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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

5VGZ

Conformational Landscape of the p28-Bound Human Proteasome Regulatory Particle

This is a non-PDB format compatible entry.
Functional Information from GO Data
ChainGOidnamespacecontents
a0000502cellular_componentproteasome complex
a0005198molecular_functionstructural molecule activity
a0005515molecular_functionprotein binding
a0005576cellular_componentextracellular region
a0005634cellular_componentnucleus
a0005654cellular_componentnucleoplasm
a0005829cellular_componentcytosol
a0005838cellular_componentproteasome regulatory particle
a0006511biological_processubiquitin-dependent protein catabolic process
a0006979biological_processresponse to oxidative stress
a0008021cellular_componentsynaptic vesicle
a0008541cellular_componentproteasome regulatory particle, lid subcomplex
a0010498biological_processproteasomal protein catabolic process
a0016020cellular_componentmembrane
a0022624cellular_componentproteasome accessory complex
a0034774cellular_componentsecretory granule lumen
a0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
a0061136biological_processregulation of proteasomal protein catabolic process
a0071357biological_processcellular response to type I interferon
a1904813cellular_componentficolin-1-rich granule lumen
c0000502cellular_componentproteasome complex
c0000724biological_processdouble-strand break repair via homologous recombination
c0004843molecular_functioncysteine-type deubiquitinase activity
c0005515molecular_functionprotein binding
c0005576cellular_componentextracellular region
c0005634cellular_componentnucleus
c0005654cellular_componentnucleoplasm
c0005829cellular_componentcytosol
c0006281biological_processDNA repair
c0006303biological_processdouble-strand break repair via nonhomologous end joining
c0006508biological_processproteolysis
c0006511biological_processubiquitin-dependent protein catabolic process
c0006890biological_processretrograde vesicle-mediated transport, Golgi to endoplasmic reticulum
c0006914biological_processautophagy
c0006974biological_processDNA damage response
c0006979biological_processresponse to oxidative stress
c0008021cellular_componentsynaptic vesicle
c0008233molecular_functionpeptidase activity
c0008234molecular_functioncysteine-type peptidase activity
c0008237molecular_functionmetallopeptidase activity
c0008541cellular_componentproteasome regulatory particle, lid subcomplex
c0010498biological_processproteasomal protein catabolic process
c0016192biological_processvesicle-mediated transport
c0016241biological_processregulation of macroautophagy
c0016579biological_processprotein deubiquitination
c0016787molecular_functionhydrolase activity
c0022624cellular_componentproteasome accessory complex
c0031597cellular_componentcytosolic proteasome complex
c0034774cellular_componentsecretory granule lumen
c0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
c0045471biological_processresponse to ethanol
c0046872molecular_functionmetal ion binding
c0061133molecular_functionendopeptidase activator activity
c0061136biological_processregulation of proteasomal protein catabolic process
c0061578molecular_functionK63-linked deubiquitinase activity
c0070536biological_processprotein K63-linked deubiquitination
c0070628molecular_functionproteasome binding
c0071357biological_processcellular response to type I interferon
c0140492molecular_functionmetal-dependent deubiquitinase activity
c1904813cellular_componentficolin-1-rich granule lumen
d0005838cellular_componentproteasome regulatory particle
d0006508biological_processproteolysis
e0000502cellular_componentproteasome complex
e0005515molecular_functionprotein binding
e0005634cellular_componentnucleus
e0005654cellular_componentnucleoplasm
e0005829cellular_componentcytosol
e0006406biological_processmRNA export from nucleus
e0006979biological_processresponse to oxidative stress
e0008021cellular_componentsynaptic vesicle
e0008541cellular_componentproteasome regulatory particle, lid subcomplex
e0010498biological_processproteasomal protein catabolic process
e0032039cellular_componentintegrator complex
e0032991cellular_componentprotein-containing complex
e0043130molecular_functionubiquitin binding
e0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
e0043248biological_processproteasome assembly
e0045944biological_processpositive regulation of transcription by RNA polymerase II
e0061136biological_processregulation of proteasomal protein catabolic process
e0071357biological_processcellular response to type I interferon
U0000502cellular_componentproteasome complex
U0005515molecular_functionprotein binding
U0005576cellular_componentextracellular region
U0005634cellular_componentnucleus
U0005654cellular_componentnucleoplasm
