Structure of PDB 6opc Chain E

Receptor sequence
>6opcE (length=716) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence]
KKDNMLLVDDAINDDNSVIAINSNTMDKLELFRGDTVLVKGKKRKDTVLI
VLIDDELEDGACRINRVVRNNLRIRLGDLVTIHPCPDIKYATRISVLPIA
DTIEGITGNLFDVFLKPYFVEAYRPVRKGDHFVVRGGMRQVEFKVVDVEP
EEYAVVAQDTIIHWEGEPINREDEENNMNEVGYDDIGGCRKQMAQIREMV
ELPLRHPQLFKAIGIKPPRGVLMYGPPGTGKTLMARAVANETGAFFFLIN
GPEVMSKMAGESESNLRKAFEEAEKNAPAIIFIDEIDSIAPKRDKTNGEV
ERRVVSQLLTLMDGMKARSNVVVIAATNRPNSIDPALRRFGRFDREVDIG
IPDATGRLEVLRIHTKNMKLADDVDLEALAAETHGYVGADIASLCSEAAM
QQIREKMDLIDLDEDEIDAEVLDSLGVTMDNFRFALGNSVNVTWDDVGGL
DEIKEELKETVEYPVLHPDQYTKFGLSPSKGVLFYGPPGTGKTLLAKAVA
TEVSANFISVKGPELLSMWYGESESNIRDIFDKARAAAPTVVFLDELDSI
AKARGGSLGDAGGASDRVVNQLLTEMDGMNAKKNVFVIGATNRPDQIDPA
ILRPGRLDQLIYVPLPDENARLSILNAQLRKTPLEPGLELTAIAKATQGF
SGADLLYIVQRAAKYAIKDSIYITKEHFAEAMKTAKRSVSDAELRRYEAY
SQQMKASRGQFSNFNF
3D structure
PDB6opc Structure of the Cdc48 segregase in the act of unfolding an authentic substrate.
ChainE
Resolution3.7 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.6.4.6: vesicle-fusing ATPase.
Interaction with ligand
Site
#
Ligand Ligand
chain
Binding residues on receptor
(original residue number in PDB)
Binding residues on receptor
(residue number reindexed from 1)
Binding affinity
BS01 peptide E M560 W561 Y562 M518 W519 Y520
BS02 ADP E D343 R369 D313 R339
BS03 ADP E G490 P530 G531 T532 G533 K534 T535 I666 Q670 G694 L698 G448 P488 G489 T490 G491 K492 T493 I624 Q628 G652 L656
BS04 ADP E D215 G217 G258 T259 G260 T262 L263 H394 A419 D185 G187 G228 T229 G230 T232 L233 H364 A389
Gene Ontology
Molecular Function
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016787 hydrolase activity
GO:0016887 ATP hydrolysis activity
GO:0019888 protein phosphatase regulator activity
GO:0031593 polyubiquitin modification-dependent protein binding
GO:0042802 identical protein binding
GO:0043130 ubiquitin binding
Biological Process
GO:0006274 DNA replication termination
GO:0006515 protein quality control for misfolded or incompletely synthesized proteins
GO:0010636 positive regulation of mitochondrial fusion
GO:0015031 protein transport
GO:0016236 macroautophagy
GO:0016320 endoplasmic reticulum membrane fusion
GO:0030970 retrograde protein transport, ER to cytosol
GO:0031134 sister chromatid biorientation
GO:0032984 protein-containing complex disassembly
GO:0034517 ribophagy
GO:0034727 piecemeal microautophagy of the nucleus
GO:0036503 ERAD pathway
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process
GO:0043328 protein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway
GO:0046034 ATP metabolic process
GO:0051228 mitotic spindle disassembly
GO:0070651 nonfunctional rRNA decay
GO:0071629 cytoplasm protein quality control by the ubiquitin-proteasome system
GO:0071630 nuclear protein quality control by the ubiquitin-proteasome system
GO:0072344 rescue of stalled ribosome
GO:0072671 mitochondria-associated ubiquitin-dependent protein catabolic process
GO:0097352 autophagosome maturation
GO:0099638 endosome to plasma membrane protein transport
GO:0120174 stress-induced homeostatically regulated protein degradation pathway
GO:1900182 positive regulation of protein localization to nucleus
GO:1902979 mitotic DNA replication termination
GO:1990116 ribosome-associated ubiquitin-dependent protein catabolic process
GO:1990171 SCF complex disassembly in response to cadmium stress
Cellular Component
GO:0000837 Doa10p ubiquitin ligase complex
GO:0000839 Hrd1p ubiquitin ligase ERAD-L complex
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0005783 endoplasmic reticulum
GO:0005789 endoplasmic reticulum membrane
GO:0005829 cytosol
GO:0030894 replisome
GO:0034098 VCP-NPL4-UFD1 AAA ATPase complex
GO:0036266 Cdc48p-Npl4p-Vms1p AAA ATPase complex
GO:0043332 mating projection tip
GO:1990112 RQC complex

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:6opc, PDBe:6opc, PDBj:6opc
PDBsum6opc
PubMed31249134
UniProtP25694|CDC48_YEAST Cell division control protein 48 (Gene Name=CDC48)

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