9YW2

Complex structure of human p97 bound to Faf1 and Ufd1 (NTD focused)

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000153	cellular_component	cytoplasmic ubiquitin ligase complex
A	0000423	biological_process	mitophagy
A	0000502	cellular_component	proteasome complex
A	0003723	molecular_function	RNA binding
A	0005515	molecular_function	protein binding
A	0005524	molecular_function	ATP binding
A	0005576	cellular_component	extracellular region
A	0005634	cellular_component	nucleus
A	0005654	cellular_component	nucleoplasm
A	0005737	cellular_component	cytoplasm
A	0005783	cellular_component	endoplasmic reticulum
A	0005789	cellular_component	endoplasmic reticulum membrane
A	0005811	cellular_component	lipid droplet
A	0005829	cellular_component	cytosol
A	0006281	biological_process	DNA repair
A	0006302	biological_process	double-strand break repair
A	0006511	biological_process	ubiquitin-dependent protein catabolic process
A	0006888	biological_process	endoplasmic reticulum to Golgi vesicle-mediated transport
A	0006914	biological_process	autophagy
A	0006974	biological_process	DNA damage response
A	0010494	cellular_component	cytoplasmic stress granule
A	0010498	biological_process	proteasomal protein catabolic process
A	0010918	biological_process	positive regulation of mitochondrial membrane potential
A	0016236	biological_process	macroautophagy
A	0016567	biological_process	protein ubiquitination
A	0016887	molecular_function	ATP hydrolysis activity
A	0018023	biological_process	peptidyl-lysine trimethylation
A	0019079	biological_process	viral genome replication
A	0019674	biological_process	NAD+ metabolic process
A	0019903	molecular_function	protein phosphatase binding
A	0019904	molecular_function	protein domain specific binding
A	0019985	biological_process	translesion synthesis
A	0030968	biological_process	endoplasmic reticulum unfolded protein response
A	0030970	biological_process	retrograde protein transport, ER to cytosol
A	0031334	biological_process	positive regulation of protein-containing complex assembly
A	0031593	molecular_function	polyubiquitin modification-dependent protein binding
A	0031625	molecular_function	ubiquitin protein ligase binding
A	0032436	biological_process	positive regulation of proteasomal ubiquitin-dependent protein catabolic process
A	0032510	biological_process	endosome to lysosome transport via multivesicular body sorting pathway
A	0032991	cellular_component	protein-containing complex
A	0034098	cellular_component	VCP-NPL4-UFD1 AAA ATPase complex
A	0034605	biological_process	cellular response to heat
A	0034774	cellular_component	secretory granule lumen
A	0035331	biological_process	negative regulation of hippo signaling
A	0035578	cellular_component	azurophil granule lumen
A	0035617	biological_process	stress granule disassembly
A	0035800	molecular_function	deubiquitinase activator activity
A	0035861	cellular_component	site of double-strand break
A	0036297	biological_process	interstrand cross-link repair
A	0036435	molecular_function	K48-linked polyubiquitin modification-dependent protein binding
A	0036503	biological_process	ERAD pathway
A	0036513	cellular_component	Derlin-1 retrotranslocation complex
A	0042288	molecular_function	MHC class I protein binding
A	0042802	molecular_function	identical protein binding
A	0042981	biological_process	regulation of apoptotic process
A	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
A	0043231	cellular_component	intracellular membrane-bounded organelle
A	0043335	biological_process	protein unfolding
A	0043531	molecular_function	ADP binding
A	0044389	molecular_function	ubiquitin-like protein ligase binding
A	0044877	molecular_function	protein-containing complex binding
A	0045184	biological_process	establishment of protein localization
A	0045202	cellular_component	synapse
A	0045732	biological_process	positive regulation of protein catabolic process
A	0045879	biological_process	negative regulation of smoothened signaling pathway
A	0046034	biological_process	ATP metabolic process
A	0048471	cellular_component	perinuclear region of cytoplasm
A	0050807	biological_process	regulation of synapse organization
A	0051228	biological_process	mitotic spindle disassembly
A	0061857	biological_process	endoplasmic reticulum stress-induced pre-emptive quality control
A	0070062	cellular_component	extracellular exosome
A	0071218	biological_process	cellular response to misfolded protein
A	0072344	biological_process	rescue of stalled cytosolic ribosome
A	0072389	biological_process	flavin adenine dinucleotide catabolic process
A	0090263	biological_process	positive regulation of canonical Wnt signaling pathway
A	0097352	biological_process	autophagosome maturation
A	0098978	cellular_component	glutamatergic synapse
A	0106300	biological_process	protein-DNA covalent cross-linking repair
A	0120186	biological_process	negative regulation of protein localization to chromatin
A	0140036	molecular_function	ubiquitin-modified protein reader activity
A	0140455	biological_process	cytoplasm protein quality control
A	0140535	cellular_component	intracellular protein-containing complex
A	1901224	biological_process	positive regulation of non-canonical NF-kappaB signal transduction
A	1903006	biological_process	positive regulation of protein K63-linked deubiquitination
A	1903715	biological_process	regulation of aerobic respiration
A	1903843	biological_process	cellular response to arsenite ion
