6AZ3
Cryo-EM structure of of the large subunit of Leishmania ribosome bound to paromomycin
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
L | SCOP2 Family | Ribosomal proteins L15p and L18e | 8107085 | 4003555 | SCOP2 (2022-06-29) |
L | SCOP2 Superfamily | Ribosomal proteins L15p and L18e | 8107086 | 3001045 | SCOP2 (2022-06-29) |
M | SCOP2 Family | L15e | 8107091 | 4000945 | SCOP2 (2022-06-29) |
M | SCOP2 Superfamily | Ribosomal proteins S24e, L23 and L15e | 8107092 | 3000210 | SCOP2 (2022-06-29) |
M | SCOP2B Superfamily | Ribosomal proteins S24e, L23 and L15e | 8082483 | 3000210 | SCOP2B (2022-06-29) |
T | SCOP2 Family | Ribosomal protein L22 | 8107099 | 4001212 | SCOP2 (2022-06-29) |
T | SCOP2 Superfamily | Ribosomal protein L22 | 8107100 | 3001078 | SCOP2 (2022-06-29) |
V | SCOP2B Superfamily | Ribosomal proteins S24e, L23 and L15e | 8077083 | 3000210 | SCOP2B (2022-06-29) |
DA [auth d] | SCOP2 Family | L30e/L7ae ribosomal proteins | 8107083 | 4001513 | SCOP2 (2022-06-29) |
DA [auth d] | SCOP2 Superfamily | L30e-like | 8107084 | 3001739 | SCOP2 (2022-06-29) |
KA [auth k] | SCOP2 Family | Ribosomal L38e protein-like | 8107101 | 4006532 | SCOP2 (2022-06-29) |
KA [auth k] | SCOP2 Superfamily | Ribosomal L38e protein-like | 8107102 | 3002206 | SCOP2 (2022-06-29) |
MA [auth m] | SCOP2 Family | Ribosomal protein L40e | 8107095 | 4002847 | SCOP2 (2022-06-29) |
MA [auth m] | SCOP2 Superfamily | Zn-binding ribosomal proteins | 8107096 | 3001320 | SCOP2 (2022-06-29) |
J | SCOP2 Family | Ribosomal protein L14 | 8107089 | 4001826 | SCOP2 (2022-06-29) |
J | SCOP2 Superfamily | 50S Ribosomal protein L14-like | 8107090 | 3000433 | SCOP2 (2022-06-29) |
N | SCOP2 Family | Ribosomal protein L10e | 8107097 | 4001135 | SCOP2 (2022-06-29) |
N | SCOP2 Superfamily | Ribosomal protein L16p/L10e | 8107098 | 3000884 | SCOP2 (2022-06-29) |
O | SCOP2 Family | Ribosomal protein L5e and archael L18-like | 8107093 | 4006591 | SCOP2 (2022-06-29) |
O | SCOP2 Superfamily | Translational machinery components | 8107094 | 3000571 | SCOP2 (2022-06-29) |
Q | SCOP2 Family | Ribosomal protein L19 (L19e) | 8107105 | 4001138 | SCOP2 (2022-06-29) |
Q | SCOP2 Superfamily | Ribosomal protein L19 (L19e) | 8107106 | 3000890 | SCOP2 (2022-06-29) |
BA [auth b] | SCOP2 Family | Ribosomal protein L29e | 8107103 | 4006531 | SCOP2 (2022-06-29) |
BA [auth b] | SCOP2 Superfamily | Ribosomal protein L29e | 8107104 | 3002157 | SCOP2 (2022-06-29) |
FA [auth f] | SCOP2 Family | Ribosomal protein L32e | 8102372 | 4003517 | SCOP2 (2022-06-29) |
FA [auth f] | SCOP2 Superfamily | Ribosomal protein L32e | 8102373 | 3000982 | SCOP2 (2022-06-29) |
GA [auth g] | SCOP2 Family | Ribosomal protein L35ae | 8107087 | 4003173 | SCOP2 (2022-06-29) |
GA [auth g] | SCOP2 Superfamily | Translational proteins | 8107088 | 3000811 | SCOP2 (2022-06-29) |
LA [auth l] | SCOP2 Family | ribosomal protein l39e | 8107079 | 4001518 | SCOP2 (2022-06-29) |
LA [auth l] | SCOP2 Superfamily | Ribosomal protein L39e | 8107080 | 3001756 | SCOP2 (2022-06-29) |
LA [auth l] | SCOP2B Superfamily | Ribosomal protein L39e | 8097700 | 3001756 | SCOP2B (2022-06-29) |
D | SCOP2 Family | Ribosomal protein L5 | 8077508 | 4001498 | SCOP2 (2022-06-29) |
D | SCOP2 Superfamily | RL5-like | 8077509 | 3001709 | SCOP2 (2022-06-29) |
