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8UB4

Cdc48-Shp1 unfolding native substrate, consensus structure

Functional Information from GO Data
ChainGOidnamespacecontents
A0000166molecular_functionnucleotide binding
A0000837cellular_componentDoa10p ubiquitin ligase complex
A0000839cellular_componentHrd1p ubiquitin ligase ERAD-L complex
A0005515molecular_functionprotein binding
A0005524molecular_functionATP binding
A0005634cellular_componentnucleus
A0005737cellular_componentcytoplasm
A0005739cellular_componentmitochondrion
A0005741cellular_componentmitochondrial outer membrane
A0005783cellular_componentendoplasmic reticulum
A0005789cellular_componentendoplasmic reticulum membrane
A0005829cellular_componentcytosol
A0006274biological_processDNA replication termination
A0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
A0010636biological_processpositive regulation of mitochondrial fusion
A0015031biological_processprotein transport
A0016236biological_processmacroautophagy
A0016320biological_processendoplasmic reticulum membrane fusion
A0016787molecular_functionhydrolase activity
A0016887molecular_functionATP hydrolysis activity
A0019888molecular_functionprotein phosphatase regulator activity
A0030894cellular_componentreplisome
A0030970biological_processretrograde protein transport, ER to cytosol
A0031134biological_processsister chromatid biorientation
A0031593molecular_functionpolyubiquitin modification-dependent protein binding
A0032984biological_processprotein-containing complex disassembly
A0034098cellular_componentVCP-NPL4-UFD1 AAA ATPase complex
A0034517biological_processribophagy
A0034727biological_processpiecemeal microautophagy of the nucleus
A0036266cellular_componentCdc48p-Npl4p-Vms1p AAA ATPase complex
A0036503biological_processERAD pathway
A0042802molecular_functionidentical protein binding
A0043130molecular_functionubiquitin binding
A0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
A0043328biological_processprotein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway
A0043332cellular_componentmating projection tip
A0046034biological_processATP metabolic process
A0051228biological_processmitotic spindle disassembly
A0070651biological_processnonfunctional rRNA decay
A0071629biological_processcytoplasm protein quality control by the ubiquitin-proteasome system
A0071630biological_processnuclear protein quality control by the ubiquitin-proteasome system
A0072344biological_processrescue of stalled ribosome
A0072671biological_processmitochondria-associated ubiquitin-dependent protein catabolic process
A0097352biological_processautophagosome maturation
A0099638biological_processendosome to plasma membrane protein transport
A0120174biological_processstress-induced homeostatically regulated protein degradation pathway
A0140624biological_processEGAD pathway
A1900182biological_processpositive regulation of protein localization to nucleus
A1902979biological_processmitotic DNA replication termination
A1990112cellular_componentRQC complex
A1990116biological_processribosome-associated ubiquitin-dependent protein catabolic process
A1990171biological_processSCF complex disassembly in response to cadmium stress
B0000166molecular_functionnucleotide binding
B0000837cellular_componentDoa10p ubiquitin ligase complex
B0000839cellular_componentHrd1p ubiquitin ligase ERAD-L complex
B0005515molecular_functionprotein binding
B0005524molecular_functionATP binding
B0005634cellular_componentnucleus
B0005737cellular_componentcytoplasm
B0005739cellular_componentmitochondrion
B0005741cellular_componentmitochondrial outer membrane
B0005783cellular_componentendoplasmic reticulum
B0005789cellular_componentendoplasmic reticulum membrane
B0005829cellular_componentcytosol
B0006274biological_processDNA replication termination
B0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
B0010636biological_processpositive regulation of mitochondrial fusion
B0015031biological_processprotein transport
B0016236biological_processmacroautophagy
B0016320biological_processendoplasmic reticulum membrane fusion
B0016787molecular_functionhydrolase activity
B0016887molecular_functionATP hydrolysis activity
B0019888molecular_functionprotein phosphatase regulator activity
B0030894cellular_componentreplisome
B0030970biological_processretrograde protein transport, ER to cytosol
B0031134biological_processsister chromatid biorientation
B0031593molecular_functionpolyubiquitin modification-dependent protein binding
B0032984biological_processprotein-containing complex disassembly
B0034098cellular_componentVCP-NPL4-UFD1 AAA ATPase complex
