6YBW
Structure of a human 48S translational initiation complex - 40S body
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
A [auth C] | SCOP2B Superfamily | Translation proteins SH3-like KOW motif containing domain | 8052757 | 3000334 | SCOP2B (2022-06-29) |
A [auth C] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8052756 | 3000135 | SCOP2B (2022-06-29) |
A [auth C] | SCOP2B Superfamily | Alpha-L RNA-binding motif | 8052755 | 3001473 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | Ribosomal S17 N-terminal domain-like | 8052715 | 3002138 | SCOP2B (2022-06-29) |
B | SCOP2B Superfamily | Nucleic acid-binding proteins | 8052717 | 3000135 | SCOP2B (2022-06-29) |
H [auth K] | SCOP2B Superfamily | Glucocorticoid receptor-like (DNA-binding domain) | 8053139 | 3000068 | SCOP2B (2022-06-29) |
I [auth J] | SCOP2B Superfamily | Ribosomal protein S8 | 8095469 | 3000709 | SCOP2B (2022-06-29) |
L [auth O] | SCOP2B Superfamily | Ribosomal S3Ae-like | 8053212 | 3002166 | SCOP2B (2022-06-29) |
M [auth N] | SCOP2B Superfamily | SIS domain/Ribosomal protein S2-like | 8052791 | 3001397 | SCOP2B (2022-06-29) |
N [auth Q] | SCOP2B Superfamily | Glucocorticoid receptor-like (DNA-binding domain) | 8053143 | 3000068 | SCOP2B (2022-06-29) |
O [auth P] | SCOP2B Superfamily | Translational machinery components | 8098844 | 3000571 | SCOP2B (2022-06-29) |
P [auth S] | SCOP2B Superfamily | GS N-terminal domain-like | 8053171 | 3000408 | SCOP2B (2022-06-29) |
Q [auth R] | SCOP2B Superfamily | 50S Ribosomal protein L14-like | 8053077 | 3000433 | SCOP2B (2022-06-29) |
U [auth I] | SCOP2B Superfamily | Homeodomain-like | 8052958 | 3000001 | SCOP2B (2022-06-29) |
U [auth I] | SCOP2B Superfamily | S15/NS1 RNA-binding domain | 8052959 | 3001284 | SCOP2B (2022-06-29) |
F | SCOP2B Superfamily | Ribosomal protein S30e-like | 8053453 | 3002190 | SCOP2B (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
A [auth C] | PF00900 | e6ybwC1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00900 | ECOD (1.6) |
A [auth C] | PF00467,PF16121 | e6ybwC2 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: PF00467,PF16121 | ECOD (1.6) |
A [auth C] | PF00900,PF01479,PF08071 | e6ybwC3 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Alpha-L RNA-binding motif | F: PF00900,PF01479,PF08071 | ECOD (1.6) |
B | PF00366,PF16205 | e6ybwB1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00366,PF16205 | ECOD (1.6) |
C [auth E] | PF00164 | e6ybwE1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF00164 | ECOD (1.6) |
D | PF00163,PF01479 | e6ybwD1 | A: a+b two layers | X: beta-Grasp | H: Ubiquitin-related | T: Alpha-L RNA-binding motif | F: PF00163,PF01479 | ECOD (1.6) |
E [auth G] | PF01251 | e6ybwG1 | 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) |
G [auth H] | PF01667 | e6ybwH1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: PF01667 | ECOD (1.6) |
H [auth K] | PF01249 | e6ybwK1 | 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) |
I [auth J] | PF00410 | e6ybwJ1 | 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) |
I [auth J] | PF00410 | e6ybwJ2 | 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) |
K [auth L] | PF03719 | e6ybwL3 | 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) |
K [auth L] | PF00333 | e6ybwL2 | 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) |
K [auth L] | PF00333 | e6ybwL1 | 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) |
L [auth O] | PF01015 | e6ybwO1 | 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) |
L [auth O] | PF01015 | e6ybwO2 | 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) |
M [auth N] | PF00318 | e6ybwN1 | 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) |
