7WTW
Cryo-EM structure of a human pre-40S ribosomal subunit - State RRP12-A3
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
E [auth c] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8063426 | 3000135 | SCOP2B (2021-05-27) |
F [auth E] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8052756 | 3000135 | SCOP2B (2021-05-27) |
F [auth E] | SCOP2B Superfamily | Translation proteins SH3-like KOW motif containing domain | 8052757 | 3000334 | SCOP2B (2021-05-27) |
F [auth E] | SCOP2B Superfamily | Alpha-L RNA-binding motif | 8052755 | 3001473 | SCOP2B (2021-05-27) |
H [auth F] | SCOP2B Superfamily | Ribosomal protein S7 | 8066003 | 3000799 | SCOP2B (2021-05-27) |
J [auth G] | SCOP2B Superfamily | GS N-terminal domain-like | 8053171 | 3000408 | SCOP2B (2021-05-27) |
K [auth Z] | SCOP2B Superfamily | Winged helix DNA-binding domain | 8090992 | 3000034 | SCOP2B (2021-05-27) |
Q [auth W] | SCOP2B Superfamily | Ribosomal protein S8 | 8095469 | 3000709 | SCOP2B (2021-05-27) |
S [auth T] | SCOP2B Superfamily | Winged helix DNA-binding domain | 8089318 | 3000034 | SCOP2B (2021-05-27) |
W [auth O] | SCOP2B Superfamily | Translational machinery components | 8098844 | 3000571 | SCOP2B (2021-05-27) |
Y [auth L] | SCOP2B Superfamily | Ribosomal S17 N-terminal domain-like | 8052715 | 3002138 | SCOP2B (2021-05-27) |
Y [auth L] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8052717 | 3000135 | SCOP2B (2021-05-27) |
EA [auth M] | SCOP2B Superfamily | L30e-like | 8063978 | 3001739 | SCOP2B (2021-05-27) |
T [auth S] | SCOP2B Superfamily | S13-like H2TH domain | 8101555 | 3000053 | SCOP2B (2021-05-27) |
U [auth Q] | SCOP2B Superfamily | Ribosomal protein S5 domain 2-like | 8082685 | 3000100 | SCOP2B (2021-05-27) |
X [auth N] | SCOP2B Superfamily | S15/NS1 RNA-binding domain | 8052959 | 3001284 | SCOP2B (2021-05-27) |
X [auth N] | SCOP2B Superfamily | Homeodomain-like | 8052958 | 3000001 | SCOP2B (2021-05-27) |
AA [auth I] | SCOP2B Superfamily | 50S Ribosomal protein L14-like | 8053077 | 3000433 | SCOP2B (2021-05-27) |
HA [auth A] | SCOP2B Superfamily | SIS domain/Ribosomal protein S2-like | 8052791 | 3001397 | SCOP2B (2021-05-27) |
JA [auth V] | SCOP2B Superfamily | Glucocorticoid receptor-like (DNA-binding domain) | 8053139 | 3000068 | SCOP2B (2021-05-27) |
D [auth B] | SCOP2B Superfamily | Ribosomal S3Ae-like | 8053212 | 3002166 | 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 R] | PF00833 | e7wtwR1 | A: alpha arrays | X: HTH | H: HTH | T: FF domain | F: PF00833 | ECOD (1.6) |
C [auth b] | PF01667 | e7wtwb1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF01667 | ECOD (1.6) |
E [auth c] | PF01200 | e7wtwc1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF01200 | ECOD (1.6) |
F [auth E] | PF00900 | e7wtwE2 | 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 E] | PF00467,PF16121 | e7wtwE1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF00467,PF16121 | ECOD (1.6) |
F [auth E] | PF00900,PF01479,PF08071 | e7wtwE3 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Alpha-L RNA-binding motif | F: PF00900,PF01479,PF08071 | ECOD (1.6) |
H [auth F] | PF00177 | e7wtwF1 | A: alpha arrays | X: Ribosomal protein S7 (From Topology) | H: Ribosomal protein S7 (From Topology) | T: Ribosomal protein S7 | F: PF00177 | ECOD (1.6) |
I [auth H] | PF01251 | e7wtwH1 | 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) |
J [auth G] | PF01092 | e7wtwG1 | 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) |
K [auth Z] | PF03297 | e7wtwZ1 | A: alpha arrays | X: HTH | H: HTH | T: winged | F: PF03297 | ECOD (1.6) |
L [auth Y] | PF01282 | e7wtwY1 | 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) |