B0034517biological_processribophagy
B0034727biological_processpiecemeal microautophagy of the nucleus
B0036266cellular_componentCdc48p-Npl4p-Vms1p AAA ATPase complex
B0036503biological_processERAD pathway
B0042802molecular_functionidentical protein binding
B0043130molecular_functionubiquitin binding
B0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
B0043328biological_processprotein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway
B0043332cellular_componentmating projection tip
B0046034biological_processATP metabolic process
B0051228biological_processmitotic spindle disassembly
B0070651biological_processnonfunctional rRNA decay
B0071629biological_processcytoplasm protein quality control by the ubiquitin-proteasome system
B0071630biological_processnuclear protein quality control by the ubiquitin-proteasome system
B0072344biological_processrescue of stalled ribosome
B0072671biological_processmitochondria-associated ubiquitin-dependent protein catabolic process
B0097352biological_processautophagosome maturation
B0099638biological_processendosome to plasma membrane protein transport
B0120174biological_processstress-induced homeostatically regulated protein degradation pathway
B0140624biological_processEGAD pathway
B1900182biological_processpositive regulation of protein localization to nucleus
B1902979biological_processmitotic DNA replication termination
B1990112cellular_componentRQC complex
B1990116biological_processribosome-associated ubiquitin-dependent protein catabolic process
B1990171biological_processSCF complex disassembly in response to cadmium stress
C0000166molecular_functionnucleotide binding
C0000837cellular_componentDoa10p ubiquitin ligase complex
C0000839cellular_componentHrd1p ubiquitin ligase ERAD-L complex
C0005515molecular_functionprotein binding
C0005524molecular_functionATP binding
C0005634cellular_componentnucleus
C0005737cellular_componentcytoplasm
C0005739cellular_componentmitochondrion
C0005741cellular_componentmitochondrial outer membrane
C0005783cellular_componentendoplasmic reticulum
C0005789cellular_componentendoplasmic reticulum membrane
C0005829cellular_componentcytosol
C0006274biological_processDNA replication termination
C0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
C0010636biological_processpositive regulation of mitochondrial fusion
C0015031biological_processprotein transport
C0016236biological_processmacroautophagy
C0016320biological_processendoplasmic reticulum membrane fusion
C0016787molecular_functionhydrolase activity
C0016887molecular_functionATP hydrolysis activity
C0019888molecular_functionprotein phosphatase regulator activity
C0030894cellular_componentreplisome
C0030970biological_processretrograde protein transport, ER to cytosol
C0031134biological_processsister chromatid biorientation
C0031593molecular_functionpolyubiquitin modification-dependent protein binding
C0032984biological_processprotein-containing complex disassembly
C0034098cellular_componentVCP-NPL4-UFD1 AAA ATPase complex
C0034517biological_processribophagy
C0034727biological_processpiecemeal microautophagy of the nucleus
C0036266cellular_componentCdc48p-Npl4p-Vms1p AAA ATPase complex
C0036503biological_processERAD pathway
C0042802molecular_functionidentical protein binding
C0043130molecular_functionubiquitin binding
C0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
C0043328biological_processprotein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway
C0043332cellular_componentmating projection tip
C0046034biological_processATP metabolic process
C0051228biological_processmitotic spindle disassembly
C0070651biological_processnonfunctional rRNA decay
C0071629biological_processcytoplasm protein quality control by the ubiquitin-proteasome system
C0071630biological_processnuclear protein quality control by the ubiquitin-proteasome system
C0072344biological_processrescue of stalled ribosome
C0072671biological_processmitochondria-associated ubiquitin-dependent protein catabolic process
C0097352biological_processautophagosome maturation
C0099638biological_processendosome to plasma membrane protein transport
C0120174biological_processstress-induced homeostatically regulated protein degradation pathway
C0140624biological_processEGAD pathway
C1900182biological_processpositive regulation of protein localization to nucleus
C1902979biological_processmitotic DNA replication termination
C1990112cellular_componentRQC complex
C1990116biological_processribosome-associated ubiquitin-dependent protein catabolic process
