Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

8C83

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

Functional Information from GO Data

Chain	GOid	namespace	contents
P	0000028	biological_process	ribosomal small subunit assembly
P	0000054	biological_process	ribosomal subunit export from nucleus
P	0000447	biological_process	endonucleolytic 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)
P	0000461	biological_process	endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
P	0002181	biological_process	cytoplasmic translation
P	0003735	molecular_function	structural constituent of ribosome
P	0005737	cellular_component	cytoplasm
P	0005829	cellular_component	cytosol
P	0005840	cellular_component	ribosome
P	0006364	biological_process	rRNA processing
P	0006412	biological_process	translation
P	0010494	cellular_component	cytoplasmic stress granule
P	0015935	cellular_component	small ribosomal subunit
P	0022627	cellular_component	cytosolic small ribosomal subunit
P	0030686	cellular_component	90S preribosome
P	0042254	biological_process	ribosome biogenesis
P	1990904	cellular_component	ribonucleoprotein complex
R	0000054	biological_process	ribosomal subunit export from nucleus
R	0002181	biological_process	cytoplasmic translation
R	0003723	molecular_function	RNA binding
R	0003735	molecular_function	structural constituent of ribosome
R	0005515	molecular_function	protein binding
R	0005634	cellular_component	nucleus
R	0005654	cellular_component	nucleoplasm
R	0005730	cellular_component	nucleolus
R	0005737	cellular_component	cytoplasm
R	0005829	cellular_component	cytosol
R	0005840	cellular_component	ribosome
R	0006364	biological_process	rRNA processing
R	0006412	biological_process	translation
R	0015935	cellular_component	small ribosomal subunit
R	0022627	cellular_component	cytosolic small ribosomal subunit
R	0032040	cellular_component	small-subunit processome
R	0042254	biological_process	ribosome biogenesis
R	0045903	biological_process	positive regulation of translational fidelity
R	0070181	molecular_function	small ribosomal subunit rRNA binding
R	1990904	cellular_component	ribonucleoprotein complex
S	0002181	biological_process	cytoplasmic translation
S	0003723	molecular_function	RNA binding
S	0003735	molecular_function	structural constituent of ribosome
S	0005737	cellular_component	cytoplasm
S	0005829	cellular_component	cytosol
S	0005840	cellular_component	ribosome
S	0006412	biological_process	translation
S	0019843	molecular_function	rRNA binding
S	0022627	cellular_component	cytosolic small ribosomal subunit
S	0030686	cellular_component	90S preribosome
S	0043232	cellular_component	intracellular non-membrane-bounded organelle
S	1990904	cellular_component	ribonucleoprotein complex
T	0000462	biological_process	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
T	0003735	molecular_function	structural constituent of ribosome
T	0005634	cellular_component	nucleus
T	0005654	cellular_component	nucleoplasm
T	0005730	cellular_component	nucleolus
T	0005737	cellular_component	cytoplasm
T	0005829	cellular_component	cytosol
T	0005840	cellular_component	ribosome
T	0006364	biological_process	rRNA processing
T	0006412	biological_process	translation
T	0022627	cellular_component	cytosolic small ribosomal subunit
T	0030686	cellular_component	90S preribosome
T	0032040	cellular_component	small-subunit processome
T	0042254	biological_process	ribosome biogenesis
T	1990904	cellular_component	ribonucleoprotein complex
U	0002181	biological_process	cytoplasmic translation
U	0003735	molecular_function	structural constituent of ribosome
U	0005634	cellular_component	nucleus
U	0005654	cellular_component	nucleoplasm
U	0005730	cellular_component	nucleolus
U	0005737	cellular_component	cytoplasm
U	0005829	cellular_component	cytosol
U	0005840	cellular_component	ribosome
U	0006364	biological_process	rRNA processing
U	0006412	biological_process	translation
U	0022627	cellular_component	cytosolic small ribosomal subunit
U	0030686	cellular_component	90S preribosome
U	0032040	cellular_component	small-subunit processome
U	0042254	biological_process	ribosome biogenesis
U	0042274	biological_process	ribosomal small subunit biogenesis
U	1990904	cellular_component	ribonucleoprotein complex
V	0000462	biological_process	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
V	0003735	molecular_function	structural constituent of ribosome
V	0005737	cellular_component	cytoplasm
V	0005829	cellular_component	cytosol
V	0005840	cellular_component	ribosome
V	0006412	biological_process	translation
V	0022627	cellular_component	cytosolic small ribosomal subunit
V	0030686	cellular_component	90S preribosome
V	1990904	cellular_component	ribonucleoprotein complex
W	0000462	biological_process	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
W	0003723	molecular_function	RNA binding
W	0003735	molecular_function	structural constituent of ribosome
W	0005515	molecular_function	protein binding
W	0005634	cellular_component	nucleus
W	0005654	cellular_component	nucleoplasm
W	0005730	cellular_component	nucleolus
W	0005737	cellular_component	cytoplasm
W	0005829	cellular_component	cytosol
W	0005840	cellular_component	ribosome
