4ADX
The Cryo-EM Structure of the Archaeal 50S Ribosomal Subunit in Complex with Initiation Factor 6
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
K [auth A] | SCOP2B Superfamily | Nucleic acid-binding proteins | 8032613 | 3000135 | SCOP2B (2022-06-29) |
K [auth A] | SCOP2B Superfamily | Translation proteins SH3-like KOW motif containing domain | 8032612 | 3000334 | SCOP2B (2022-06-29) |
L [auth B] | SCOP2B Superfamily | Translational proteins | 8032615 | 3000811 | SCOP2B (2022-06-29) |
M [auth C] | SCOP2B Superfamily | Ribosomal protein L4 | 8032619 | 3001146 | SCOP2B (2022-06-29) |
N [auth D] | SCOP2B Superfamily | RL5-like | 8032620 | 3001709 | SCOP2B (2022-06-29) |
O [auth E] | SCOP2B Superfamily | Ribosomal protein L6 | 8032625 | 3000724 | SCOP2B (2022-06-29) |
O [auth E] | SCOP2B Superfamily | Ribosomal protein L6 | 8032623 | 3000724 | SCOP2B (2022-06-29) |
P [auth F] | SCOP2B Superfamily | L30e-like | 8032628 | 3001739 | SCOP2B (2022-06-29) |
Q [auth G] | SCOP2B Superfamily | RplX-like | 8034751 | 3000673 | SCOP2B (2022-06-29) |
R [auth H] | SCOP2B Superfamily | Ribosomal protein L16p/L10e | 8035022 | 3000884 | SCOP2B (2022-06-29) |
S [auth I] | SCOP2 Family | Ribosome anti-association factor eIF6 (aIF6) | 8084667 | 4001983 | SCOP2 (2022-06-29) |
S [auth I] | SCOP2 Superfamily | Pentein | 8084668 | 3000640 | SCOP2 (2022-06-29) |
B [auth 1] | SCOP2B Superfamily | Zn-binding ribosomal proteins | 8032609 | 3001320 | SCOP2B (2022-06-29) |
U [auth K] | SCOP2B Superfamily | 50S Ribosomal protein L14-like | 8034442 | 3000433 | SCOP2B (2022-06-29) |
V [auth L] | SCOP2B Superfamily | Ribosomal proteins L15p and L18e | 8032635 | 3001045 | SCOP2B (2022-06-29) |
W [auth M] | SCOP2B Superfamily | Ribosomal proteins S24e, L23 and L15e | 8032636 | 3000210 | SCOP2B (2022-06-29) |
X [auth N] | SCOP2B Superfamily | Translational machinery components | 8032638 | 3000571 | SCOP2B (2022-06-29) |
Y [auth O] | SCOP2B Superfamily | Ribosomal proteins L15p and L18e | 8032640 | 3001045 | SCOP2B (2022-06-29) |
Z [auth P] | SCOP2B Superfamily | Ribosomal protein L19 (L19e) | 8032641 | 3000890 | SCOP2B (2022-06-29) |
AA [auth Q] | SCOP2B Superfamily | Translation proteins SH3-like KOW motif containing domain | 8032644 | 3000334 | SCOP2B (2022-06-29) |
BA [auth R] | SCOP2B Superfamily | Ribosomal protein L22 | 8032645 | 3001078 | SCOP2B (2022-06-29) |
CA [auth S] | SCOP2B Superfamily | Ribosomal proteins S24e, L23 and L15e | 8032646 | 3000210 | SCOP2B (2022-06-29) |
C [auth 2] | SCOP2B Superfamily | Ribosomal protein L39e | 8034428 | 3001756 | SCOP2B (2022-06-29) |
DA [auth T] | SCOP2B Superfamily | Translation proteins SH3-like KOW motif containing domain | 8032648 | 3000334 | SCOP2B (2022-06-29) |
EA [auth U] | SCOP2B Superfamily | Glucocorticoid receptor-like (DNA-binding domain) | 8032651 | 3000068 | SCOP2B (2022-06-29) |
FA [auth V] | SCOP2B Superfamily | Ribosomal protein L29 (L29p) | 8032653 | 3000713 | SCOP2B (2022-06-29) |
GA [auth W] | SCOP2B Superfamily | Ribosomal protein L30p/L7e | 8032657 | 3001378 | SCOP2B (2022-06-29) |
HA [auth X] | SCOP2B Superfamily | Ribosomal protein L31e | 8032659 | 3000699 | SCOP2B (2022-06-29) |
JA [auth Z] | SCOP2B Superfamily | Zn-binding ribosomal proteins | 8032661 | 3001320 | SCOP2B (2022-06-29) |
D [auth 3] | SCOP2B Superfamily | Zn-binding ribosomal proteins | 8032610 | 3001320 | SCOP2B (2022-06-29) |
E [auth 4] | SCOP2B Superfamily | Ribosomal protein L34e-like | 8053546 | 3002203 | SCOP2B (2022-06-29) |