OA [auth o] | SCOP2 Family | Ribosomal protein L37ae | 8107081 | 4003704 | SCOP2 (2022-06-29) |
OA [auth o] | SCOP2 Superfamily | Zn-binding ribosomal proteins | 8107082 | 3001320 | SCOP2 (2022-06-29) |
OA [auth o] | SCOP2B Superfamily | Zn-binding ribosomal proteins | 8101419 | 3001320 | 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) |
---|---|---|---|---|---|---|---|---|
E | Ribosomal_L6_2 | e6az3E2 | 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) |
E | Ribosomal_L6 | e6az3E1 | 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) |
G | Ribosomal_L7Ae_1 | e6az3G1 | 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) |
K | Ribosomal_L14e | e6az3K1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L14e | ECOD (1.6) |
L | Ribosomal_L18 | e6az3L1 | 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) |
M | Ribosomal_L15e | e6az3M1 | 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) |
T | Ribosomal_L22 | e6az3T1 | 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) |
V | Ribosomal_L23_3 | e6az3V1 | 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_3 | ECOD (1.6) |
W | Ribosomal_L26 | e6az3W1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L26 | ECOD (1.6) |
Z | Ribosomal_L28e | e6az3Z1 | A: a+b two layers | X: RPL28 (From Topology) | H: RPL28 (From Topology) | T: RPL28 | F: Ribosomal_L28e | ECOD (1.6) |
AA [auth a] | Ribosomal_L29_2 | e6az3a1 | A: alpha bundles | X: Long alpha-hairpin | H: Ribosomal protein L29 (L29p) (From Topology) | T: Ribosomal protein L29 (L29p) | F: Ribosomal_L29_2 | ECOD (1.6) |
DA [auth d] | Ribosomal_L7Ae | e6az3d1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: Ribosomal_L7Ae | ECOD (1.6) |
IA [auth i] | Ribosomal_L36e | e6az3i1 | A: alpha arrays | X: 60S ribosomal protein rpL36 (L36e) (From Topology) | H: 60S ribosomal protein rpL36 (L36e) (From Topology) | T: 60S ribosomal protein rpL36 (L36e) | F: Ribosomal_L36e | ECOD (1.6) |
KA [auth k] | Ribosomal_L38e | e6az3k1 | A: a+b two layers | X: SRP9/14-like | H: Signal recognition particle alu RNA binding heterodimer SRP9/14-related (From Topology) | T: Signal recognition particle alu RNA binding heterodimer SRP9/14-related | F: Ribosomal_L38e | ECOD (1.6) |
MA [auth m] | Ribosomal_L40e | e6az3m1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: Ribosomal_L40e | ECOD (1.6) |
A | Ribosomal_L2_1 | e6az3A2 | 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) |
A | Ribosomal_L2_C_2 | e6az3A1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L2_C_2 | ECOD (1.6) |
J | Ribosomal_L14 | e6az3J1 | 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) |
N | Ribosomal_L16 | e6az3N1 | 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) |
O | Ribosomal_L5e | e6az3O1 | 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) |
P | Ribosomal_L18 | e6az3P1 | 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) |
Q | Ribosomal_L19e_N | e6az3Q2 | 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) |
Q | Ribosomal_L19e_C | e6az3Q1 | 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) |
R | Ribosomal_L18A | e6az3R2 | A: a+b two layers | X: GP2-like | H: RplX-like (From Topology) | T: RplX-like | F: Ribosomal_L18A | ECOD (1.6) |
S | Ribosomal_L21e | e6az3S1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L21e | ECOD (1.6) |
