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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

9QX0

Cryo-EM structure of the human UBR4/KCMF1/CALM1 complex (C-term focused refinement)

Functional Information from GO Data
ChainGOidnamespacecontents
A0005515molecular_functionprotein binding
A0005516molecular_functioncalmodulin binding
A0005634cellular_componentnucleus
A0005654cellular_componentnucleoplasm
A0005737cellular_componentcytoplasm
A0005768cellular_componentendosome
A0005829cellular_componentcytosol
A0005856cellular_componentcytoskeleton
A0005886cellular_componentplasma membrane
A0006511biological_processubiquitin-dependent protein catabolic process
A0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
A0006979biological_processresponse to oxidative stress
A0007032biological_processendosome organization
A0008270molecular_functionzinc ion binding
A0010498biological_processproteasomal protein catabolic process
A0010508biological_processpositive regulation of autophagy
A0016020cellular_componentmembrane
A0016567biological_processprotein ubiquitination
A0016740molecular_functiontransferase activity
A0035579cellular_componentspecific granule membrane
A0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
A0044314biological_processprotein K27-linked ubiquitination
A0045717biological_processnegative regulation of fatty acid biosynthetic process
A0046872molecular_functionmetal ion binding
A0061630molecular_functionubiquitin protein ligase activity
A0070821cellular_componenttertiary granule membrane
A0070936biological_processprotein K48-linked ubiquitination
A0070979biological_processprotein K11-linked ubiquitination
A0071596biological_processubiquitin-dependent protein catabolic process via the N-end rule pathway
A0071629biological_processcytoplasm protein quality control by the ubiquitin-proteasome system
A0101003cellular_componentficolin-1-rich granule membrane
A0140455biological_processcytoplasm protein quality control
A0140468biological_processHRI-mediated signaling
A0141191biological_processnegative regulation of HRI-mediated signaling
A0141198biological_processprotein branched polyubiquitination
A1990756molecular_functionubiquitin-like ligase-substrate adaptor activity
B0005515molecular_functionprotein binding
B0005516molecular_functioncalmodulin binding
B0005634cellular_componentnucleus
B0005654cellular_componentnucleoplasm
B0005737cellular_componentcytoplasm
B0005768cellular_componentendosome
B0005829cellular_componentcytosol
B0005856cellular_componentcytoskeleton
B0005886cellular_componentplasma membrane
B0006511biological_processubiquitin-dependent protein catabolic process
B0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
B0006979biological_processresponse to oxidative stress
B0007032biological_processendosome organization
B0008270molecular_functionzinc ion binding
B0010498biological_processproteasomal protein catabolic process
B0010508biological_processpositive regulation of autophagy
B0016020cellular_componentmembrane
B0016567biological_processprotein ubiquitination
B0016740molecular_functiontransferase activity
B0035579cellular_componentspecific granule membrane
B0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
B0044314biological_processprotein K27-linked ubiquitination
B0045717biological_processnegative regulation of fatty acid biosynthetic process
B0046872molecular_functionmetal ion binding
B0061630molecular_functionubiquitin protein ligase activity
B0070821cellular_componenttertiary granule membrane
B0070936biological_processprotein K48-linked ubiquitination
B0070979biological_processprotein K11-linked ubiquitination
B0071596biological_processubiquitin-dependent protein catabolic process via the N-end rule pathway
B0071629biological_processcytoplasm protein quality control by the ubiquitin-proteasome system
B0101003cellular_componentficolin-1-rich granule membrane
B0140455biological_processcytoplasm protein quality control
B0140468biological_processHRI-mediated signaling
B0141191biological_processnegative regulation of HRI-mediated signaling
B0141198biological_processprotein branched polyubiquitination
B1990756molecular_functionubiquitin-like ligase-substrate adaptor activity
C0005515molecular_functionprotein binding
C0005576cellular_componentextracellular region
C0005737cellular_componentcytoplasm
C0005764cellular_componentlysosome
C0005770cellular_componentlate endosome
C0005829cellular_componentcytosol
C0005886cellular_componentplasma membrane
C0006511biological_processubiquitin-dependent protein catabolic process
C0006979biological_processresponse to oxidative stress
C0008270molecular_functionzinc ion binding
C0016740molecular_functiontransferase activity