U0005829cellular_componentcytosol
U0005838cellular_componentproteasome regulatory particle
U0006979biological_processresponse to oxidative stress
U0008021cellular_componentsynaptic vesicle
U0008540cellular_componentproteasome regulatory particle, base subcomplex
U0010498biological_processproteasomal protein catabolic process
U0016020cellular_componentmembrane
U0022624cellular_componentproteasome accessory complex
U0030234molecular_functionenzyme regulator activity
U0031625molecular_functionubiquitin protein ligase binding
U0034515cellular_componentproteasome storage granule
U0035578cellular_componentazurophil granule lumen
U0042176biological_processregulation of protein catabolic process
U0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
U0061136biological_processregulation of proteasomal protein catabolic process
U0071357biological_processcellular response to type I interferon
V0000502cellular_componentproteasome complex
V0005515molecular_functionprotein binding
V0005576cellular_componentextracellular region
V0005634cellular_componentnucleus
V0005654cellular_componentnucleoplasm
V0005829cellular_componentcytosol
V0005838cellular_componentproteasome regulatory particle
V0006511biological_processubiquitin-dependent protein catabolic process
V0006979biological_processresponse to oxidative stress
V0008021cellular_componentsynaptic vesicle
V0008541cellular_componentproteasome regulatory particle, lid subcomplex
V0010498biological_processproteasomal protein catabolic process
V0016020cellular_componentmembrane
V0022624cellular_componentproteasome accessory complex
V0030234molecular_functionenzyme regulator activity
V0034774cellular_componentsecretory granule lumen
V0042176biological_processregulation of protein catabolic process
V0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
V0061136biological_processregulation of proteasomal protein catabolic process
V0070062cellular_componentextracellular exosome
V0071357biological_processcellular response to type I interferon
V1904813cellular_componentficolin-1-rich granule lumen
W0000502cellular_componentproteasome complex
W0005515molecular_functionprotein binding
W0005576cellular_componentextracellular region
W0005654cellular_componentnucleoplasm
W0005737cellular_componentcytoplasm
W0005829cellular_componentcytosol
W0005838cellular_componentproteasome regulatory particle
W0006979biological_processresponse to oxidative stress
W0008021cellular_componentsynaptic vesicle
W0008541cellular_componentproteasome regulatory particle, lid subcomplex
W0010498biological_processproteasomal protein catabolic process
W0016020cellular_componentmembrane
W0022624cellular_componentproteasome accessory complex
W0034774cellular_componentsecretory granule lumen
W0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
W0061136biological_processregulation of proteasomal protein catabolic process
W0070062cellular_componentextracellular exosome
W0071357biological_processcellular response to type I interferon
W1904813cellular_componentficolin-1-rich granule lumen
X0000502cellular_componentproteasome complex
X0005198molecular_functionstructural molecule activity
X0005515molecular_functionprotein binding
X0005576cellular_componentextracellular region
X0005634cellular_componentnucleus
X0005654cellular_componentnucleoplasm
X0005829cellular_componentcytosol
X0005838cellular_componentproteasome regulatory particle
X0006511biological_processubiquitin-dependent protein catabolic process
X0006979biological_processresponse to oxidative stress
X0008021cellular_componentsynaptic vesicle
X0008541cellular_componentproteasome regulatory particle, lid subcomplex
X0010498biological_processproteasomal protein catabolic process
X0016020cellular_componentmembrane
X0022624cellular_componentproteasome accessory complex
X0032991cellular_componentprotein-containing complex
X0034774cellular_componentsecretory granule lumen
X0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
X0043248biological_processproteasome assembly
X0048863biological_processstem cell differentiation
X0061136biological_processregulation of proteasomal protein catabolic process
X0071357biological_processcellular response to type I interferon
X1904813cellular_componentficolin-1-rich granule lumen
Y0000502cellular_componentproteasome complex
Y0005515molecular_functionprotein binding
Y0005576cellular_componentextracellular region
Y0005654cellular_componentnucleoplasm
Y0005829cellular_componentcytosol
Y0005838cellular_componentproteasome regulatory particle
Y0006979biological_processresponse to oxidative stress
Y0008021cellular_componentsynaptic vesicle
Y0010498biological_processproteasomal protein catabolic process
Y0022624cellular_componentproteasome accessory complex
Y0032991cellular_componentprotein-containing complex
Y0034774cellular_componentsecretory granule lumen