B | Ribosomal_L3 | e6az3B1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: Alanine racemase-C | F: Ribosomal_L3 | ECOD (1.6) |
U | Ribosomal_L22e | e6az3U1 | A: a+b two layers | X: Ribosomal protein L22e (From Topology) | H: Ribosomal protein L22e (From Topology) | T: Ribosomal protein L22e | F: Ribosomal_L22e | ECOD (1.6) |
X | Ribosomal_L24e | e6az3X1 | A: few secondary structure elements | X: Glucocorticoid receptor-like | H: LIM domain-like | T: LIM domain-like | F: Ribosomal_L24e | ECOD (1.6) |
Y | Ribosomal_L27e | e6az3Y1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L27e | ECOD (1.6) |
BA [auth b] | Ribosomal_L29e | e6az3b1 | A: extended segments | X: RPL29 (From Topology) | H: RPL29 (From Topology) | T: RPL29 | F: Ribosomal_L29e | ECOD (1.6) |
CA [auth c] | Ribosomal_L30_1 | e6az3c1 | 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) |
EA [auth e] | Ribosomal_L31e | e6az3e1 | 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) |
FA [auth f] | Ribosomal_L32e | e6az3f1 | 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) |
GA [auth g] | Ribosomal_L35Ae | e6az3g1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: Alanine racemase-C | F: Ribosomal_L35Ae | ECOD (1.6) |
HA [auth h] | Ribosomal_L34e | e6az3h1 | A: few secondary structure elements | X: Glucocorticoid receptor-like | H: RPL34 (From Topology) | T: RPL34 | F: Ribosomal_L34e | ECOD (1.6) |
JA [auth j] | Ribosomal_L37e | e6az3j1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: Ribosomal_L37e | ECOD (1.6) |
LA [auth l] | Ribosomal_L39 | e6az3l1 | 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) |
D | Ribosomal_L5_C | e6az3D1 | 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) |
NA [auth n] | Ribosomal_L41_3 | e6az3n1 | A: extended segments | X: Ribosomal protein L41-A (From Topology) | H: Ribosomal protein L41-A (From Topology) | T: Ribosomal protein L41-A | F: Ribosomal_L41_3 | ECOD (1.6) |
OA [auth o] | Ribosomal_L37ae | e6az3o1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: Ribosomal_L37ae | ECOD (1.6) |
PA [auth p] | Ribosomal_L44 | e6az3p1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: Ribosomal_L44 | ECOD (1.6) |
F | Ribosomal_L6e | e6az3F1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L6e | ECOD (1.6) |
H | Ribosomal_L13 | e6az3H1 | 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) |
I | Ribosomal_L13e | e6az3I1 | A: extended segments | X: RPL13 (From Topology) | H: RPL13 (From Topology) | T: RPL13 | F: Ribosomal_L13e | ECOD (1.6) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF08079 | Ribosomal L30 N-terminal domain (Ribosomal_L30_N) | Ribosomal L30 N-terminal domain | This presumed domain is found at the N-terminus of Ribosomal L30 proteins and has been termed RL30NT or NUC018 [1]. | Domain | |
PF00327 | Ribosomal protein L30p/L7e (Ribosomal_L30) | Ribosomal protein L30p/L7e | This family includes prokaryotic L30 and eukaryotic L7. | Domain | |
PF14374 | 60S ribosomal protein L4 C-terminal domain (Ribos_L4_asso_C) | 60S ribosomal protein L4 C-terminal domain | This family is found at the very C-terminal of 60 ribosomal L4 proteins. | Domain | |
PF00573 | Ribosomal protein L4/L1 family (Ribosomal_L4) | Ribosomal protein L4/L1 family | - | Family | |