M [auth x] | PF17903 | e7wtwx1 | A: a+b two layers | X: Alpha-lytic protease prodomain-like | H: KH-domains | T: Eukaryotic type KH-domain (KH-domain type I) | F: PF17903 | ECOD (1.6) |
M [auth x] | PF22891 | e7wtwx2 | A: a+b two layers | X: Alpha-lytic protease prodomain-like | H: KH-domains | T: Eukaryotic type KH-domain (KH-domain type I) | F: PF22891 | ECOD (1.6) |
N [auth X] | PF00164 | e7wtwX1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00164 | ECOD (1.6) |
Q [auth W] | PF00410 | e7wtwW1 | 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) |
Q [auth W] | PF00410 | e7wtwW2 | 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) |
S [auth T] | PF01090 | e7wtwT1 | A: alpha arrays | X: HTH | H: HTH | T: winged | F: PF01090 | ECOD (1.6) |
W [auth O] | PF00411 | e7wtwO1 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: PF00411 | ECOD (1.6) |
Y [auth L] | PF00366,PF16205 | e7wtwL1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00366,PF16205 | ECOD (1.6) |
BA [auth r] | PF03966 | e7wtwr1 | A: few secondary structure elements | X: Trm112p-like (From Topology) | H: Trm112p-like (From Topology) | T: Trm112p-like | F: PF03966 | ECOD (1.6) |
EA [auth M] | PF01248 | e7wtwM1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: PF01248 | ECOD (1.6) |
FA [auth f] | PF01599 | e7wtwf1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF01599 | ECOD (1.6) |
IA [auth C] | PF03719 | e7wtwC1 | 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) |
IA [auth C] | PF00333 | e7wtwC3 | 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) |
IA [auth C] | PF00333 | e7wtwC2 | 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) |
T [auth S] | PF00416 | e7wtwS1 | A: alpha arrays | X: HhH/H2TH | H: H2TH (From Topology) | T: H2TH | F: PF00416 | ECOD (1.6) |
U [auth Q] | PF00380 | e7wtwQ1 | 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: PF00380 | ECOD (1.6) |
V [auth P] | PF00203 | e7wtwP1 | A: a+b two layers | X: Ribosomal protein S19 (From Topology) | H: Ribosomal protein S19 (From Topology) | T: Ribosomal protein S19 | F: PF00203 | ECOD (1.6) |
X [auth N] | PF08069 | e7wtwN1 | 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) |
X [auth N] | PF00312 | e7wtwN2 | 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) |
Z [auth J] | PF00163,PF01479 | e7wtwJ1 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Alpha-L RNA-binding motif | F: PF00163,PF01479 | ECOD (1.6) |
AA [auth I] | PF01201 | e7wtwI1 | 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) |
CA [auth q] | PF08241 | e7wtwq1 | A: a/b three-layered sandwiches | X: Rossmann-like | H: Rossmann-related | T: S-adenosyl-L-methionine-dependent methyltransferases | F: PF08241 | ECOD (1.6) |
HA [auth A] | PF00318 | e7wtwA1 | 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) |
JA [auth V] | PF01249 | e7wtwV1 | 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) |
D [auth B] | PF01015 | e7wtwB1 | A: beta barrels | X: Ribosomal protein L25-like | H: 40S ribosomal protein S3A N-terminal domain (From Topology) | T: 40S ribosomal protein S3A N-terminal domain | F: PF01015 | ECOD (1.6) |
D [auth B] | PF01015 | e7wtwB2 | A: a+b two layers | X: T-fold | H: 40S ribosomal protein S3A C-terminal domain (From Topology) | T: 40S ribosomal protein S3A C-terminal domain | F: PF01015 | ECOD (1.6) |
G [auth e] | PF04758 | e7wtwe1 | 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) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
B [auth R] | PF03966 | Trm112p-like protein (Trm112p) | Trm112p-like protein | The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. Trm112p is required for tRNA ... | Domain |
F [auth E] | PF00900 | Ribosomal family S4e (Ribosomal_S4e) | Ribosomal family S4e | - | Family |
F [auth E] | PF16121 | 40S ribosomal protein S4 C-terminus (40S_S4_C) | 40S ribosomal protein S4 C-terminus | - | Family |
