9G8P

40S-bound human SKI2-exosome complex

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0000166	molecular_function	nucleotide binding
A	0003676	molecular_function	nucleic acid binding
A	0003723	molecular_function	RNA binding
A	0003724	molecular_function	RNA helicase activity
A	0004386	molecular_function	helicase activity
A	0005515	molecular_function	protein binding
A	0005524	molecular_function	ATP binding
A	0005634	cellular_component	nucleus
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0006401	biological_process	RNA catabolic process
A	0016787	molecular_function	hydrolase activity
A	0016887	molecular_function	ATP hydrolysis activity
A	0034458	molecular_function	3'-5' RNA helicase activity
A	0055087	cellular_component	Ski complex
A	0070478	biological_process	nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay
A	0072344	biological_process	rescue of stalled ribosome
F	0000175	molecular_function	3'-5'-RNA exonuclease activity
F	0000176	cellular_component	nuclear exosome (RNase complex)
F	0000177	cellular_component	cytoplasmic exosome (RNase complex)
F	0000178	cellular_component	exosome (RNase complex)
F	0000467	biological_process	exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
F	0003723	molecular_function	RNA binding
F	0004532	molecular_function	RNA exonuclease activity
F	0005515	molecular_function	protein binding
F	0005634	cellular_component	nucleus
F	0005654	cellular_component	nucleoplasm
F	0005730	cellular_component	nucleolus
F	0005737	cellular_component	cytoplasm
F	0005829	cellular_component	cytosol
F	0006364	biological_process	rRNA processing
F	0006396	biological_process	RNA processing
F	0006401	biological_process	RNA catabolic process
F	0016075	biological_process	rRNA catabolic process
F	0034473	biological_process	U1 snRNA 3'-end processing
F	0034475	biological_process	U4 snRNA 3'-end processing
F	0034476	biological_process	U5 snRNA 3'-end processing
F	0035925	molecular_function	mRNA 3'-UTR AU-rich region binding
F	0071028	biological_process	nuclear mRNA surveillance
F	0071035	biological_process	nuclear polyadenylation-dependent rRNA catabolic process
F	0071038	biological_process	TRAMP-dependent tRNA surveillance pathway
F	0101019	cellular_component	nucleolar exosome (RNase complex)
F	1905354	cellular_component	exoribonuclease complex
G	0000176	cellular_component	nuclear exosome (RNase complex)
G	0000177	cellular_component	cytoplasmic exosome (RNase complex)
G	0000178	cellular_component	exosome (RNase complex)
G	0003723	molecular_function	RNA binding
G	0004532	molecular_function	RNA exonuclease activity
G	0005634	cellular_component	nucleus
G	0005654	cellular_component	nucleoplasm
G	0005730	cellular_component	nucleolus
G	0005737	cellular_component	cytoplasm
G	0005829	cellular_component	cytosol
G	0006259	biological_process	DNA metabolic process
G	0006364	biological_process	rRNA processing
G	0006396	biological_process	RNA processing
G	0006401	biological_process	RNA catabolic process
G	0016075	biological_process	rRNA catabolic process
G	0034475	biological_process	U4 snRNA 3'-end processing
G	0045006	biological_process	DNA deamination
G	0045190	biological_process	isotype switching
G	0045830	biological_process	positive regulation of isotype switching
G	0071028	biological_process	nuclear mRNA surveillance
G	0071051	biological_process	poly(A)-dependent snoRNA 3'-end processing
G	0101019	cellular_component	nucleolar exosome (RNase complex)
H	0000175	molecular_function	3'-5'-RNA exonuclease activity
H	0000176	cellular_component	nuclear exosome (RNase complex)
H	0000177	cellular_component	cytoplasmic exosome (RNase complex)
H	0000178	cellular_component	exosome (RNase complex)
H	0000467	biological_process	exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
H	0000791	cellular_component	euchromatin
H	0000956	biological_process	nuclear-transcribed mRNA catabolic process
H	0003723	molecular_function	RNA binding
H	0004532	molecular_function	RNA exonuclease activity
H	0005515	molecular_function	protein binding
H	0005634	cellular_component	nucleus
H	0005654	cellular_component	nucleoplasm
H	0005730	cellular_component	nucleolus
H	0005737	cellular_component	cytoplasm
H	0005829	cellular_component	cytosol
H	0006259	biological_process	DNA metabolic process
H	0006364	biological_process	rRNA processing
H	0006396	biological_process	RNA processing
H	0006401	biological_process	RNA catabolic process
H	0006402	biological_process	mRNA catabolic process
H	0010467	biological_process	gene expression
H	0010468	biological_process	regulation of gene expression
H	0034475	biological_process	U4 snRNA 3'-end processing
H	0045006	biological_process	DNA deamination
H	0045190	biological_process	isotype switching
H	0045830	biological_process	positive regulation of isotype switching
H	0071034	biological_process	CUT catabolic process