G [auth 6] | SCOP2 Family | L30e/L7ae ribosomal proteins | 8063973 | 4001513 | SCOP2 (2022-06-29) |
G [auth 6] | SCOP2 Superfamily | L30e-like | 8063974 | 3001739 | SCOP2 (2022-06-29) |
Domain Annotation: ECOD Classification ECOD Database Homepage
Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
---|---|---|---|---|---|---|---|---|
K [auth A] | Ribosomal_L2_1 | e4adxA1 | A: beta barrels | X: OB-fold | H: Nucleic acid-binding proteins (From Topology) | T: Nucleic acid-binding proteins | F: Ribosomal_L2_1 | ECOD (1.6) |
K [auth A] | Ribosomal_L2_C_2 | e4adxA2 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L2_C_2 | ECOD (1.6) |
L [auth B] | Ribosomal_L3 | e4adxB1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: Alanine racemase-C | F: Ribosomal_L3 | ECOD (1.6) |
M [auth C] | Ribosomal_L4 | e4adxC1 | A: a/b three-layered sandwiches | X: Ribosomal protein L4 (From Topology) | H: Ribosomal protein L4 (From Topology) | T: Ribosomal protein L4 | F: Ribosomal_L4 | ECOD (1.6) |
N [auth D] | Ribosomal_L5_C | e4adxD1 | A: a+b two layers | X: Ribosomal protein L5 (From Topology) | H: Ribosomal protein L5 (From Topology) | T: Ribosomal protein L5 | F: Ribosomal_L5_C | ECOD (1.6) |
O [auth E] | Ribosomal_L6_2 | e4adxE2 | A: a+b two layers | X: Ribosomal protein L6 (From Topology) | H: Ribosomal protein L6 (From Topology) | T: Ribosomal protein L6 | F: Ribosomal_L6_2 | ECOD (1.6) |
O [auth E] | Ribosomal_L6 | e4adxE1 | A: a+b two layers | X: Ribosomal protein L6 (From Topology) | H: Ribosomal protein L6 (From Topology) | T: Ribosomal protein L6 | F: Ribosomal_L6 | ECOD (1.6) |
P [auth F] | Ribosomal_L7Ae_1 | e4adxF1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: Ribosomal_L7Ae_1 | ECOD (1.6) |
Q [auth G] | Ribosomal_L18A | e4adxG1 | A: a+b two layers | X: GP2-like | H: RplX-like (From Topology) | T: RplX-like | F: Ribosomal_L18A | ECOD (1.6) |
R [auth H] | Ribosomal_L16 | e4adxH1 | A: a+b complex topology | X: alpha/beta-Hammerhead/Barrel-sandwich hybrid | H: alpha/beta-Hammerhead/Barrel-sandwich hybrid | T: Ribosomal protein L10e | F: Ribosomal_L16 | ECOD (1.6) |
S [auth I] | eIF-6 | e4adxI1 | A: a+b duplicates or obligate multimers | X: Pentein (From Topology) | H: Pentein (From Topology) | T: Pentein | F: eIF-6 | ECOD (1.6) |
B [auth 1] | Ribosomal_L37e | e4adx11 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: Ribosomal_L37e | ECOD (1.6) |
T [auth J] | Ribosomal_L13 | e4adxJ1 | A: a/b three-layered sandwiches | X: Ribosomal protein L13/L15p/L18e/L32e | H: Ribosomal protein L13 and L16-A (From Topology) | T: Ribosomal protein L13 and L16-A | F: Ribosomal_L13 | ECOD (1.6) |
U [auth K] | Ribosomal_L14 | e4adxK1 | A: beta barrels | X: Ribosomal protein L14-like | H: Ribosomal protein L14-related (From Topology) | T: Ribosomal protein L14-related | F: Ribosomal_L14 | ECOD (1.6) |
V [auth L] | Ribosomal_L18 | e4adxL1 | A: a/b three-layered sandwiches | X: Ribosomal protein L13/L15p/L18e/L32e | H: Ribosomal proteins L15p and L18e (From Topology) | T: Ribosomal proteins L15p and L18e | F: Ribosomal_L18 | ECOD (1.6) |
W [auth M] | Ribosomal_L15e | e4adxM1 | 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: Ribosomal_L15e | ECOD (1.6) |
X [auth N] | Ribosomal_L5e | e4adxN1 | A: mixed a+b and a/b | X: Ribonuclease H-like | H: Ribonuclease H-like (From Topology) | T: Ribonuclease H-like | F: Ribosomal_L5e | ECOD (1.6) |