Y0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
Y0061136biological_processregulation of proteasomal protein catabolic process
Y0071357biological_processcellular response to type I interferon
Y1904813cellular_componentficolin-1-rich granule lumen
Z0005838cellular_componentproteasome regulatory particle
Z0008233molecular_functionpeptidase activity
Z0008237molecular_functionmetallopeptidase activity
Functional Information from PDB Data
site_idAC1
Number of Residues1
Detailsbinding site for residue ZN c 400
ChainResidue
cPHE118
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues7
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI2
Number of Residues5
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI3
Number of Residues33
DetailsRepeat: {"description":"PC 1"}
ChainResidueDetails
site_idSWS_FT_FI4
Number of Residues33
DetailsRepeat: {"description":"PC 2"}
ChainResidueDetails
site_idSWS_FT_FI5
Number of Residues34
DetailsRepeat: {"description":"PC 3"}
ChainResidueDetails
site_idSWS_FT_FI6
Number of Residues34
DetailsRepeat: {"description":"PC 4"}
ChainResidueDetails
site_idSWS_FT_FI7
Number of Residues33
DetailsRepeat: {"description":"PC 5"}
ChainResidueDetails
site_idSWS_FT_FI8
Number of Residues35
DetailsRepeat: {"description":"PC 6"}
ChainResidueDetails
site_idSWS_FT_FI9
Number of Residues32
DetailsRepeat: {"description":"PC 7"}
ChainResidueDetails
site_idSWS_FT_FI10
Number of Residues34
DetailsRepeat: {"description":"PC 8"}
ChainResidueDetails
site_idSWS_FT_FI11
Number of Residues40
DetailsRepeat: {"description":"PC 9"}
ChainResidueDetails
site_idSWS_FT_FI12
Number of Residues32
DetailsRepeat: {"description":"PC 10"}
ChainResidueDetails
site_idSWS_FT_FI13
Number of Residues1
DetailsModified residue: {"description":"N-acetylmethionine","evidences":[{"source":"PubMed","id":"19413330","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"22223895","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI14
Number of Residues1
DetailsModified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"17323924","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI15
Number of Residues1
DetailsModified residue: {"description":"N6-acetyllysine","evidences":[{"source":"UniProtKB","id":"Q3TXS7","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI16
Number of Residues1029
DetailsDomain: {"description":"PCI","evidences":[{"source":"PROSITE-ProRule","id":"PRU01185","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI17
Number of Residues2
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate","evidences":[{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI18
Number of Residues1
DetailsModified residue: {"description":"N-acetylalanine","evidences":[{"source":"PubMed","id":"12665801","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"19413330","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI19
Number of Residues2
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate","evidences":[{"source":"PubMed","id":"25114211","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"25218447","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"25772364","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI20
Number of Residues2
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)","evidences":[{"source":"PubMed","id":"25772364","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI21
Number of Residues270
DetailsDomain: {"description":"MPN","evidences":[{"source":"PROSITE-ProRule","id":"PRU01182","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI22
Number of Residues2
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)"}
ChainResidueDetails
site_idSWS_FT_FI23
Number of Residues183
DetailsDomain: {"description":"VWFA","evidences":[{"source":"PROSITE-ProRule","id":"PRU00219","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI24
Number of Residues4
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)","evidences":[{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI25
Number of Residues13
DetailsMotif: {"description":"JAMM motif","evidences":[{"source":"PROSITE-ProRule","id":"PRU01182","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI26
Number of Residues3
DetailsBinding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU01182","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI27
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"17693683","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"24275569","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI28
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"17323924","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI29
Number of Residues1
DetailsModified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

246905

PDB entries from 2025-12-31

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