H	0071035	biological_process	nuclear polyadenylation-dependent rRNA catabolic process
H	0071038	biological_process	TRAMP-dependent tRNA surveillance pathway
H	0071051	biological_process	poly(A)-dependent snoRNA 3'-end processing
H	0101019	cellular_component	nucleolar exosome (RNase complex)
I	0000175	molecular_function	3'-5'-RNA exonuclease activity
I	0000176	cellular_component	nuclear exosome (RNase complex)
I	0000177	cellular_component	cytoplasmic exosome (RNase complex)
I	0000178	cellular_component	exosome (RNase complex)
I	0000467	biological_process	exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
I	0000956	biological_process	nuclear-transcribed mRNA catabolic process
I	0003723	molecular_function	RNA binding
I	0004532	molecular_function	RNA exonuclease activity
I	0005515	molecular_function	protein binding
I	0005634	cellular_component	nucleus
I	0005654	cellular_component	nucleoplasm
I	0005730	cellular_component	nucleolus
I	0005737	cellular_component	cytoplasm
I	0005829	cellular_component	cytosol
I	0006364	biological_process	rRNA processing
I	0006396	biological_process	RNA processing
I	0006401	biological_process	RNA catabolic process
I	0008312	molecular_function	7S RNA binding
I	0030307	biological_process	positive regulation of cell growth
I	0034475	biological_process	U4 snRNA 3'-end processing
I	0071034	biological_process	CUT catabolic process
I	0071035	biological_process	nuclear polyadenylation-dependent rRNA catabolic process
I	0071038	biological_process	TRAMP-dependent tRNA surveillance pathway
I	0071051	biological_process	poly(A)-dependent snoRNA 3'-end processing
I	0101019	cellular_component	nucleolar exosome (RNase complex)
J	0000176	cellular_component	nuclear exosome (RNase complex)
J	0000177	cellular_component	cytoplasmic exosome (RNase complex)
J	0000178	cellular_component	exosome (RNase complex)
J	0003676	molecular_function	nucleic acid binding
J	0003723	molecular_function	RNA binding
J	0004532	molecular_function	RNA exonuclease activity
J	0005515	molecular_function	protein binding
J	0005634	cellular_component	nucleus
J	0005654	cellular_component	nucleoplasm
J	0005730	cellular_component	nucleolus
J	0005737	cellular_component	cytoplasm
J	0005829	cellular_component	cytosol
J	0006364	biological_process	rRNA processing
J	0006396	biological_process	RNA processing
J	0006401	biological_process	RNA catabolic process
J	0101019	cellular_component	nucleolar exosome (RNase complex)
K	0000175	molecular_function	3'-5'-RNA exonuclease activity
K	0000176	cellular_component	nuclear exosome (RNase complex)
K	0000177	cellular_component	cytoplasmic exosome (RNase complex)
K	0000178	cellular_component	exosome (RNase complex)
K	0000228	cellular_component	nuclear chromosome
K	0000467	biological_process	exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
K	0000956	biological_process	nuclear-transcribed mRNA catabolic process
K	0003723	molecular_function	RNA binding
K	0004532	molecular_function	RNA exonuclease activity
K	0005515	molecular_function	protein binding
K	0005634	cellular_component	nucleus
K	0005654	cellular_component	nucleoplasm
K	0005730	cellular_component	nucleolus
K	0005737	cellular_component	cytoplasm
K	0005829	cellular_component	cytosol
K	0006364	biological_process	rRNA processing
K	0006396	biological_process	RNA processing
K	0006401	biological_process	RNA catabolic process
K	0006402	biological_process	mRNA catabolic process
K	0006955	biological_process	immune response
K	0016075	biological_process	rRNA catabolic process
K	0030307	biological_process	positive regulation of cell growth
K	0034473	biological_process	U1 snRNA 3'-end processing
K	0034475	biological_process	U4 snRNA 3'-end processing
K	0034476	biological_process	U5 snRNA 3'-end processing
K	0035925	molecular_function	mRNA 3'-UTR AU-rich region binding
K	0045944	biological_process	positive regulation of transcription by RNA polymerase II
K	0061629	molecular_function	RNA polymerase II-specific DNA-binding transcription factor binding
K	0070062	cellular_component	extracellular exosome
K	0071028	biological_process	nuclear mRNA surveillance
K	0071035	biological_process	nuclear polyadenylation-dependent rRNA catabolic process
K	0071038	biological_process	TRAMP-dependent tRNA surveillance pathway
K	0101019	cellular_component	nucleolar exosome (RNase complex)
K	1905354	cellular_component	exoribonuclease complex
L	0000175	molecular_function	3'-5'-RNA exonuclease activity
L	0000176	cellular_component	nuclear exosome (RNase complex)
L	0000177	cellular_component	cytoplasmic exosome (RNase complex)
L	0000178	cellular_component	exosome (RNase complex)
L	0000460	biological_process	maturation of 5.8S rRNA
L	0000791	cellular_component	euchromatin
L	0000956	biological_process	nuclear-transcribed mRNA catabolic process
L	0003723	molecular_function	RNA binding
L	0004532	molecular_function	RNA exonuclease activity