Y [auth O] | Ribosomal_L18 | e4adxO1 | A: a/b three-layered sandwiches | X: Ribosomal protein L13/L15p/L18e/L32e | H: Ribosomal proteins L15p and L18e (From Topology) | T: Ribosomal proteins L15p and L18e | F: Ribosomal_L18 | ECOD (1.6) |
Z [auth P] | Ribosomal_L19e_N | e4adxP1 | A: alpha arrays | X: Ribosomal protein L19 (L19e) N-terminal domain (From Topology) | H: Ribosomal protein L19 (L19e) N-terminal domain (From Topology) | T: Ribosomal protein L19 (L19e) N-terminal domain | F: Ribosomal_L19e_N | ECOD (1.6) |
Z [auth P] | Ribosomal_L19e_C | e4adxP2 | A: alpha bundles | X: Ribosomal protein L19 (L19e) C-terminal domain (From Topology) | H: Ribosomal protein L19 (L19e) C-terminal domain (From Topology) | T: Ribosomal protein L19 (L19e) C-terminal domain | F: Ribosomal_L19e_C | ECOD (1.6) |
AA [auth Q] | Ribosomal_L21e | e4adxQ1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L21e | ECOD (1.6) |
BA [auth R] | Ribosomal_L22 | e4adxR1 | A: a+b two layers | X: Enolase-N/ribosomal protein | H: Ribosomal protein L22 (From Topology) | T: Ribosomal protein L22 | F: Ribosomal_L22 | ECOD (1.6) |
CA [auth S] | Ribosomal_L23_1 | e4adxS1 | 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: Ribosomal_L23_1 | ECOD (1.6) |
C [auth 2] | Ribosomal_L39 | e4adx21 | A: extended segments | X: Ribosomal protein L39e (From Topology) | H: Ribosomal protein L39e (From Topology) | T: Ribosomal protein L39e | F: Ribosomal_L39 | ECOD (1.6) |
DA [auth T] | Ribosomal_L26 | e4adxT1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L26 | ECOD (1.6) |
EA [auth U] | Ribosomal_L24e | e4adxU1 | A: few secondary structure elements | X: Glucocorticoid receptor-like | H: LIM domain-like | T: LIM domain-like | F: Ribosomal_L24e | ECOD (1.6) |
FA [auth V] | Ribosomal_L29 | e4adxV1 | A: alpha bundles | X: Long alpha-hairpin | H: Ribosomal protein L29 (L29p) (From Topology) | T: Ribosomal protein L29 (L29p) | F: Ribosomal_L29 | ECOD (1.6) |
GA [auth W] | Ribosomal_L30_1 | e4adxW1 | A: a+b two layers | X: Ribosomal protein L30p/L7e (From Topology) | H: Ribosomal protein L30p/L7e (From Topology) | T: Ribosomal protein L30p/L7e | F: Ribosomal_L30_1 | ECOD (1.6) |
HA [auth X] | Ribosomal_L31e | e4adxX1 | A: a+b two layers | X: Ribosomal protein L31e-like | H: Ribosomal protein L31e/gp120 outer domain (From Topology) | T: Ribosomal protein L31e/gp120 outer domain | F: Ribosomal_L31e | ECOD (1.6) |
IA [auth Y] | Ribosomal_L32e | e4adxY1 | A: a/b three-layered sandwiches | X: Ribosomal protein L13/L15p/L18e/L32e | H: Ribosomal protein L32e (From Topology) | T: Ribosomal protein L32e | F: Ribosomal_L32e | ECOD (1.6) |
JA [auth Z] | Ribosomal_L37ae | e4adxZ1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: Ribosomal_L37ae | ECOD (1.6) |
D [auth 3] | Ribosomal_L44 | e4adx31 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: Ribosomal_L44 | ECOD (1.6) |
E [auth 4] | Ribosomal_L34e | e4adx41 | A: few secondary structure elements | X: Glucocorticoid receptor-like | H: RPL34 (From Topology) | T: RPL34 | F: Ribosomal_L34e | ECOD (1.6) |
F [auth 5] | Ribosomal_L40e | e4adx51 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: Ribosomal_L40e | ECOD (1.6) |
G [auth 6] | Ribosomal_L7Ae | e4adx61 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: Ribosomal_L7Ae | ECOD (1.6) |
H [auth 7] | Ribosomal_L14e | e4adx71 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L14e | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
