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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

8C83

Cryo-EM structure of in vitro reconstituted Otu2-bound Ub-40S complex

Functional Information from GO Data
ChainGOidnamespacecontents
a0000447biological_processendonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
a0000461biological_processendonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
a0002181biological_processcytoplasmic translation
a0003735molecular_functionstructural constituent of ribosome
a0005737cellular_componentcytoplasm
a0005829cellular_componentcytosol
a0005840cellular_componentribosome
a0006412biological_processtranslation
a0022627cellular_componentcytosolic small ribosomal subunit
b0002181biological_processcytoplasmic translation
b0003735molecular_functionstructural constituent of ribosome
b0005737cellular_componentcytoplasm
b0005829cellular_componentcytosol
b0005840cellular_componentribosome
b0006412biological_processtranslation
b0022627cellular_componentcytosolic small ribosomal subunit
c0000462biological_processmaturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
c0003735molecular_functionstructural constituent of ribosome
c0005737cellular_componentcytoplasm
c0005829cellular_componentcytosol
c0005840cellular_componentribosome
c0006412biological_processtranslation
c0006450biological_processregulation of translational fidelity
c0015935cellular_componentsmall ribosomal subunit
c0022627cellular_componentcytosolic small ribosomal subunit
c1990145biological_processmaintenance of translational fidelity
d0000462biological_processmaturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
d0002181biological_processcytoplasmic translation
d0003735molecular_functionstructural constituent of ribosome
d0005737cellular_componentcytoplasm
d0005739cellular_componentmitochondrion
d0005829cellular_componentcytosol
d0005840cellular_componentribosome
d0006412biological_processtranslation
d0022627cellular_componentcytosolic small ribosomal subunit
f0000028biological_processribosomal small subunit assembly
f0000462biological_processmaturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
f0003735molecular_functionstructural constituent of ribosome
f0005737cellular_componentcytoplasm
f0005829cellular_componentcytosol
f0005840cellular_componentribosome
f0006364biological_processrRNA processing
f0006412biological_processtranslation
f0008270molecular_functionzinc ion binding
f0022627cellular_componentcytosolic small ribosomal subunit
g0002181biological_processcytoplasmic translation
g0003735molecular_functionstructural constituent of ribosome
g0005737cellular_componentcytoplasm
g0005829cellular_componentcytosol
g0005840cellular_componentribosome
g0006412biological_processtranslation
g0006451biological_processtranslational readthrough
g0010494cellular_componentcytoplasmic stress granule
g0022627cellular_componentcytosolic small ribosomal subunit
P0000028biological_processribosomal small subunit assembly
P0000054biological_processribosomal subunit export from nucleus
P0000447biological_processendonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
P0000461biological_processendonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
P0002181biological_processcytoplasmic translation
P0003735molecular_functionstructural constituent of ribosome
P0005737cellular_componentcytoplasm
P0005829cellular_componentcytosol
P0005840cellular_componentribosome
P0006412biological_processtranslation
P0010494cellular_componentcytoplasmic stress granule
P0015935cellular_componentsmall ribosomal subunit
P0022627cellular_componentcytosolic small ribosomal subunit
P0030686cellular_component90S preribosome
R0000054biological_processribosomal subunit export from nucleus
R0002181biological_processcytoplasmic translation
R0003723molecular_functionRNA binding
R0003735molecular_functionstructural constituent of ribosome
R0005515molecular_functionprotein binding
R0005654cellular_componentnucleoplasm
R0005730cellular_componentnucleolus
R0005737cellular_componentcytoplasm
R0005829cellular_componentcytosol
R0005840cellular_componentribosome
R0006412biological_processtranslation
R0015935cellular_componentsmall ribosomal subunit
R0022627cellular_componentcytosolic small ribosomal subunit
R0032040cellular_componentsmall-subunit processome
R0045903biological_processpositive regulation of translational fidelity
R0070181molecular_functionsmall ribosomal subunit rRNA binding
S0002181biological_processcytoplasmic translation
S0003723molecular_functionRNA binding
S0003735molecular_functionstructural constituent of ribosome
S0005737cellular_componentcytoplasm
S0005829cellular_componentcytosol
S0005840cellular_componentribosome
S0006412biological_processtranslation
S0022627cellular_componentcytosolic small ribosomal subunit
S0030686cellular_component90S preribosome
T0000462biological_processmaturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
T0003735molecular_functionstructural constituent of ribosome
T0005654cellular_componentnucleoplasm
T0005730cellular_componentnucleolus
T0005737cellular_componentcytoplasm
T0005829cellular_componentcytosol
T0005840cellular_componentribosome
T0006412biological_processtranslation
T0022627cellular_componentcytosolic small ribosomal subunit
