cellular_component | chromosome, telomeric region |
| F | 0000786 | cellular_component | nucleosome |
| F | 0003677 | molecular_function | DNA binding |
| F | 0003723 | molecular_function | RNA binding |
| F | 0005515 | molecular_function | protein binding |
| F | 0005576 | cellular_component | extracellular region |
| F | 0005634 | cellular_component | nucleus |
| F | 0005654 | cellular_component | nucleoplasm |
| F | 0005694 | cellular_component | chromosome |
| F | 0006325 | biological_process | chromatin organization |
| F | 0006334 | biological_process | nucleosome assembly |
| F | 0016020 | cellular_component | membrane |
| F | 0030527 | molecular_function | structural constituent of chromatin |
| F | 0032200 | biological_process | telomere organization |
| F | 0032991 | cellular_component | protein-containing complex |
| F | 0045653 | biological_process | negative regulation of megakaryocyte differentiation |
| F | 0046982 | molecular_function | protein heterodimerization activity |
| F | 0061644 | biological_process | protein localization to CENP-A containing chromatin |
| F | 0070062 | cellular_component | extracellular exosome |
| L | 0000150 | molecular_function | DNA strand exchange activity |
| L | 0000166 | molecular_function | nucleotide binding |
| L | 0000228 | cellular_component | nuclear chromosome |
| L | 0000722 | biological_process | telomere maintenance via recombination |
| L | 0000724 | biological_process | double-strand break repair via homologous recombination |
| L | 0000730 | biological_process | DNA recombinase assembly |
| L | 0000781 | cellular_component | chromosome, telomeric region |
| L | 0000785 | cellular_component | chromatin |
| L | 0000793 | cellular_component | condensed chromosome |
| L | 0000794 | cellular_component | condensed nuclear chromosome |
| L | 0000800 | cellular_component | lateral element |
| L | 0003677 | molecular_function | DNA binding |
| L | 0003682 | molecular_function | chromatin binding |
| L | 0003690 | molecular_function | double-stranded DNA binding |
| L | 0003697 | molecular_function | single-stranded DNA binding |
| L | 0005515 | molecular_function | protein binding |
| L | 0005524 | molecular_function | ATP binding |
| L | 0005634 | cellular_component | nucleus |
| L | 0005654 | cellular_component | nucleoplasm |
| L | 0005694 | cellular_component | chromosome |
| L | 0005730 | cellular_component | nucleolus |
| L | 0005737 | cellular_component | cytoplasm |
| L | 0005739 | cellular_component | mitochondrion |
| L | 0005759 | cellular_component | mitochondrial matrix |
| L | 0005813 | cellular_component | centrosome |
| L | 0005829 | cellular_component | cytosol |
| L | 0006259 | biological_process | DNA metabolic process |
| L | 0006281 | biological_process | DNA repair |
| L | 0006310 | biological_process | DNA recombination |
| L | 0006312 | biological_process | mitotic recombination |
| L | 0006974 | biological_process | DNA damage response |
| L | 0007127 | biological_process | meiosis I |
| L | 0007131 | biological_process | reciprocal meiotic recombination |
| L | 0008094 | molecular_function | ATP-dependent activity, acting on DNA |
| L | 0009410 | biological_process | response to xenobiotic stimulus |
| L | 0009636 | biological_process | response to toxic substance |
| L | 0010165 | biological_process | response to X-ray |
| L | 0010569 | biological_process | regulation of double-strand break repair via homologous recombination |
| L | 0010833 | biological_process | telomere maintenance via telomere lengthening |
| L | 0016605 | cellular_component | PML body |
| L | 0016787 | molecular_function | hydrolase activity |
| L | 0017116 | molecular_function | single-stranded DNA helicase activity |
| L | 0019899 | molecular_function | enzyme binding |
| L | 0031297 | biological_process | replication fork processing |
| L | 0032991 | cellular_component | protein-containing complex |
| L | 0032993 | cellular_component | protein-DNA complex |
| L | 0035861 | cellular_component | site of double-strand break |
| L | 0036297 | biological_process | interstrand cross-link repair |
| L | 0042148 | biological_process | DNA strand invasion |
| L | 0042802 | molecular_function | identical protein binding |
| L | 0048471 | cellular_component | perinuclear region of cytoplasm |
| L | 0051321 | biological_process | meiotic cell cycle |
| L | 0070182 | molecular_function | DNA polymerase binding |
| L | 0070192 | biological_process | chromosome organization involved in meiotic cell cycle |
| L | 0071479 | biological_process | cellular response to ionizing radiation |
| L | 0071480 | biological_process | cellular response to gamma radiation |
| L | 0072719 | biological_process | cellular response to cisplatin |
| L | 0072757 | biological_process | cellular response to camptothecin |
| L | 0099182 | cellular_component | presynaptic intermediate filament cytoskeleton |
| L | 0140664 | molecular_function | ATP-dependent DNA damage sensor activity |
| L | 1904631 | biological_process | response to glucoside |
| L | 1990426 | biological_process | mitotic recombination-dependent replication fork processing |
| L | 1990918 | biological_process | double-strand break repair involved in meiotic recombination |
| L | 2000001 | biological_process | regulation of DNA damage checkpoint |
Functional Information from PROSITE/UniProt
| site_id | PS00047 |
| Number of Residues | 5 |
| Details | HISTONE_H4 Histone H4 signature. GAKRH |