L	0005515	molecular_function	protein binding
L	0005634	cellular_component	nucleus
L	0005654	cellular_component	nucleoplasm
L	0005730	cellular_component	nucleolus
L	0005737	cellular_component	cytoplasm
L	0005829	cellular_component	cytosol
L	0006364	biological_process	rRNA processing
L	0006396	biological_process	RNA processing
L	0006401	biological_process	RNA catabolic process
L	0016075	biological_process	rRNA catabolic process
L	0030307	biological_process	positive regulation of cell growth
L	0034475	biological_process	U4 snRNA 3'-end processing
L	0035925	molecular_function	mRNA 3'-UTR AU-rich region binding
L	0045006	biological_process	DNA deamination
L	0051607	biological_process	defense response to virus
L	0071028	biological_process	nuclear mRNA surveillance
L	0071044	biological_process	histone mRNA catabolic process
L	0071051	biological_process	poly(A)-dependent snoRNA 3'-end processing
L	0101019	cellular_component	nucleolar exosome (RNase complex)
L	1905354	cellular_component	exoribonuclease complex
M	0000175	molecular_function	3'-5'-RNA exonuclease activity
M	0000177	cellular_component	cytoplasmic exosome (RNase complex)
M	0000178	cellular_component	exosome (RNase complex)
M	0003723	molecular_function	RNA binding
M	0004518	molecular_function	nuclease activity
M	0004527	molecular_function	exonuclease activity
M	0004540	molecular_function	RNA nuclease activity
M	0005515	molecular_function	protein binding
M	0005737	cellular_component	cytoplasm
M	0005813	cellular_component	centrosome
M	0005829	cellular_component	cytosol
M	0005886	cellular_component	plasma membrane
M	0006396	biological_process	RNA processing
M	0006401	biological_process	RNA catabolic process
M	0006402	biological_process	mRNA catabolic process
M	0008859	molecular_function	exoribonuclease II activity
M	0010467	biological_process	gene expression
M	0016075	biological_process	rRNA catabolic process
M	0016787	molecular_function	hydrolase activity
M	0019899	molecular_function	enzyme binding
M	0036064	cellular_component	ciliary basal body
N	0000176	cellular_component	nuclear exosome (RNase complex)
N	0000177	cellular_component	cytoplasmic exosome (RNase complex)
N	0000178	cellular_component	exosome (RNase complex)
N	0000467	biological_process	exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
N	0001650	cellular_component	fibrillar center
N	0003723	molecular_function	RNA binding
N	0004532	molecular_function	RNA exonuclease activity
N	0005515	molecular_function	protein binding
N	0005634	cellular_component	nucleus
N	0005654	cellular_component	nucleoplasm
N	0005694	cellular_component	chromosome
N	0005730	cellular_component	nucleolus
N	0005737	cellular_component	cytoplasm
N	0005829	cellular_component	cytosol
N	0006364	biological_process	rRNA processing
N	0006396	biological_process	RNA processing
N	0006401	biological_process	RNA catabolic process
N	0016075	biological_process	rRNA catabolic process
N	0034473	biological_process	U1 snRNA 3'-end processing
N	0034475	biological_process	U4 snRNA 3'-end processing
N	0034476	biological_process	U5 snRNA 3'-end processing
N	0035925	molecular_function	mRNA 3'-UTR AU-rich region binding
N	0042802	molecular_function	identical protein binding
N	0071028	biological_process	nuclear mRNA surveillance
N	0071035	biological_process	nuclear polyadenylation-dependent rRNA catabolic process
N	0071038	biological_process	TRAMP-dependent tRNA surveillance pathway
N	0101019	cellular_component	nucleolar exosome (RNase complex)
N	1905354	cellular_component	exoribonuclease complex
O	0000175	molecular_function	3'-5'-RNA exonuclease activity
O	0000176	cellular_component	nuclear exosome (RNase complex)
O	0000177	cellular_component	cytoplasmic exosome (RNase complex)
O	0000178	cellular_component	exosome (RNase complex)
O	0000791	cellular_component	euchromatin
O	0003677	molecular_function	DNA binding
O	0003723	molecular_function	RNA binding
O	0004532	molecular_function	RNA exonuclease activity
O	0005515	molecular_function	protein binding
O	0005634	cellular_component	nucleus
O	0005654	cellular_component	nucleoplasm
O	0005730	cellular_component	nucleolus
O	0005737	cellular_component	cytoplasm
O	0005829	cellular_component	cytosol
O	0006364	biological_process	rRNA processing
O	0006396	biological_process	RNA processing
O	0006401	biological_process	RNA catabolic process
O	0006402	biological_process	mRNA catabolic process
O	0016075	biological_process	rRNA catabolic process
O	0034475	biological_process	U4 snRNA 3'-end processing
O	0045006	biological_process	DNA deamination
O	0051607	biological_process	defense response to virus
O	0071028	biological_process	nuclear mRNA surveillance
O	0071051	biological_process	poly(A)-dependent snoRNA 3'-end processing
O	0101019	cellular_component	nucleolar exosome (RNase complex)
O	1905354	cellular_component	exoribonuclease complex