W	0006364	biological_process	rRNA processing
W	0006412	biological_process	translation
W	0015935	cellular_component	small ribosomal subunit
W	0019843	molecular_function	rRNA binding
W	0022627	cellular_component	cytosolic small ribosomal subunit
W	0030686	cellular_component	90S preribosome
W	0032040	cellular_component	small-subunit processome
W	0042254	biological_process	ribosome biogenesis
W	0042274	biological_process	ribosomal small subunit biogenesis
W	0043232	cellular_component	intracellular non-membrane-bounded organelle
W	1990904	cellular_component	ribonucleoprotein complex
X	0000028	biological_process	ribosomal small subunit assembly
X	0000462	biological_process	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
X	0003735	molecular_function	structural constituent of ribosome
X	0005737	cellular_component	cytoplasm
X	0005829	cellular_component	cytosol
X	0005840	cellular_component	ribosome
X	0006412	biological_process	translation
X	0019843	molecular_function	rRNA binding
X	0022627	cellular_component	cytosolic small ribosomal subunit
X	0030686	cellular_component	90S preribosome
X	1990904	cellular_component	ribonucleoprotein complex
Y	0000462	biological_process	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
Y	0002181	biological_process	cytoplasmic translation
Y	0003735	molecular_function	structural constituent of ribosome
Y	0005730	cellular_component	nucleolus
Y	0005737	cellular_component	cytoplasm
Y	0005829	cellular_component	cytosol
Y	0005840	cellular_component	ribosome
Y	0006412	biological_process	translation
Y	0022627	cellular_component	cytosolic small ribosomal subunit
Y	0030686	cellular_component	90S preribosome
Y	0070181	molecular_function	small ribosomal subunit rRNA binding
Y	1990904	cellular_component	ribonucleoprotein complex
a	0000447	biological_process	endonucleolytic 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)
a	0000461	biological_process	endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
a	0003735	molecular_function	structural constituent of ribosome
a	0005737	cellular_component	cytoplasm
a	0005829	cellular_component	cytosol
a	0005840	cellular_component	ribosome
a	0006364	biological_process	rRNA processing
a	0006412	biological_process	translation
a	0022627	cellular_component	cytosolic small ribosomal subunit
a	1990904	cellular_component	ribonucleoprotein complex
b	0002181	biological_process	cytoplasmic translation
b	0003735	molecular_function	structural constituent of ribosome
b	0005737	cellular_component	cytoplasm
b	0005829	cellular_component	cytosol
b	0005840	cellular_component	ribosome
b	0006412	biological_process	translation
b	0022627	cellular_component	cytosolic small ribosomal subunit
b	1990904	cellular_component	ribonucleoprotein complex
c	0000462	biological_process	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
c	0003735	molecular_function	structural constituent of ribosome
c	0005737	cellular_component	cytoplasm
c	0005829	cellular_component	cytosol
c	0005840	cellular_component	ribosome
c	0006412	biological_process	translation
c	0006450	biological_process	regulation of translational fidelity
c	0015935	cellular_component	small ribosomal subunit
c	0022627	cellular_component	cytosolic small ribosomal subunit
c	1990145	biological_process	maintenance of translational fidelity
c	1990904	cellular_component	ribonucleoprotein complex
d	0000462	biological_process	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
d	0002181	biological_process	cytoplasmic translation
d	0003735	molecular_function	structural constituent of ribosome
d	0005737	cellular_component	cytoplasm
d	0005739	cellular_component	mitochondrion
d	0005829	cellular_component	cytosol
d	0005840	cellular_component	ribosome
d	0006412	biological_process	translation
d	0022627	cellular_component	cytosolic small ribosomal subunit
d	1990904	cellular_component	ribonucleoprotein complex
f	0000028	biological_process	ribosomal small subunit assembly
f	0000462	biological_process	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
f	0003723	molecular_function	RNA binding
f	0003735	molecular_function	structural constituent of ribosome
f	0005737	cellular_component	cytoplasm
f	0005829	cellular_component	cytosol
f	0005840	cellular_component	ribosome
f	0006412	biological_process	translation
f	0008270	molecular_function	zinc ion binding
f	0022627	cellular_component	cytosolic small ribosomal subunit
f	0044391	cellular_component	ribosomal subunit
f	0046872	molecular_function	metal ion binding
f	1990904	cellular_component	ribonucleoprotein complex
g	0002181	biological_process	cytoplasmic translation
g	0003735	molecular_function	structural constituent of ribosome
g	0005737	cellular_component	cytoplasm
g	0005829	cellular_component	cytosol
g	0005840	cellular_component	ribosome
g	0006412	biological_process	translation
g	0010494	cellular_component	cytoplasmic stress granule
g	0022627	cellular_component	cytosolic small ribosomal subunit
g	1990904	cellular_component	ribonucleoprotein complex
x	0003674	molecular_function	molecular_function
x	0004843	molecular_function	cysteine-type deubiquitinase activity
x	0005737	cellular_component	cytoplasm
x	0008150	biological_process	biological_process

