11SY

Cryo-EM structure of substrate engaged p97-Ufd1-NPL4-Faf1 complex (NPL4 focused)

Functional Information from GO Data

Chain	GOid	namespace	contents
G	0005515	molecular_function	protein binding
G	0005634	cellular_component	nucleus
G	0005654	cellular_component	nucleoplasm
G	0005783	cellular_component	endoplasmic reticulum
G	0005829	cellular_component	cytosol
G	0006511	biological_process	ubiquitin-dependent protein catabolic process
G	0007030	biological_process	Golgi organization
G	0030970	biological_process	retrograde protein transport, ER to cytosol
G	0031593	molecular_function	polyubiquitin modification-dependent protein binding
G	0031625	molecular_function	ubiquitin protein ligase binding
G	0032480	biological_process	negative regulation of type I interferon production
G	0034098	cellular_component	VCP-NPL4-UFD1 AAA ATPase complex
G	0036435	molecular_function	K48-linked polyubiquitin modification-dependent protein binding
G	0036501	cellular_component	UFD1-NPL4 complex
G	0036503	biological_process	ERAD pathway
G	0039536	biological_process	negative regulation of RIG-I signaling pathway
G	0042175	cellular_component	nuclear outer membrane-endoplasmic reticulum membrane network
G	0043130	molecular_function	ubiquitin binding
G	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
G	0044877	molecular_function	protein-containing complex binding
G	0051117	molecular_function	ATPase binding
G	0070530	molecular_function	K63-linked polyubiquitin modification-dependent protein binding
G	0072344	biological_process	rescue of stalled cytosolic ribosome
G	1904949	cellular_component	ATPase complex
G	1990112	cellular_component	RQC complex
G	1990116	biological_process	ribosome-associated ubiquitin-dependent protein catabolic process
P	0001501	biological_process	skeletal system development
P	0004843	molecular_function	cysteine-type deubiquitinase activity
P	0005515	molecular_function	protein binding
P	0005634	cellular_component	nucleus
P	0005654	cellular_component	nucleoplasm
P	0005829	cellular_component	cytosol
P	0006511	biological_process	ubiquitin-dependent protein catabolic process
P	0030970	biological_process	retrograde protein transport, ER to cytosol
P	0031593	molecular_function	polyubiquitin modification-dependent protein binding
P	0032480	biological_process	negative regulation of type I interferon production
P	0034098	cellular_component	VCP-NPL4-UFD1 AAA ATPase complex
P	0036435	molecular_function	K48-linked polyubiquitin modification-dependent protein binding
P	0036501	cellular_component	UFD1-NPL4 complex
P	0036503	biological_process	ERAD pathway
P	0039536	biological_process	negative regulation of RIG-I signaling pathway
P	0043161	biological_process	proteasome-mediated ubiquitin-dependent protein catabolic process
P	0071218	biological_process	cellular response to misfolded protein
P	0072344	biological_process	rescue of stalled cytosolic ribosome
P	1904949	cellular_component	ATPase complex
P	1990112	cellular_component	RQC complex
P	1990116	biological_process	ribosome-associated ubiquitin-dependent protein catabolic process

Functional Information from PROSITE/UniProt

site_id	PS00299
Number of Residues	26
Details	UBIQUITIN_1 Ubiquitin domain signature. KakIqDkegIPpdqQrLIFaGkqleD

Chain	Residue	Details
H	LYS27-ASP52

---

site_id	PS01358
Number of Residues	20
Details	ZF_RANBP2_1 Zinc finger RanBP2-type signature. WaCqh..CtfmNqpgtghCemC

Chain	Residue	Details
G	TRP584-CYS603

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	137
Details	Domain: {"description":"MPN","evidences":[{"source":"PROSITE-ProRule","id":"PRU01182","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	1
Details	Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"UniProtKB","id":"P60670","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	225
Details	Domain: {"description":"Ubiquitin-like 9","evidences":[{"source":"PROSITE-ProRule","id":"PRU00214","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---