C1990171biological_processSCF complex disassembly in response to cadmium stress
D0000166molecular_functionnucleotide binding
D0000837cellular_componentDoa10p ubiquitin ligase complex
D0000839cellular_componentHrd1p ubiquitin ligase ERAD-L complex
D0005515molecular_functionprotein binding
D0005524molecular_functionATP binding
D0005634cellular_componentnucleus
D0005737cellular_componentcytoplasm
D0005739cellular_componentmitochondrion
D0005741cellular_componentmitochondrial outer membrane
D0005783cellular_componentendoplasmic reticulum
D0005789cellular_componentendoplasmic reticulum membrane
D0005829cellular_componentcytosol
D0006274biological_processDNA replication termination
D0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
D0010636biological_processpositive regulation of mitochondrial fusion
D0015031biological_processprotein transport
D0016236biological_processmacroautophagy
D0016320biological_processendoplasmic reticulum membrane fusion
D0016787molecular_functionhydrolase activity
D0016887molecular_functionATP hydrolysis activity
D0019888molecular_functionprotein phosphatase regulator activity
D0030894cellular_componentreplisome
D0030970biological_processretrograde protein transport, ER to cytosol
D0031134biological_processsister chromatid biorientation
D0031593molecular_functionpolyubiquitin modification-dependent protein binding
D0032984biological_processprotein-containing complex disassembly
D0034098cellular_componentVCP-NPL4-UFD1 AAA ATPase complex
D0034517biological_processribophagy
D0034727biological_processpiecemeal microautophagy of the nucleus
D0036266cellular_componentCdc48p-Npl4p-Vms1p AAA ATPase complex
D0036503biological_processERAD pathway
D0042802molecular_functionidentical protein binding
D0043130molecular_functionubiquitin binding
D0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
D0043328biological_processprotein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway
D0043332cellular_componentmating projection tip
D0046034biological_processATP metabolic process
D0051228biological_processmitotic spindle disassembly
D0070651biological_processnonfunctional rRNA decay
D0071629biological_processcytoplasm protein quality control by the ubiquitin-proteasome system
D0071630biological_processnuclear protein quality control by the ubiquitin-proteasome system
D0072344biological_processrescue of stalled ribosome
D0072671biological_processmitochondria-associated ubiquitin-dependent protein catabolic process
D0097352biological_processautophagosome maturation
D0099638biological_processendosome to plasma membrane protein transport
D0120174biological_processstress-induced homeostatically regulated protein degradation pathway
D0140624biological_processEGAD pathway
D1900182biological_processpositive regulation of protein localization to nucleus
D1902979biological_processmitotic DNA replication termination
D1990112cellular_componentRQC complex
D1990116biological_processribosome-associated ubiquitin-dependent protein catabolic process
D1990171biological_processSCF complex disassembly in response to cadmium stress
E0000166molecular_functionnucleotide binding
E0000837cellular_componentDoa10p ubiquitin ligase complex
E0000839cellular_componentHrd1p ubiquitin ligase ERAD-L complex
E0005515molecular_functionprotein binding
E0005524molecular_functionATP binding
E0005634cellular_componentnucleus
E0005737cellular_componentcytoplasm
E0005739cellular_componentmitochondrion
E0005741cellular_componentmitochondrial outer membrane
E0005783cellular_componentendoplasmic reticulum
E0005789cellular_componentendoplasmic reticulum membrane
E0005829cellular_componentcytosol
E0006274biological_processDNA replication termination
E0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
E0010636biological_processpositive regulation of mitochondrial fusion
E0015031biological_processprotein transport
E0016236biological_processmacroautophagy
E0016320biological_processendoplasmic reticulum membrane fusion
E0016787molecular_functionhydrolase activity
E0016887molecular_functionATP hydrolysis activity
E0019888molecular_functionprotein phosphatase regulator activity
E0030894cellular_componentreplisome
E0030970biological_processretrograde protein transport, ER to cytosol
E0031134biological_processsister chromatid biorientation
E0031593molecular_functionpolyubiquitin modification-dependent protein binding
E0032984biological_processprotein-containing complex disassembly
E0034098cellular_componentVCP-NPL4-UFD1 AAA ATPase complex
E0034517biological_processribophagy
E0034727biological_processpiecemeal microautophagy of the nucleus