C0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
C0045202cellular_componentsynapse
C0046872molecular_functionmetal ion binding
C0061630molecular_functionubiquitin protein ligase activity
C0070534biological_processprotein K63-linked ubiquitination
C0070936biological_processprotein K48-linked ubiquitination
C0099536biological_processsynaptic signaling
C0140468biological_processHRI-mediated signaling
C0141191biological_processnegative regulation of HRI-mediated signaling
C1904813cellular_componentficolin-1-rich granule lumen
D0005515molecular_functionprotein binding
D0005576cellular_componentextracellular region
D0005737cellular_componentcytoplasm
D0005764cellular_componentlysosome
D0005770cellular_componentlate endosome
D0005829cellular_componentcytosol
D0005886cellular_componentplasma membrane
D0006511biological_processubiquitin-dependent protein catabolic process
D0006979biological_processresponse to oxidative stress
D0008270molecular_functionzinc ion binding
D0016740molecular_functiontransferase activity
D0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
D0045202cellular_componentsynapse
D0046872molecular_functionmetal ion binding
D0061630molecular_functionubiquitin protein ligase activity
D0070534biological_processprotein K63-linked ubiquitination
D0070936biological_processprotein K48-linked ubiquitination
D0099536biological_processsynaptic signaling
D0140468biological_processHRI-mediated signaling
D0141191biological_processnegative regulation of HRI-mediated signaling
D1904813cellular_componentficolin-1-rich granule lumen
F0000922cellular_componentspindle pole
F0002027biological_processregulation of heart rate
F0005246molecular_functioncalcium channel regulator activity
F0005509molecular_functioncalcium ion binding
F0005513biological_processdetection of calcium ion
F0005515molecular_functionprotein binding
F0005576cellular_componentextracellular region
F0005634cellular_componentnucleus
F0005654cellular_componentnucleoplasm
F0005737cellular_componentcytoplasm
F0005813cellular_componentcentrosome
F0005819cellular_componentspindle
F0005829cellular_componentcytosol
F0005876cellular_componentspindle microtubule
F0005886cellular_componentplasma membrane
F0007186biological_processG protein-coupled receptor signaling pathway
F0008076cellular_componentvoltage-gated potassium channel complex
F0010856molecular_functionadenylate cyclase activator activity
F0010880biological_processregulation of release of sequestered calcium ion into cytosol by sarcoplasmic reticulum
F0010881biological_processregulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion
F0016020cellular_componentmembrane
F0016240biological_processautophagosome membrane docking
F0019855molecular_functioncalcium channel inhibitor activity
F0019901molecular_functionprotein kinase binding
F0021762biological_processsubstantia nigra development
F0030017cellular_componentsarcomere
F0031432molecular_functiontitin binding
F0031514cellular_componentmotile cilium
F0031982cellular_componentvesicle
F0032465biological_processregulation of cytokinesis
F0032991cellular_componentprotein-containing complex
F0034704cellular_componentcalcium channel complex
F0035458biological_processcellular response to interferon-beta
F0043209cellular_componentmyelin sheath
F0043539molecular_functionprotein serine/threonine kinase activator activity
F0044305cellular_componentcalyx of Held
F0044325molecular_functiontransmembrane transporter binding
F0046427biological_processpositive regulation of receptor signaling pathway via JAK-STAT
F0046872molecular_functionmetal ion binding
F0048306molecular_functioncalcium-dependent protein binding
F0051592biological_processresponse to calcium ion
F0055117biological_processregulation of cardiac muscle contraction
F0060291biological_processlong-term synaptic potentiation
F0060314biological_processregulation of ryanodine-sensitive calcium-release channel activity
F0060315biological_processnegative regulation of ryanodine-sensitive calcium-release channel activity
F0071346biological_processcellular response to type II interferon
F0072542molecular_functionprotein phosphatase activator activity
F0097225cellular_componentsperm midpiece
F0097720biological_processcalcineurin-mediated signaling
F0098901biological_processregulation of cardiac muscle cell action potential
F0099523cellular_componentpresynaptic cytosol
F0140056biological_processorganelle localization by membrane tethering
F0140238biological_processpresynaptic endocytosis
F0141110molecular_functiontransporter inhibitor activity
F1901842biological_processnegative regulation of high voltage-gated calcium channel activity