K [auth A] | PF03947 | Ribosomal Proteins L2, C-terminal domain (Ribosomal_L2_C) | Ribosomal Proteins L2, C-terminal domain | - | Domain |
K [auth A] | PF00181 | Ribosomal Proteins L2, RNA binding domain (Ribosomal_L2) | Ribosomal Proteins L2, RNA binding domain | - | Domain |
M [auth C] | PF00573 | Ribosomal protein L4/L1 family (Ribosomal_L4) | Ribosomal protein L4/L1 family | - | Family |
N [auth D] | PF00281 | Ribosomal protein L5 (Ribosomal_L5) | Ribosomal protein L5 | - | Domain |
N [auth D] | PF00673 | ribosomal L5P family C-terminus (Ribosomal_L5_C) | ribosomal L5P family C-terminus | This region is found associated with Pfam:PF00281. | Domain |
O [auth E] | PF00347 | Ribosomal protein L6 (Ribosomal_L6) | Ribosomal protein L6 | - | Domain |
P [auth F] | 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 |
Q [auth G] | PF01775 | Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A (Ribosomal_L18A) | Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A | This family includes: archaeal 50S ribosomal protein L18Ae, often referred to as L20e or LX; fungal 60S ribosomal protein L20; and higher eukaryote 60S ribosomal protein L18A. | Domain |
R [auth H] | PF00252 | Ribosomal protein L16p/L10e (Ribosomal_L16) | Ribosomal protein L16p/L10e | - | Domain |
S [auth I] | PF01912 | eIF-6 family (eIF-6) | eIF-6 family | - | Family |
B [auth 1] | PF01907 | Ribosomal protein L37e (Ribosomal_L37e) | Ribosomal protein L37e | - | Family |
U [auth K] | PF00238 | Ribosomal protein L14p/L23e (Ribosomal_L14) | Ribosomal protein L14p/L23e | - | Domain |
V [auth L] | PF00828 | Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A (Ribosomal_L27A) | Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A | - | Family |
X [auth N] | PF17144 | Ribosomal large subunit proteins 60S L5, and 50S L18 (Ribosomal_L5e) | Ribosomal large subunit proteins 60S L5, and 50S L18 | - | Family |
Y [auth O] | PF00828 | Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A (Ribosomal_L27A) | Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A | - | Family |
Z [auth P] | PF01280 | Ribosomal protein L19e (Ribosomal_L19e) | Ribosomal protein L19e | - | Family |
BA [auth R] | PF00237 | Ribosomal protein L22p/L17e (Ribosomal_L22) | Ribosomal protein L22p/L17e | This family includes L22 from prokaryotes and chloroplasts and L17 from eukaryotes. | Domain |
CA [auth S] | PF00276 | Ribosomal protein L23 (Ribosomal_L23) | Ribosomal protein L23 | - | Family |
C [auth 2] | PF00832 | Ribosomal L39 protein (Ribosomal_L39) | Ribosomal L39 protein | - | Family |
DA [auth T] | PF16906 | Ribosomal proteins L26 eukaryotic, L24P archaeal (Ribosomal_L26) | Ribosomal proteins L26 eukaryotic, L24P archaeal | - | Family |
DA [auth T] | PF00467 | KOW motif (KOW) | KOW motif | - | Family |
FA [auth V] | PF00831 | Ribosomal L29 protein (Ribosomal_L29) | Ribosomal L29 protein | - | Family |
GA [auth W] | PF00327 | Ribosomal protein L30p/L7e (Ribosomal_L30) | Ribosomal protein L30p/L7e | This family includes prokaryotic L30 and eukaryotic L7. | Domain |
IA [auth Y] | PF01655 | Ribosomal protein L32 (Ribosomal_L32e) | Ribosomal protein L32 | - | Family |
D [auth 3] | PF00935 | Ribosomal protein L44 (Ribosomal_L44) | Ribosomal protein L44 | - | Family |
G [auth 6] | 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 |
H [auth 7] | PF01929 | Ribosomal protein L14 (Ribosomal_L14e) | Ribosomal protein L14 | - | Family |
H [auth 7] | PF00467 | KOW motif (KOW) | KOW motif | - | Family |