E0036266cellular_componentCdc48p-Npl4p-Vms1p AAA ATPase complex
E0036503biological_processERAD pathway
E0042802molecular_functionidentical protein binding
E0043130molecular_functionubiquitin binding
E0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
E0043328biological_processprotein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway
E0043332cellular_componentmating projection tip
E0046034biological_processATP metabolic process
E0051228biological_processmitotic spindle disassembly
E0070651biological_processnonfunctional rRNA decay
E0071629biological_processcytoplasm protein quality control by the ubiquitin-proteasome system
E0071630biological_processnuclear protein quality control by the ubiquitin-proteasome system
E0072344biological_processrescue of stalled ribosome
E0072671biological_processmitochondria-associated ubiquitin-dependent protein catabolic process
E0097352biological_processautophagosome maturation
E0099638biological_processendosome to plasma membrane protein transport
E0120174biological_processstress-induced homeostatically regulated protein degradation pathway
E0140624biological_processEGAD pathway
E1900182biological_processpositive regulation of protein localization to nucleus
E1902979biological_processmitotic DNA replication termination
E1990112cellular_componentRQC complex
E1990116biological_processribosome-associated ubiquitin-dependent protein catabolic process
E1990171biological_processSCF complex disassembly in response to cadmium stress
F0000166molecular_functionnucleotide binding
F0000837cellular_componentDoa10p ubiquitin ligase complex
F0000839cellular_componentHrd1p ubiquitin ligase ERAD-L complex
F0005515molecular_functionprotein binding
F0005524molecular_functionATP binding
F0005634cellular_componentnucleus
F0005737cellular_componentcytoplasm
F0005739cellular_componentmitochondrion
F0005741cellular_componentmitochondrial outer membrane
F0005783cellular_componentendoplasmic reticulum
F0005789cellular_componentendoplasmic reticulum membrane
F0005829cellular_componentcytosol
F0006274biological_processDNA replication termination
F0006515biological_processprotein quality control for misfolded or incompletely synthesized proteins
F0010636biological_processpositive regulation of mitochondrial fusion
F0015031biological_processprotein transport
F0016236biological_processmacroautophagy
F0016320biological_processendoplasmic reticulum membrane fusion
F0016787molecular_functionhydrolase activity
F0016887molecular_functionATP hydrolysis activity
F0019888molecular_functionprotein phosphatase regulator activity
F0030894cellular_componentreplisome
F0030970biological_processretrograde protein transport, ER to cytosol
F0031134biological_processsister chromatid biorientation
F0031593molecular_functionpolyubiquitin modification-dependent protein binding
F0032984biological_processprotein-containing complex disassembly
F0034098cellular_componentVCP-NPL4-UFD1 AAA ATPase complex
F0034517biological_processribophagy
F0034727biological_processpiecemeal microautophagy of the nucleus
F0036266cellular_componentCdc48p-Npl4p-Vms1p AAA ATPase complex
F0036503biological_processERAD pathway
F0042802molecular_functionidentical protein binding
F0043130molecular_functionubiquitin binding
F0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
F0043328biological_processprotein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway
F0043332cellular_componentmating projection tip
F0046034biological_processATP metabolic process
F0051228biological_processmitotic spindle disassembly
F0070651biological_processnonfunctional rRNA decay
F0071629biological_processcytoplasm protein quality control by the ubiquitin-proteasome system
F0071630biological_processnuclear protein quality control by the ubiquitin-proteasome system
F0072344biological_processrescue of stalled ribosome
F0072671biological_processmitochondria-associated ubiquitin-dependent protein catabolic process
F0097352biological_processautophagosome maturation
F0099638biological_processendosome to plasma membrane protein transport
F0120174biological_processstress-induced homeostatically regulated protein degradation pathway
F0140624biological_processEGAD pathway
F1900182biological_processpositive regulation of protein localization to nucleus
F1902979biological_processmitotic DNA replication termination
F1990112cellular_componentRQC complex
F1990116biological_processribosome-associated ubiquitin-dependent protein catabolic process
F1990171biological_processSCF complex disassembly in response to cadmium stress