F1901844biological_processregulation of cell communication by electrical coupling involved in cardiac conduction
F1902494cellular_componentcatalytic complex
F1905913biological_processnegative regulation of calcium ion export across plasma membrane
F1990456biological_processmitochondrion-endoplasmic reticulum membrane tethering
Functional Information from PROSITE/UniProt
site_idPS00018
Number of Residues13
DetailsEF_HAND_1 EF-hand calcium-binding domain. DKDGDGTITtkEL
ChainResidueDetails
FASP21-LEU33
FASP57-PHE69
FASP94-LEU106
FASP130-PHE142
site_idPS00028
Number of Residues23
DetailsZINC_FINGER_C2H2_1 Zinc finger C2H2 type domain signature. Cnkl.CtftItqkefmnqHwyhc.H
ChainResidueDetails
ACYS1658-HIS1680
site_idPS00923
Number of Residues10
DetailsASP_GLU_RACEMASE_1 Aspartate and glutamate racemases signature 1. AVqClNTSSK
ChainResidueDetails
AALA2551-LYS2560
site_idPS01357
Number of Residues28
DetailsZF_ZZ_1 Zinc finger ZZ-type signature. CdaClkgnfrgrRYkCli...CyDYdLCasC
ChainResidueDetails
DCYS9-CYS36
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues40
DetailsRegion: {"description":"Disordered","evidences":[{"source":"SAM","id":"MobiDB-lite","evidenceCode":"ECO:0000256"}]}
ChainResidueDetails
site_idSWS_FT_FI2
Number of Residues34
DetailsCompositional bias: {"description":"Basic and acidic residues","evidences":[{"source":"SAM","id":"MobiDB-lite","evidenceCode":"ECO:0000256"}]}
ChainResidueDetails
site_idSWS_FT_FI3
Number of Residues6
DetailsBinding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU00448","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"1474585","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"25441029","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27564677","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1CLL","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4UMO","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"4V0C","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5J03","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI4
Number of Residues5
DetailsBinding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU00448","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"1474585","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27564677","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"29724949","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1CLL","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5J03","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6CNN","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"6CNO","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI5
Number of Residues3
DetailsBinding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU00448","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"1474585","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"27564677","evidenceCode":"ECO:0000269"},{"source":"PDB","id":"1CLL","evidenceCode":"ECO:0007744"},{"source":"PDB","id":"5J03","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI6
Number of Residues1
DetailsModified residue: {"description":"N6-acetyllysine; alternate","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI7
Number of Residues1
DetailsModified residue: {"description":"Phosphothreonine; by CaMK4","evidences":[{"source":"UniProtKB","id":"P0DP29","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI8
Number of Residues1
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI9
Number of Residues1
DetailsModified residue: {"description":"Phosphotyrosine","evidences":[{"source":"PubMed","id":"18669648","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"19690332","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI10
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"21406692","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"24275569","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI11
Number of Residues1
DetailsModified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"24275569","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI12
Number of Residues1
DetailsModified residue: {"description":"N6-methyllysine; alternate","evidences":[{"source":"PubMed","id":"24129315","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI13
Number of Residues1
DetailsModified residue: {"description":"Phosphotyrosine","evidences":[{"source":"PubMed","id":"19690332","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI14
Number of Residues2
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin); alternate","evidences":[{"source":"UniProtKB","id":"P62157","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails

246704

PDB entries from 2025-12-24

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