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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

8P83

Cryo-EM structure of full-length human UBR5 (homotetramer)

Functional Information from GO Data
ChainGOidnamespacecontents
A0000209biological_processprotein polyubiquitination
A0000785cellular_componentchromatin
A0003723molecular_functionRNA binding
A0004842molecular_functionubiquitin-protein transferase activity
A0005515molecular_functionprotein binding
A0005634cellular_componentnucleus
A0005654cellular_componentnucleoplasm
A0005737cellular_componentcytoplasm
A0006281biological_processDNA repair
A0006974biological_processDNA damage response
A0008270molecular_functionzinc ion binding
A0010498biological_processproteasomal protein catabolic process
A0010628biological_processpositive regulation of gene expression
A0016020cellular_componentmembrane
A0016567biological_processprotein ubiquitination
A0016740molecular_functiontransferase activity
A0032991cellular_componentprotein-containing complex
A0033696biological_processheterochromatin boundary formation
A0034450molecular_functionubiquitin-ubiquitin ligase activity
A0035519biological_processprotein K29-linked ubiquitination
A0042307biological_processpositive regulation of protein import into nucleus
A0043130molecular_functionubiquitin binding
A0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
A0045879biological_processnegative regulation of smoothened signaling pathway
A0046872molecular_functionmetal ion binding
A0048471cellular_componentperinuclear region of cytoplasm
A0050847biological_processprogesterone receptor signaling pathway
A0061630molecular_functionubiquitin protein ligase activity
A0070936biological_processprotein K48-linked ubiquitination
A0070979biological_processprotein K11-linked ubiquitination
A0071629biological_processcytoplasm protein quality control by the ubiquitin-proteasome system
A0071630biological_processnuclear protein quality control by the ubiquitin-proteasome system
A0090263biological_processpositive regulation of canonical Wnt signaling pathway
A0140455biological_processcytoplasm protein quality control
A0140861biological_processDNA repair-dependent chromatin remodeling
A0141198biological_processprotein branched polyubiquitination
B0000209biological_processprotein polyubiquitination
B0000785cellular_componentchromatin
B0003723molecular_functionRNA binding
B0004842molecular_functionubiquitin-protein transferase activity
B0005515molecular_functionprotein binding
B0005634cellular_componentnucleus
B0005654cellular_componentnucleoplasm
B0005737cellular_componentcytoplasm
B0006281biological_processDNA repair
B0006974biological_processDNA damage response
B0008270molecular_functionzinc ion binding
B0010498biological_processproteasomal protein catabolic process
B0010628biological_processpositive regulation of gene expression
B0016020cellular_componentmembrane
B0016567biological_processprotein ubiquitination
B0016740molecular_functiontransferase activity
B0032991cellular_componentprotein-containing complex
B0033696biological_processheterochromatin boundary formation
B0034450molecular_functionubiquitin-ubiquitin ligase activity
B0035519biological_processprotein K29-linked ubiquitination
B0042307biological_processpositive regulation of protein import into nucleus
B0043130molecular_functionubiquitin binding
B0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
B0045879biological_processnegative regulation of smoothened signaling pathway
B0046872molecular_functionmetal ion binding
B0048471cellular_componentperinuclear region of cytoplasm
B0050847biological_processprogesterone receptor signaling pathway
B0061630molecular_functionubiquitin protein ligase activity
B0070936biological_processprotein K48-linked ubiquitination
B0070979biological_processprotein K11-linked ubiquitination
B0071629biological_processcytoplasm protein quality control by the ubiquitin-proteasome system
B0071630biological_processnuclear protein quality control by the ubiquitin-proteasome system
B0090263biological_processpositive regulation of canonical Wnt signaling pathway
B0140455biological_processcytoplasm protein quality control
B0140861biological_processDNA repair-dependent chromatin remodeling
B0141198biological_processprotein branched polyubiquitination
C0000209biological_processprotein polyubiquitination
C0000785cellular_componentchromatin
C0003723molecular_functionRNA binding
C0004842molecular_functionubiquitin-protein transferase activity
C0005515molecular_functionprotein binding
C0005634cellular_componentnucleus
C0005654cellular_componentnucleoplasm
C0005737cellular_componentcytoplasm
C0006281biological_processDNA repair
C0006974biological_processDNA damage response
C0008270molecular_functionzinc ion binding
C0010498biological_processproteasomal protein catabolic process
C0010628biological_processpositive regulation of gene expression
C0016020cellular_componentmembrane
C0016567biological_processprotein ubiquitination
C0016740molecular_functiontransferase activity
C0032991cellular_componentprotein-containing complex
C0033696biological_processheterochromatin boundary formation
C0034450molecular_functionubiquitin-ubiquitin ligase activity
C0035519biological_processprotein K29-linked ubiquitination
C0042307biological_processpositive regulation of protein import into nucleus