H0000045biological_processautophagosome assembly
H0005515molecular_functionprotein binding
H0005634cellular_componentnucleus
H0005737cellular_componentcytoplasm
H0005829cellular_componentcytosol
H0005977biological_processglycogen metabolic process
H0007030biological_processGolgi organization
H0019888molecular_functionprotein phosphatase regulator activity
H0030437biological_processascospore formation
H0031134biological_processsister chromatid biorientation
H0031468biological_processnuclear membrane reassembly
H0034727biological_processpiecemeal microautophagy of the nucleus
H0036435molecular_functionK48-linked polyubiquitin modification-dependent protein binding
H0036503biological_processERAD pathway
H0043130molecular_functionubiquitin binding
H0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
H0061025biological_processmembrane fusion
I0000045biological_processautophagosome assembly
I0005515molecular_functionprotein binding
I0005634cellular_componentnucleus
I0005737cellular_componentcytoplasm
I0005829cellular_componentcytosol
I0005977biological_processglycogen metabolic process
I0007030biological_processGolgi organization
I0019888molecular_functionprotein phosphatase regulator activity
I0030437biological_processascospore formation
I0031134biological_processsister chromatid biorientation
I0031468biological_processnuclear membrane reassembly
I0034727biological_processpiecemeal microautophagy of the nucleus
I0036435molecular_functionK48-linked polyubiquitin modification-dependent protein binding
I0036503biological_processERAD pathway
I0043130molecular_functionubiquitin binding
I0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
I0061025biological_processmembrane fusion
J0000045biological_processautophagosome assembly
J0005515molecular_functionprotein binding
J0005634cellular_componentnucleus
J0005737cellular_componentcytoplasm
J0005829cellular_componentcytosol
J0005977biological_processglycogen metabolic process
J0007030biological_processGolgi organization
J0019888molecular_functionprotein phosphatase regulator activity
J0030437biological_processascospore formation
J0031134biological_processsister chromatid biorientation
J0031468biological_processnuclear membrane reassembly
J0034727biological_processpiecemeal microautophagy of the nucleus
J0036435molecular_functionK48-linked polyubiquitin modification-dependent protein binding
J0036503biological_processERAD pathway
J0043130molecular_functionubiquitin binding
J0043161biological_processproteasome-mediated ubiquitin-dependent protein catabolic process
J0061025biological_processmembrane fusion
Functional Information from PROSITE/UniProt
site_idPS00430
Number of Residues72
DetailsTONB_DEPENDENT_REC_1 TonB-dependent receptor (TBDR) proteins signature 1. mgeehkplldasgvdpreedktatailrrkkkdnmllvddainddnsviainsntmdklelfrg...................................................DTVLVKGK
ChainResidueDetails
AMET1-LYS72

site_idPS00674
Number of Residues19
DetailsAAA AAA-protein family signature. VvVIaATNrpnsIDpALr.R
ChainResidueDetails
AVAL351-ARG369
AVAL627-ARG645

Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues48
DetailsBinding site: {"evidences":[{"source":"UniProtKB","id":"P55072","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails

site_idSWS_FT_FI2
Number of Residues25
DetailsBinding site: {"evidences":[{"source":"UniProtKB","id":"Q01853","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails

site_idSWS_FT_FI3
Number of Residues4
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"18407956","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI4
Number of Residues5
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"17330950","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"19779198","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI5
Number of Residues5
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"17287358","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"17330950","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI6
Number of Residues30
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"PubMed","id":"22106047","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

site_idSWS_FT_FI7
Number of Residues18
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"PubMed","id":"12872131","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

site_idSWS_FT_FI8
Number of Residues3
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"19779198","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails

238895

PDB entries from 2025-07-16

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