A	1903862	biological_process	positive regulation of oxidative phosphorylation
A	1904288	molecular_function	BAT3 complex binding
A	1904813	cellular_component	ficolin-1-rich granule lumen
A	1904949	cellular_component	ATPase complex
A	1905634	biological_process	regulation of protein localization to chromatin
A	1990112	cellular_component	RQC complex
A	1990116	biological_process	ribosome-associated ubiquitin-dependent protein catabolic process
A	1990381	molecular_function	ubiquitin-specific protease binding
A	1990730	cellular_component	VCP-NSFL1C complex
A	2000060	biological_process	positive regulation of ubiquitin-dependent protein catabolic process
A	2001171	biological_process	positive regulation of ATP biosynthetic process
H	0004364	molecular_function	glutathione transferase activity
H	0005515	molecular_function	protein binding
H	0005634	cellular_component	nucleus
H	0005635	cellular_component	nuclear envelope
H	0005654	cellular_component	nucleoplasm
H	0005737	cellular_component	cytoplasm
H	0005829	cellular_component	cytosol
H	0006511	biological_process	ubiquitin-dependent protein catabolic process
H	0006749	biological_process	glutathione metabolic process
H	0009966	biological_process	regulation of signal transduction
H	0010942	biological_process	obsolete positive regulation of cell death
H	0012505	cellular_component	endomembrane system
H	0019887	molecular_function	protein kinase regulator activity
H	0019901	molecular_function	protein kinase binding
H	0019904	molecular_function	protein domain specific binding
H	0031072	molecular_function	heat shock protein binding
H	0031265	cellular_component	CD95 death-inducing signaling complex
H	0031625	molecular_function	ubiquitin protein ligase binding
H	0034098	cellular_component	VCP-NPL4-UFD1 AAA ATPase complex
H	0036337	biological_process	Fas signaling pathway
H	0036503	biological_process	ERAD pathway
H	0042176	biological_process	regulation of protein catabolic process
H	0043065	biological_process	positive regulation of apoptotic process
H	0043124	biological_process	negative regulation of canonical NF-kappaB signal transduction
H	0043130	molecular_function	ubiquitin binding
H	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
H	0045732	biological_process	positive regulation of protein catabolic process
H	0045740	biological_process	positive regulation of DNA replication
H	0048471	cellular_component	perinuclear region of cytoplasm
H	0051059	molecular_function	NF-kappaB binding
H	1904949	cellular_component	ATPase complex
I	0001501	biological_process	skeletal system development
I	0004843	molecular_function	cysteine-type deubiquitinase activity
I	0005515	molecular_function	protein binding
I	0005634	cellular_component	nucleus
I	0005654	cellular_component	nucleoplasm
I	0005737	cellular_component	cytoplasm
I	0005829	cellular_component	cytosol
I	0006511	biological_process	ubiquitin-dependent protein catabolic process
I	0030970	biological_process	retrograde protein transport, ER to cytosol
I	0031593	molecular_function	polyubiquitin modification-dependent protein binding
I	0032480	biological_process	negative regulation of type I interferon production
I	0034098	cellular_component	VCP-NPL4-UFD1 AAA ATPase complex
I	0036435	molecular_function	K48-linked polyubiquitin modification-dependent protein binding
I	0036501	cellular_component	UFD1-NPL4 complex
I	0036503	biological_process	ERAD pathway
I	0039536	biological_process	negative regulation of RIG-I signaling pathway
I	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
I	0071218	biological_process	cellular response to misfolded protein
I	0072344	biological_process	rescue of stalled cytosolic ribosome
I	1904949	cellular_component	ATPase complex
I	1990112	cellular_component	RQC complex
I	1990116	biological_process	ribosome-associated ubiquitin-dependent protein catabolic process

Functional Information from PROSITE/UniProt

site_id	PS00674
Number of Residues	19
Details	AAA AAA-protein family signature. ViVMaATNrpnsIDpALr.R

Chain	Residue	Details
A	VAL341-ARG359
A	VAL617-ARG635

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Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	1
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"19369195","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

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site_id	SWS_FT_FI2
Number of Residues	1
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)","evidences":[{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

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site_id	SWS_FT_FI3
Number of Residues	2
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in UFM1)","evidences":[{"source":"PubMed","id":"38762759","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

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site_id	SWS_FT_FI4
Number of Residues	77
Details	Domain: {"description":"UBX","evidences":[{"source":"PROSITE-ProRule","id":"PRU00215","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	1
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

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site_id	SWS_FT_FI6
Number of Residues	1
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI7
Number of Residues	1
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"20068231","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

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