C0043130molecular_functionubiquitin binding
C0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
C0045879biological_processnegative regulation of smoothened signaling pathway
C0046872molecular_functionmetal ion binding
C0048471cellular_componentperinuclear region of cytoplasm
C0050847biological_processprogesterone receptor signaling pathway
C0061630molecular_functionubiquitin protein ligase activity
C0070936biological_processprotein K48-linked ubiquitination
C0070979biological_processprotein K11-linked ubiquitination
C0071629biological_processcytoplasm protein quality control by the ubiquitin-proteasome system
C0071630biological_processnuclear protein quality control by the ubiquitin-proteasome system
C0090263biological_processpositive regulation of canonical Wnt signaling pathway
C0140455biological_processcytoplasm protein quality control
C0140861biological_processDNA repair-dependent chromatin remodeling
C0141198biological_processprotein branched polyubiquitination
D0000209biological_processprotein polyubiquitination
D0000785cellular_componentchromatin
D0003723molecular_functionRNA binding
D0004842molecular_functionubiquitin-protein transferase activity
D0005515molecular_functionprotein binding
D0005634cellular_componentnucleus
D0005654cellular_componentnucleoplasm
D0005737cellular_componentcytoplasm
D0006281biological_processDNA repair
D0006974biological_processDNA damage response
D0008270molecular_functionzinc ion binding
D0010498biological_processproteasomal protein catabolic process
D0010628biological_processpositive regulation of gene expression
D0016020cellular_componentmembrane
D0016567biological_processprotein ubiquitination
D0016740molecular_functiontransferase activity
D0032991cellular_componentprotein-containing complex
D0033696biological_processheterochromatin boundary formation
D0034450molecular_functionubiquitin-ubiquitin ligase activity
D0035519biological_processprotein K29-linked ubiquitination
D0042307biological_processpositive regulation of protein import into nucleus
D0043130molecular_functionubiquitin binding
D0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
D0045879biological_processnegative regulation of smoothened signaling pathway
D0046872molecular_functionmetal ion binding
D0048471cellular_componentperinuclear region of cytoplasm
D0050847biological_processprogesterone receptor signaling pathway
D0061630molecular_functionubiquitin protein ligase activity
D0070936biological_processprotein K48-linked ubiquitination
D0070979biological_processprotein K11-linked ubiquitination
D0071629biological_processcytoplasm protein quality control by the ubiquitin-proteasome system
D0071630biological_processnuclear protein quality control by the ubiquitin-proteasome system
D0090263biological_processpositive regulation of canonical Wnt signaling pathway
D0140455biological_processcytoplasm protein quality control
D0140861biological_processDNA repair-dependent chromatin remodeling
D0141198biological_processprotein branched polyubiquitination
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues272
DetailsZinc finger: {"description":"UBR-type","evidences":[{"source":"PROSITE-ProRule","id":"PRU00508","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI2
Number of Residues4
DetailsActive site: {"description":"Glycyl thioester intermediate","evidences":[{"source":"PROSITE-ProRule","id":"PRU00104","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"11287654","evidenceCode":"ECO:0000305"},{"source":"PubMed","id":"23027739","evidenceCode":"ECO:0000305"},{"source":"PubMed","id":"28689657","evidenceCode":"ECO:0000305"},{"source":"PubMed","id":"37040767","evidenceCode":"ECO:0000305"},{"source":"PubMed","id":"37478862","evidenceCode":"ECO:0000305"},{"source":"PubMed","id":"37620400","evidenceCode":"ECO:0000305"}]}
ChainResidueDetails
site_idSWS_FT_FI3
Number of Residues44
DetailsBinding site: {"evidences":[{"source":"PubMed","id":"37040767","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"37409633","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"37478846","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"37620400","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"8BJA","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8C06","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8D4X","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8E0Q","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8EWI","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"8P82","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI4
Number of Residues4
DetailsModified residue: {"description":"N-acetylthreonine","evidences":[{"source":"PubMed","id":"19413330","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI5
Number of Residues40
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"21924388","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI6
Number of Residues8
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"21924388","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI7
Number of Residues16
DetailsModified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"21924388","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI8
Number of Residues4
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

245663

PDB entries from 2025-12-03

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