8C83
Cryo-EM structure of in vitro reconstituted Otu2-bound Ub-40S complex
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
D [auth P] | SCOP2B Superfamily | SIS domain/Ribosomal protein S2-like | 8061280 | 3001397 | SCOP2B (2021-05-27) |
F [auth S] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8052759 | 3000135 | SCOP2B (2021-05-27) |
F [auth S] | SCOP2B Superfamily | Alpha-L RNA-binding motif | 8052758 | 3001473 | SCOP2B (2021-05-27) |
F [auth S] | SCOP2B Superfamily | Translation proteins SH3-like KOW motif containing domain | 8052760 | 3000334 | SCOP2B (2021-05-27) |
G [auth T] | SCOP2B Superfamily | GS N-terminal domain-like | 8053173 | 3000408 | SCOP2B (2021-05-27) |
K [auth X] | SCOP2B Superfamily | Ribosomal S17 N-terminal domain-like | 8052736 | 3002138 | SCOP2B (2021-05-27) |
K [auth X] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8052738 | 3000135 | SCOP2B (2021-05-27) |
M [auth a] | SCOP2B Superfamily | Glucocorticoid receptor-like (DNA-binding domain) | 8053136 | 3000068 | SCOP2B (2021-05-27) |
N [auth b] | SCOP2B Superfamily | Ribosomal protein S8 | 8096922 | 3000709 | SCOP2B (2021-05-27) |
R [auth g] | SCOP2B Superfamily | Ribosomal protein S30e-like | 8053451 | 3002190 | SCOP2B (2021-05-27) |
L [auth Y] | SCOP2B Superfamily | S15/NS1 RNA-binding domain | 8052974 | 3001284 | SCOP2B (2021-05-27) |
L [auth Y] | SCOP2B Superfamily | Homeodomain-like | 8052973 | 3000001 | SCOP2B (2021-05-27) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
B [auth y] | PF00240 | e8c83y1 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Ubiquitin-like | F: PF00240 | ECOD (1.6) |
D [auth P] | PF00318 | e8c83P1 | A: a/b three-layered sandwiches | X: Flavodoxin-like | H: Ribosomal protein S2/SIS domain (From Topology) | T: Ribosomal protein S2/SIS domain | F: PF00318 | ECOD (1.6) |
E [auth R] | PF03719 | e8c83R3 | A: a+b two layers | X: Ribosomal protein S5 domain 2-like (From Topology) | H: Ribosomal protein S5 domain 2-like (From Topology) | T: Ribosomal protein S5 domain 2-like | F: PF03719 | ECOD (1.6) |
E [auth R] | PF00333 | e8c83R2 | A: a+b two layers | X: dsRBD-like | H: dsRNA-binding domain-like (From Topology) | T: dsRNA-binding domain-like | F: PF00333 | ECOD (1.6) |
E [auth R] | PF00333 | e8c83R1 | A: extended segments | X: N-terminal region in 40S ribosomal protein rpS2 (S5p) (From Topology) | H: N-terminal region in 40S ribosomal protein rpS2 (S5p) (From Topology) | T: N-terminal region in 40S ribosomal protein rpS2 (S5p) | F: PF00333 | ECOD (1.6) |
F [auth S] | PF00900 | e8c83S3 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00900 | ECOD (1.6) |
F [auth S] | PF00467,PF16121 | e8c83S1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF00467,PF16121 | ECOD (1.6) |
F [auth S] | PF00900,PF01479,PF08071 | e8c83S2 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Alpha-L RNA-binding motif | F: PF00900,PF01479,PF08071 | ECOD (1.6) |
G [auth T] | PF01092 | e8c83T1 | A: beta barrels | X: Ribosomal protein L25-like | H: Ribosomal protein L25-like (From Topology) | T: Ribosomal protein L25-like | F: PF01092 | ECOD (1.6) |
H [auth U] | PF01251 | e8c83U2 | A: a+b two layers | X: Alpha-lytic protease prodomain-like | H: 40S ribosomal protein S7-A (From Topology) | T: 40S ribosomal protein S7-A | F: PF01251 | ECOD (1.6) |
I [auth V] | PF01201 | e8c83V1 | A: beta barrels | X: Ribosomal protein L14-like | H: Ribosomal protein L14-related (From Topology) | T: Ribosomal protein L14-related | F: PF01201 | ECOD (1.6) |
J [auth W] | PF00163,PF01479 | e8c83W1 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Alpha-L RNA-binding motif | F: PF00163,PF01479 | ECOD (1.6) |
K [auth X] | PF00366,PF16205 | e8c83X1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00366,PF16205 | ECOD (1.6) |