Functional Information from PROSITE/UniProt

site_id	PS01175
Number of Residues	25
Details	RIBONUCLEASE_II Ribonuclease II family signature. HYGLaldk.YThFTSPIRRYsDivvH

Chain	Residue	Details
M	HIS784-HIS808

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	1
Details	Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI2
Number of Residues	3
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI3
Number of Residues	2
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

---

site_id	SWS_FT_FI4
Number of Residues	161
Details	Domain: {"description":"S1 motif"}

Chain

Residue

Details

---

site_id	SWS_FT_FI5
Number of Residues	1
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"18669648","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"18691976","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"20068231","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI6
Number of Residues	156
Details	Domain: {"description":"Helicase ATP-binding","evidences":[{"source":"PROSITE-ProRule","id":"PRU00541","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI7
Number of Residues	170
Details	Domain: {"description":"Helicase C-terminal","evidences":[{"source":"PROSITE-ProRule","id":"PRU00542","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI8
Number of Residues	3
Details	Motif: {"description":"DEVH box","evidences":[{"source":"PubMed","id":"35120588","evidenceCode":"ECO:0000305"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI9
Number of Residues	7
Details	Binding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU00541","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI10
Number of Residues	1
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"19690332","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"20068231","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI11
Number of Residues	1
Details	Modified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI12
Number of Residues	267
Details	Region: {"description":"ARE binding","evidences":[{"source":"PubMed","id":"16912217","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI13
Number of Residues	1
Details	Modified residue: {"description":"N6-acetyllysine; alternate","evidences":[{"source":"PubMed","id":"19608861","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI14
Number of Residues	1
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"18669648","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"19690332","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"20068231","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"21406692","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"23186163","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"24275569","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI15
Number of Residues	3
Details	Modified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"24275569","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI16
Number of Residues	2
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2); alternate","evidences":[{"source":"PubMed","id":"25218447","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"25755297","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"25772364","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"28112733","evidenceCode":"ECO:0007744"}]}

Chain

Residue

Details

---

site_id	SWS_FT_FI17
Number of Residues	66
Details	Domain: {"description":"CSD2","evidences":[{"evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

---