T0030686cellular_component90S preribosome
T0032040cellular_componentsmall-subunit processome
U0002181biological_processcytoplasmic translation
U0003735molecular_functionstructural constituent of ribosome
U0005654cellular_componentnucleoplasm
U0005730cellular_componentnucleolus
U0005737cellular_componentcytoplasm
U0005829cellular_componentcytosol
U0005840cellular_componentribosome
U0006364biological_processrRNA processing
U0006412biological_processtranslation
U0022627cellular_componentcytosolic small ribosomal subunit
U0030686cellular_component90S preribosome
U0032040cellular_componentsmall-subunit processome
U0042254biological_processribosome biogenesis
U0042274biological_processribosomal small subunit biogenesis
V0000462biological_processmaturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
V0002181biological_processcytoplasmic translation
V0003735molecular_functionstructural constituent of ribosome
V0005737cellular_componentcytoplasm
V0005829cellular_componentcytosol
V0005840cellular_componentribosome
V0006412biological_processtranslation
V0022627cellular_componentcytosolic small ribosomal subunit
V0030686cellular_component90S preribosome
W0000462biological_processmaturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
W0003723molecular_functionRNA binding
W0003735molecular_functionstructural constituent of ribosome
W0005515molecular_functionprotein binding
W0005654cellular_componentnucleoplasm
W0005730cellular_componentnucleolus
W0005737cellular_componentcytoplasm
W0005829cellular_componentcytosol
W0006412biological_processtranslation
W0015935cellular_componentsmall ribosomal subunit
W0019843molecular_functionrRNA binding
W0022627cellular_componentcytosolic small ribosomal subunit
W0030476biological_processascospore wall assembly
W0030686cellular_component90S preribosome
W0032040cellular_componentsmall-subunit processome
W0042274biological_processribosomal small subunit biogenesis
x0003674molecular_functionmolecular_function
x0004843molecular_functioncysteine-type deubiquitinase activity
x0005737cellular_componentcytoplasm
x0008150biological_processbiological_process
X0000028biological_processribosomal small subunit assembly
X0000462biological_processmaturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
X0003735molecular_functionstructural constituent of ribosome
X0005737cellular_componentcytoplasm
X0005829cellular_componentcytosol
X0005840cellular_componentribosome
X0006412biological_processtranslation
X0022627cellular_componentcytosolic small ribosomal subunit
X0030686cellular_component90S preribosome
Y0000462biological_processmaturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
Y0002181biological_processcytoplasmic translation
Y0003735molecular_functionstructural constituent of ribosome
Y0005737cellular_componentcytoplasm
Y0005829cellular_componentcytosol
Y0005840cellular_componentribosome
Y0006412biological_processtranslation
Y0022627cellular_componentcytosolic small ribosomal subunit
Y0030686cellular_component90S preribosome
Y0032040cellular_componentsmall-subunit processome
Y0070181molecular_functionsmall ribosomal subunit rRNA binding
Functional Information from PROSITE/UniProt
site_idPS00053
Number of Residues18
DetailsRIBOSOMAL_S8 Ribosomal protein S8 signature. GyvILTTSaGIMdheeAR
ChainResidueDetails
bGLY100-ARG117
site_idPS00055
Number of Residues8
DetailsRIBOSOMAL_S12 Ribosomal protein S12 signature. KqPNSAiR
ChainResidueDetails
cLYS62-ARG69
site_idPS00056
Number of Residues13
DetailsRIBOSOMAL_S17 Ribosomal protein S17 signature. GDiVtVgQcRPIS
ChainResidueDetails
XGLY120-SER132
site_idPS00299
Number of Residues26
DetailsUBIQUITIN_1 Ubiquitin domain signature. KakIqDkegIPpdqQrLIFaGkqleD
ChainResidueDetails
yLYS27-ASP52
site_idPS00362
Number of Residues31
DetailsRIBOSOMAL_S15 Ribosomal protein S15 signature. VrkHLernRkDkdAkfrLilIesrihrLarY
ChainResidueDetails
YVAL98-TYR128
site_idPS00528
Number of Residues15
DetailsRIBOSOMAL_S4E Ribosomal protein S4e signature. HlKRLAaPhhWlLdK
ChainResidueDetails
SHIS8-LYS22
site_idPS00529
Number of Residues23
DetailsRIBOSOMAL_S24E Ribosomal protein S24e signature. FGggKSvGFGlVYNSvaeakkfE
ChainResidueDetails
dPHE64-GLU86
site_idPS00578
Number of Residues12
DetailsRIBOSOMAL_S6E Ribosomal protein S6e signature. ISGGnDkqGfPM
ChainResidueDetails
TILE52-MET63
site_idPS00585
Number of Residues33
DetailsRIBOSOMAL_S5 Ribosomal protein S5 signature. GQrtrFkAvvVVGDsn.GhVGlGiktak.EVag.AI
ChainResidueDetails
RGLY93-ILE125
site_idPS00632
Number of Residues25
DetailsRIBOSOMAL_S4 Ribosomal protein S4 signature. LErRLqtqVYKlglAkSvhhARvLI
ChainResidueDetails
WLEU105-ILE129
site_idPS00948
Number of Residues14
DetailsRIBOSOMAL_S7E Ribosomal protein S7e signature. KLtRELEKKFQdRH
ChainResidueDetails
ULYS76-HIS89
site_idPS00962
Number of Residues12
DetailsRIBOSOMAL_S2_1 Ribosomal protein S2 signature 1. AqLLLAANTHLG
ChainResidueDetails
PALA14-GLY25
site_idPS00963
Number of Residues25
DetailsRIBOSOMAL_S2_2 Ribosomal protein S2 signature 2. PrlVIVtDprsDaqaIkEasyvNIP
ChainResidueDetails
PPRO118-PRO142
site_idPS00996
Number of Residues9
DetailsRIBOSOMAL_S21E Ribosomal protein S21e signature. LYVPRKCSA
ChainResidueDetails
aLEU11-ALA19
site_idPS01168
Number of Residues33
DetailsRIBOSOMAL_S27E Ribosomal protein S27e signature. KCpgClnittvFShAqtavtCesCStiLctPtG