M [auth a] | PF01249 | e8c83a1 | A: a+b two layers | X: 40S ribosomal protein rpS21 (S21e) (From Topology) | H: 40S ribosomal protein rpS21 (S21e) (From Topology) | T: 40S ribosomal protein rpS21 (S21e) | F: PF01249 | ECOD (1.6) |
N [auth b] | PF00410 | e8c83b2 | A: a+b two layers | X: R3H domain-like | H: Ribosomal protein S8, N-terminal domain (From Topology) | T: Ribosomal protein S8, N-terminal domain | F: PF00410 | ECOD (1.6) |
N [auth b] | PF00410 | e8c83b1 | A: a+b two layers | X: Ribosomal protein S8, C-terminal domain (From Topology) | H: Ribosomal protein S8, C-terminal domain (From Topology) | T: Ribosomal protein S8, C-terminal domain | F: PF00410 | ECOD (1.6) |
O [auth c] | PF00164 | e8c83c1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00164 | ECOD (1.6) |
P [auth d] | PF01282 | e8c83d1 | A: a+b two layers | X: Alpha-beta plaits | H: Ribosomal proteins S24e, L23 and L15e (From Topology) | T: Ribosomal proteins S24e, L23 and L15e | F: PF01282 | ECOD (1.6) |
Q [auth f] | PF01667 | e8c83f1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF01667 | ECOD (1.6) |
R [auth g] | PF04758 | e8c83g1 | A: extended segments | X: 40S ribosomal protein S30 (S30e) (From Topology) | H: 40S ribosomal protein S30 (S30e) (From Topology) | T: 40S ribosomal protein S30 (S30e) | F: PF04758 | ECOD (1.6) |
L [auth Y] | PF08069 | e8c83Y1 | A: alpha arrays | X: HTH | H: 40S ribosomal protein S13 N-terminal domain (From Topology) | T: 40S ribosomal protein S13 N-terminal domain | F: PF08069 | ECOD (1.6) |
L [auth Y] | PF00312 | e8c83Y2 | A: alpha arrays | X: S15/NS1 RNA-binding domain (From Topology) | H: S15/NS1 RNA-binding domain (From Topology) | T: S15/NS1 RNA-binding domain | F: PF00312 | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
D [auth P] | PF00318 | Ribosomal protein S2 (Ribosomal_S2) | Ribosomal protein S2 | - | Family |
E [auth R] | PF03719 | Ribosomal protein S5, C-terminal domain (Ribosomal_S5_C) | Ribosomal protein S5, C-terminal domain | - | Domain |
E [auth R] | PF00333 | Ribosomal protein S5, N-terminal domain (Ribosomal_S5) | Ribosomal protein S5, N-terminal domain | - | Domain |
F [auth S] | PF00900 | Ribosomal family S4e (Ribosomal_S4e) | Ribosomal family S4e | - | Family |
F [auth S] | PF16121 | 40S ribosomal protein S4 C-terminus (40S_S4_C) | 40S ribosomal protein S4 C-terminus | - | Family |
F [auth S] | PF08071 | RS4NT (NUC023) domain (RS4NT) | RS4NT (NUC023) domain | This is the N-terminal domain of Ribosomal S4 / S4e proteins. This domain is associated with S4 and KOW domains [1]. | Domain |
F [auth S] | PF01479 | S4 domain (S4) | S4 domain | The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast pro ... | Domain |
F [auth S] | PF00467 | KOW motif (KOW) | KOW motif | - | Family |
G [auth T] | PF01092 | Ribosomal protein S6e (Ribosomal_S6e) | Ribosomal protein S6e | - | Family |
H [auth U] | PF01251 | Ribosomal protein S7e (Ribosomal_S7e) | Ribosomal protein S7e | - | Family |
I [auth V] | PF01201 | Ribosomal protein S8e (Ribosomal_S8e) | Ribosomal protein S8e | - | Family |
J [auth W] | PF00163 | Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4) | Ribosomal protein S4/S9 N-terminal domain | - | Family |
J [auth W] | PF01479 | S4 domain (S4) | S4 domain | The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast pro ... | Domain |
K [auth X] | PF16205 | Ribosomal_S17 N-terminal (Ribosomal_S17_N) | Ribosomal_S17 N-terminal | - | Family |
K [auth X] | PF00366 | Ribosomal protein S17 (Ribosomal_S17) | Ribosomal protein S17 | - | Domain |
L [auth Y] | PF00240 | Ubiquitin family (ubiquitin) | Ubiquitin family | This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry ... | Domain |
L [auth Y] | PF00312 | Ribosomal protein S15 (Ribosomal_S15) | Ribosomal protein S15 | - | Domain |