N [auth Q] | PF01283 | e6ybwQ1 | A: few secondary structure elements | X: Glucocorticoid receptor-like | H: LIM domain-like | T: LIM domain-like | F: PF01283 | ECOD (1.6) |
O [auth P] | PF00411 | e6ybwP1 | 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) |
P [auth S] | PF01092 | e6ybwS1 | 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) |
Q [auth R] | PF01201 | e6ybwR1 | 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) |
R [auth T] | PF01282 | e6ybwT1 | 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) |
S [auth q] | PF01176 | e6ybwq1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: PF01176 | ECOD (1.6) |
T [auth p] | PF01253 | e6ybwp1 | A: a+b two layers | X: Glucose permease domain IIB-like | H: eIF1-like (From Topology) | T: eIF1-like | F: PF01253 | ECOD (1.6) |
U [auth I] | PF08069 | e6ybwI2 | 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) |
U [auth I] | PF00312 | e6ybwI1 | 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) |
X [auth 9] | PF05162 | e6ybw91 | A: extended segments | X: Ribosomal protein L41-A (From Topology) | H: Ribosomal protein L41-A (From Topology) | T: Ribosomal protein L41-A | F: PF05162 | ECOD (1.6) |
F | PF04758 | e6ybwF1 | 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 |
---|---|---|---|---|---|
A [auth C] | PF00900 | Ribosomal family S4e (Ribosomal_S4e) | Ribosomal family S4e | - | Family |
A [auth C] | PF16121 | 40S ribosomal protein S4 C-terminus (40S_S4_C) | 40S ribosomal protein S4 C-terminus | - | Family |
A [auth C] | 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 |
A [auth C] | PF00467 | KOW motif (KOW) | KOW motif | - | Family |
PF16205 | Ribosomal_S17 N-terminal (Ribosomal_S17_N) | Ribosomal_S17 N-terminal | - | Family | |
PF00366 | Ribosomal protein S17 (Ribosomal_S17) | Ribosomal protein S17 | - | Domain | |
C [auth E] | PF00164 | Ribosomal protein S12/S23 (Ribosom_S12_S23) | Ribosomal protein S12/S23 | - | Family |
PF00163 | Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4) | Ribosomal protein S4/S9 N-terminal domain | - | Family | |
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 | |
G [auth H] | PF01667 | Ribosomal protein S27 (Ribosomal_S27e) | Ribosomal protein S27 | - | Family |
H [auth K] | PF01249 | Ribosomal protein S21e (Ribosomal_S21e) | Ribosomal protein S21e | - | Family |
I [auth J] | PF00410 | Ribosomal protein S8 (Ribosomal_S8) | Ribosomal protein S8 | - | Domain |
K [auth L] | PF03719 | Ribosomal protein S5, C-terminal domain (Ribosomal_S5_C) | Ribosomal protein S5, C-terminal domain | - | Domain |
K [auth L] | PF00333 | Ribosomal protein S5, N-terminal domain (Ribosomal_S5) | Ribosomal protein S5, N-terminal domain | - | Domain |
M [auth N] | PF00318 | Ribosomal protein S2 (Ribosomal_S2) | Ribosomal protein S2 | - | Family |
M [auth N] | PF16122 | 40S ribosomal protein SA C-terminus (40S_SA_C) | 40S ribosomal protein SA C-terminus | - | Family |
N [auth Q] | PF01176 | Translation initiation factor 1A / IF-1 (eIF-1a) | Translation initiation factor 1A / IF-1 | This family includes both the eukaryotic translation factor eIF-1A and the bacterial translation initiation factor IF-1. | Domain |
O [auth P] | PF00411 | Ribosomal protein S11 (Ribosomal_S11) | Ribosomal protein S11 | - | Family |
P [auth S] | PF01092 | Ribosomal protein S6e (Ribosomal_S6e) | Ribosomal protein S6e | - | Family |
Q [auth R] | PF01201 | Ribosomal protein S8e (Ribosomal_S8e) | Ribosomal protein S8e | - | Family |
R [auth T] | PF01282 | Ribosomal protein S24e (Ribosomal_S24e) | Ribosomal protein S24e | - | Family |
U [auth I] | PF00312 | Ribosomal protein S15 (Ribosomal_S15) | Ribosomal protein S15 | - | Domain |
X [auth 9] | PF05162 | Ribosomal protein L41 (Ribosomal_L41) | Ribosomal protein L41 | - | Family |