ChainResidueDetails
fLYS36-GLY68
site_idPS01193
Number of Residues20
DetailsRIBOSOMAL_S8E Ribosomal protein S8e signature. RsaTGAkraqf.RkKrKfELG
ChainResidueDetails
VARG11-GLY30
Functional Information from SwissProt/UniProt
site_idSWS_FT_FI1
Number of Residues140
DetailsDomain: {"description":"OTU","evidences":[{"source":"PROSITE-ProRule","id":"PRU00139","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI2
Number of Residues56
DetailsRegion: {"description":"Disordered","evidences":[{"source":"SAM","id":"MobiDB-lite","evidenceCode":"ECO:0000256"}]}
ChainResidueDetails
site_idSWS_FT_FI3
Number of Residues75
DetailsDomain: {"description":"Ubiquitin-like","evidences":[{"source":"PROSITE-ProRule","id":"PRU00214","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI4
Number of Residues7
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"UniProtKB","id":"P62979","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI5
Number of Residues2
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins)","evidences":[{"source":"PROSITE-ProRule","id":"PRU00214","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI6
Number of Residues1
DetailsModified residue: {"description":"N-acetylserine","evidences":[{"source":"HAMAP-Rule","id":"MF_03015","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"10601260","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"9298649","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI7
Number of Residues63
DetailsDomain: {"description":"S5 DRBM","evidences":[{"source":"PROSITE-ProRule","id":"PRU00268","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI8
Number of Residues63
DetailsDomain: {"description":"S4 RNA-binding"}
ChainResidueDetails
site_idSWS_FT_FI9
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"17330950","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI10
Number of Residues3
DetailsModified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"17287358","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI11
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"15665377","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI12
Number of Residues33
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_FI13
Number of Residues2
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"PubMed","id":"30609991","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI14
Number of Residues1
DetailsModified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"19779198","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI15
Number of Residues2
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"17287358","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI16
Number of Residues2
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"17287358","evidenceCode":"ECO:0007744"},{"source":"PubMed","id":"19779198","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI17
Number of Residues5
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"19779198","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI18
Number of Residues1
DetailsModified residue: {"description":"Phosphothreonine","evidences":[{"source":"PubMed","id":"18407956","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI19
Number of Residues3
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"PubMed","id":"18407956","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI20
Number of Residues74
DetailsDomain: {"description":"S4 RNA-binding","evidences":[{"source":"PROSITE-ProRule","id":"PRU00182","evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI21
Number of Residues1
DetailsModified residue: {"description":"Phosphoserine","evidences":[{"source":"UniProtKB","id":"P05755","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI22
Number of Residues2
DetailsCross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"UniProtKB","id":"P05755","evidenceCode":"ECO:0000250"}]}
ChainResidueDetails
site_idSWS_FT_FI23
Number of Residues1
DetailsModified residue: {"description":"N-acetylmethionine","evidences":[{"source":"PubMed","id":"10601260","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI24
Number of Residues1
DetailsModified residue: {"description":"3,4-dihydroxyproline","evidences":[{"source":"PubMed","id":"24550462","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails
site_idSWS_FT_FI25
Number of Residues21
DetailsCompositional bias: {"description":"Basic residues","evidences":[{"source":"SAM","id":"MobiDB-lite","evidenceCode":"ECO:0000256"}]}
ChainResidueDetails
site_idSWS_FT_FI26
Number of Residues1
DetailsModified residue: {"description":"N-acetylserine","evidences":[{"source":"PubMed","id":"10601260","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"1544921","evidenceCode":"ECO:0000269"},{"source":"PubMed","id":"22814378","evidenceCode":"ECO:0007744"}]}
ChainResidueDetails
site_idSWS_FT_FI27
Number of Residues22
DetailsZinc finger: {"description":"C4-type","evidences":[{"evidenceCode":"ECO:0000255"}]}
ChainResidueDetails
site_idSWS_FT_FI28
Number of Residues1
DetailsModified residue: {"description":"S-methylcysteine","evidences":[{"source":"PubMed","id":"22650761","evidenceCode":"ECO:0000269"}]}
ChainResidueDetails

253795

PDB entries from 2026-05-20

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