Functional Information from PROSITE/UniProt

site_id	PS00053
Number of Residues	18
Details	RIBOSOMAL_S8 Ribosomal protein S8 signature. GyvILTTSaGIMdheeAR

Chain	Residue	Details
b	GLY100-ARG117

site_id	PS00055
Number of Residues	8
Details	RIBOSOMAL_S12 Ribosomal protein S12 signature. KqPNSAiR

Chain	Residue	Details
c	LYS62-ARG69

site_id	PS00056
Number of Residues	13
Details	RIBOSOMAL_S17 Ribosomal protein S17 signature. GDiVtVgQcRPIS

Chain	Residue	Details
X	GLY120-SER132

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

Chain	Residue	Details
y	LYS27-ASP52

site_id	PS00362
Number of Residues	31
Details	RIBOSOMAL_S15 Ribosomal protein S15 signature. VrkHLernRkDkdAkfrLilIesrihrLarY

Chain	Residue	Details
Y	VAL98-TYR128

site_id	PS00528
Number of Residues	15
Details	RIBOSOMAL_S4E Ribosomal protein S4e signature. HlKRLAaPhhWlLdK

Chain	Residue	Details
S	HIS8-LYS22

site_id	PS00529
Number of Residues	23
Details	RIBOSOMAL_S24E Ribosomal protein S24e signature. FGggKSvGFGlVYNSvaeakkfE

Chain	Residue	Details
d	PHE64-GLU86

site_id	PS00578
Number of Residues	12
Details	RIBOSOMAL_S6E Ribosomal protein S6e signature. ISGGnDkqGfPM

Chain	Residue	Details
T	ILE52-MET63

site_id	PS00585
Number of Residues	33
Details	RIBOSOMAL_S5 Ribosomal protein S5 signature. GQrtrFkAvvVVGDsn.GhVGlGiktak.EVag.AI

Chain	Residue	Details
R	GLY93-ILE125

site_id	PS00632
Number of Residues	25
Details	RIBOSOMAL_S4 Ribosomal protein S4 signature. LErRLqtqVYKlglAkSvhhARvLI

Chain	Residue	Details
W	LEU105-ILE129

site_id	PS00948
Number of Residues	14
Details	RIBOSOMAL_S7E Ribosomal protein S7e signature. KLtRELEKKFQdRH

Chain	Residue	Details
U	LYS76-HIS89

site_id	PS00962
Number of Residues	12
Details	RIBOSOMAL_S2_1 Ribosomal protein S2 signature 1. AqLLLAANTHLG

Chain	Residue	Details
P	ALA14-GLY25

site_id	PS00963
Number of Residues	25
Details	RIBOSOMAL_S2_2 Ribosomal protein S2 signature 2. PrlVIVtDprsDaqaIkEasyvNIP

Chain	Residue	Details
P	PRO118-PRO142

site_id	PS00996
Number of Residues	9
Details	RIBOSOMAL_S21E Ribosomal protein S21e signature. LYVPRKCSA

Chain	Residue	Details
a	LEU11-ALA19

site_id	PS01168
Number of Residues	33
Details	RIBOSOMAL_S27E Ribosomal protein S27e signature. KCpgClnittvFShAqtavtCesCStiLctPtG

Chain	Residue	Details
f	LYS36-GLY68

site_id	PS01193
Number of Residues	20
Details	RIBOSOMAL_S8E Ribosomal protein S8e signature. RsaTGAkraqf.RkKrKfELG

Chain	Residue	Details
V	ARG11-GLY30

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	22
Details	ZN_FING: C4-type => ECO:0000255

Chain	Residue	Details
f	CYS37-CYS59
y	LYS11
y	LYS27
y	LYS29
y	LYS33
y	LYS48
y	LYS63

site_id	SWS_FT_FI2
Number of Residues	1
Details	MOD_RES: S-methylcysteine => ECO:0000269\|PubMed:22650761

Chain	Residue	Details
f	CYS40
X	LYS141
X	LYS148
U	LYS84
Y	LYS43
X	LYS56
X	LYS57
X	LYS79
X	LYS96
X	LYS105
X	LYS133

site_id	SWS_FT_FI3
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0007744\|PubMed:19779198

Chain	Residue	Details
d	SER56
V	SER73

site_id	SWS_FT_FI4
Number of Residues	2
Details	CROSSLNK: Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin) => ECO:0007744\|PubMed:22106047

Chain	Residue	Details
d	LYS21
V	SER154
V	SER155
V	SER161
S	LYS168
S	LYS174
S	LYS179
S	LYS211
S	LYS233

site_id	SWS_FT_FI5
Number of Residues	1
Details	MOD_RES: Phosphothreonine => ECO:0007744\|PubMed:18407956

Chain	Residue	Details
V	THR107

site_id	SWS_FT_FI6
Number of Residues	1
Details	MOD_RES: Phosphoserine => ECO:0007744\|PubMed:18407956

Chain	Residue	Details
V	SER158

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)