PF00347 | Ribosomal protein L6 (Ribosomal_L6) | Ribosomal protein L6 | - | Domain | |
PF01198 | Ribosomal protein L31e (Ribosomal_L31e) | Ribosomal protein L31e | - | Family | |
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 | |
PF01247 | Ribosomal protein L35Ae (Ribosomal_L35Ae) | Ribosomal protein L35Ae | - | Domain | |
PF01929 | Ribosomal protein L14 (Ribosomal_L14e) | Ribosomal protein L14 | - | Family | |
PF00467 | KOW motif (KOW) | KOW motif | - | Family | |
PF00832 | Ribosomal L39 protein (Ribosomal_L39) | Ribosomal L39 protein | - | Family | |
PF00828 | Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A (Ribosomal_L27A) | Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A | - | Family | |
PF01020 | Ribosomal L40e family (Ribosomal_L40e) | Ribosomal L40e family | - | Family | |
PF00827 | Ribosomal L15 (Ribosomal_L15e) | Ribosomal L15 | - | Family | |
PF00237 | Ribosomal protein L22p/L17e (Ribosomal_L22) | Ribosomal protein L22p/L17e | This family includes L22 from prokaryotes and chloroplasts and L17 from eukaryotes. | Domain | |
PF00276 | Ribosomal protein L23 (Ribosomal_L23) | Ribosomal protein L23 | - | Family | |
PF01778 | Ribosomal L28e protein family (Ribosomal_L28e) | Ribosomal L28e protein family | - | Family | |
PF00831 | Ribosomal L29 protein (Ribosomal_L29) | Ribosomal L29 protein | - | Family | |
PF00238 | Ribosomal protein L14p/L23e (Ribosomal_L14) | Ribosomal protein L14p/L23e | - | Domain | |
PF00252 | Ribosomal protein L16p/L10e (Ribosomal_L16) | Ribosomal protein L16p/L10e | - | Domain | |
PF17144 | Ribosomal large subunit proteins 60S L5, and 50S L18 (Ribosomal_L5e) | Ribosomal large subunit proteins 60S L5, and 50S L18 | - | Family | |
PF01780 | Ribosomal L37ae protein family (Ribosomal_L37ae) | Ribosomal L37ae protein family | - | Family | |
PF14204 | Ribosomal L18 C-terminal region (Ribosomal_L18_c) | Ribosomal L18 C-terminal region | This domain is the C-terminal end of ribosomal L18/L5 proteins. | Domain | |
PF00935 | Ribosomal protein L44 (Ribosomal_L44) | Ribosomal protein L44 | - | Family | |
PF17135 | Ribosomal protein 60S L18 and 50S L18e (Ribosomal_L18) | Ribosomal protein 60S L18 and 50S L18e | - | Family | |
PF01280 | Ribosomal protein L19e (Ribosomal_L19e) | Ribosomal protein L19e | - | Family | |
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 | |
PF01157 | Ribosomal protein L21e (Ribosomal_L21e) | Ribosomal protein L21e | - | Family | |
PF01779 | Ribosomal L29e protein family (Ribosomal_L29e) | Ribosomal L29e protein family | - | Family | |
PF01776 | Ribosomal L22e protein family (Ribosomal_L22e) | Ribosomal L22e protein family | - | Family | |
PF01777 | Ribosomal L27e protein family (Ribosomal_L27e) | Ribosomal L27e protein family | - | Family | |
PF00281 | Ribosomal protein L5 (Ribosomal_L5) | Ribosomal protein L5 | - | Domain | |
PF00673 | ribosomal L5P family C-terminus (Ribosomal_L5_C) | ribosomal L5P family C-terminus | This region is found associated with Pfam:PF00281. | Domain | |
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 | |
PF01655 | Ribosomal protein L32 (Ribosomal_L32e) | Ribosomal protein L32 | - | Family | |
PF01199 | Ribosomal protein L34e (Ribosomal_L34e) | Ribosomal protein L34e | - | Family | |
PF01158 | Ribosomal protein L36e (Ribosomal_L36e) | Ribosomal protein L36e | - | Family |