| Chain | Residue | Details |
| F | GLY14-HIS18 |
| site_id | PS00322 |
| Number of Residues | 7 |
| Details | HISTONE_H3_1 Histone H3 signature 1. KAPRKQL |
| Chain | Residue | Details |
| E | LYS14-LEU20 |
| site_id | PS00959 |
| Number of Residues | 9 |
| Details | HISTONE_H3_2 Histone H3 signature 2. PFqRLVREI |
| Chain | Residue | Details |
| E | PRO66-ILE74 |
Functional Information from SwissProt/UniProt
| site_id | SWS_FT_FI1 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"Phosphotyrosine","evidences":[{"source":"PubMed","id":"19783980","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI2 |
| Number of Residues | 4 |
| Details | Modified residue: {"description":"N6-succinyllysine; alternate","evidences":[{"source":"PubMed","id":"22389435","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI3 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"20850016","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI4 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"N6-methyllysine; alternate","evidences":[{"source":"PubMed","id":"16267050","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"17194708","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI5 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"N6-succinyllysine; alternate","evidences":[{"source":"PubMed","id":"22389435","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"29211711","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI6 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"20850016","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI7 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"Phosphoserine","evidences":[{"source":"UniProtKB","id":"P84243","evidenceCode":"ECO:0000250"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI8 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"UniProtKB","id":"Q71DI3","evidenceCode":"ECO:0000250"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI9 |
| Number of Residues | 2 |
| Details | Modified residue: {"description":"N6-glutaryllysine; alternate","evidences":[{"source":"PubMed","id":"31542297","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI10 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"N6-succinyllysine; alternate","evidences":[{"source":"PubMed","id":"22389435","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27436229","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI11 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"N6-methyllysine; alternate","evidences":[{"source":"PubMed","id":"12086618","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"15964846","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"17967882","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27338793","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI12 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"N6-propionyllysine; alternate","evidences":[{"source":"PubMed","id":"17267393","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI13 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"Phosphoserine; by PAK2","evidences":[{"source":"PubMed","id":"21724829","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"17081983","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"18669648","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"19690332","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"20068231","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"21406692","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"24275569","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI14 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"Phosphotyrosine","evidences":[{"source":"PubMed","id":"15592455","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"20068231","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI15 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"N6-succinyllysine; alternate","evidences":[{"source":"UniProtKB","id":"P62806","evidenceCode":"ECO:0000250"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI16 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"UniProtKB","id":"P62806","evidenceCode":"ECO:0000250"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI17 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"Phosphotyrosine","evidences":[{"source":"PubMed","id":"24275569","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI18 |
| Number of Residues | 3 |
| Details | Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate","evidences":[{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI19 |
| Number of Residues | 2 |
| Details | Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate","evidences":[{"source":"PubMed","id":"19818714","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI20 |
| Number of Residues | 1 |
| Details | Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in UFM1); alternate","evidences":[{"source":"PubMed","id":"30886146","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI21 |
| Number of Residues | 29 |
| Details | Domain: {"description":"HhH"} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI22 |
| Number of Residues | 1 |
| Details | Modified residue: {"description":"Phosphotyrosine; by ABL1","evidences":[{"source":"PubMed","id":"9461559","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
| site_id | SWS_FT_FI23 |
| Number of Residues | 3 |
| Details | Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"PubMed","id":"23393192","evidenceCode":"ECO:0000269"}]} |
| Chain | Residue | Details |