F [auth E] | 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 E] | PF00467 | KOW motif (KOW) | KOW motif | - | Family |
H [auth F] | PF00177 | Ribosomal protein S7p/S5e (Ribosomal_S7) | Ribosomal protein S7p/S5e | This family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes. | Domain |
H [auth F] | PF01599 | Ribosomal protein S27a (Ribosomal_S27) | Ribosomal protein S27a | This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesised as a C-terminal extension of ubiquitin (CEP). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins ... | Domain |
J [auth G] | PF01092 | Ribosomal protein S6e (Ribosomal_S6e) | Ribosomal protein S6e | - | Family |
L [auth Y] | PF01282 | Ribosomal protein S24e (Ribosomal_S24e) | Ribosomal protein S24e | - | Family |
L [auth Y] | PF17146 | PIN domain of ribonuclease (PIN_6) | PIN domain of ribonuclease | This is a PIN domain found in eukaryotic ribonuclease Nob1 and archaeal ribonuclease VapC1 [1]. Budding yeast Nob1 is involved in proteasomal and 40S ribosomal subunit biogenesis [2]. VapC1 is a toxic component and a ribonuclease of a toxin-antitoxin ... | Domain |
N [auth X] | PF00164 | Ribosomal protein S12/S23 (Ribosom_S12_S23) | Ribosomal protein S12/S23 | - | Family |
Q [auth W] | PF00410 | Ribosomal protein S8 (Ribosomal_S8) | Ribosomal protein S8 | - | Domain |
S [auth T] | PF01090 | Ribosomal protein S19e (Ribosomal_S19e) | Ribosomal protein S19e | - | Family |
W [auth O] | PF00411 | Ribosomal protein S11 (Ribosomal_S11) | Ribosomal protein S11 | - | Family |
Y [auth L] | PF16205 | Ribosomal_S17 N-terminal (Ribosomal_S17_N) | Ribosomal_S17 N-terminal | - | Family |
Y [auth L] | PF00366 | Ribosomal protein S17 (Ribosomal_S17) | Ribosomal protein S17 | - | Domain |
DA [auth K] | PF08161 | Ribosomal RNA-processing protein 12, HEAT repeats (RRP12_HEAT) | Ribosomal RNA-processing protein 12, HEAT repeats | - | Repeat |
EA [auth M] | PF01248 | Ribosomal protein L7Ae/L30e/S12e/Gadd45 family (Ribosomal_L7Ae) | Ribosomal protein L7Ae/L30e/S12e/Gadd45 family | This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD11 ... | Domain |
IA [auth C] | PF03719 | Ribosomal protein S5, C-terminal domain (Ribosomal_S5_C) | Ribosomal protein S5, C-terminal domain | - | Domain |
IA [auth C] | PF00333 | Ribosomal protein S5, N-terminal domain (Ribosomal_S5) | Ribosomal protein S5, N-terminal domain | - | Domain |
T [auth S] | PF00416 | Ribosomal protein S13/S18 (Ribosomal_S13) | Ribosomal protein S13/S18 | - | Family |
U [auth Q] | PF00380 | Ribosomal protein S9/S16 (Ribosomal_S9) | Ribosomal protein S9/S16 | - | Family |
U [auth Q] | PF08241 | Methyltransferase domain (Methyltransf_11) | Methyltransferase domain | Members of this family are SAM dependent methyltransferases. | Domain |
V [auth P] | PF00203 | Ribosomal protein S19 (Ribosomal_S19) | Ribosomal protein S19 | - | Domain |
X [auth N] | PF00312 | Ribosomal protein S15 (Ribosomal_S15) | Ribosomal protein S15 | - | Domain |
Z [auth J] | PF00163 | Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4) | Ribosomal protein S4/S9 N-terminal domain | - | Family |
Z [auth J] | 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 |
AA [auth I] | PF01201 | Ribosomal protein S8e (Ribosomal_S8e) | Ribosomal protein S8e | - | Family |
HA [auth A] | PF00318 | Ribosomal protein S2 (Ribosomal_S2) | Ribosomal protein S2 | - | Family |
HA [auth A] | PF16122 | 40S ribosomal protein SA C-terminus (40S_SA_C) | 40S ribosomal protein SA C-terminus | - | Family |
JA [auth V] | PF01249 | Ribosomal protein S21e (Ribosomal_S21e) | Ribosomal protein S21e | - | Family |
D [auth B] | PF01667 | Ribosomal protein S27 (Ribosomal_S27e) | Ribosomal protein S27 | - | Family |