Specific features and methylation sites of a plant ribosome. 60S ribosomal subunit.
Domain Annotation: ECOD Classification ECOD Database Homepage
| Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
|---|---|---|---|---|---|---|---|---|
| A [auth D] | Ribosomal_L2_1 | e7qiwD2 | 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 [auth D] | Ribosomal_L2_C_2 | e7qiwD1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L2_C_2 | ECOD (1.6) |
| B [auth F] | Ribosomal_L4 | e7qiwF1 | 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) |
| B [auth F] | Ribos_L4_asso_C | e7qiwF2 | A: extended segments | X: C-terminal helical region in 60S ribosomal protein L4 (L4p) (From Topology) | H: C-terminal helical region in 60S ribosomal protein L4 (L4p) (From Topology) | T: C-terminal helical region in 60S ribosomal protein L4 (L4p) | F: Ribos_L4_asso_C | ECOD (1.6) |
| C [auth E] | Ribosomal_L3 | e7qiwE1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: Alanine racemase-C | F: Ribosomal_L3 | ECOD (1.6) |
| E [auth H] | Ribosomal_L6e | e7qiwH1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L6e | ECOD (1.6) |
| F [auth I] | Ribosomal_L30_1 | e7qiwI1 | 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) |
| G [auth J] | Ribosomal_L7Ae_1 | e7qiwJ1 | 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) |
| H [auth K] | Ribosomal_L6_2 | e7qiwK1 | 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) |
| H [auth K] | Ribosomal_L6 | e7qiwK2 | 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) |
| J [auth M] | Ribosomal_L5_C | e7qiwM1 | 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) |
| K [auth N] | Ribosomal_L13e | e7qiwN1 | A: extended segments | X: RPL13 (From Topology) | H: RPL13 (From Topology) | T: RPL13 | F: Ribosomal_L13e | ECOD (1.6) |
| L [auth O] | Ribosomal_L14e | e7qiwO1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L14e | ECOD (1.6) |
| M [auth P] | Ribosomal_L15e | e7qiwP1 | 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) |
| N [auth Q] | Ribosomal_L13 | e7qiwQ1 | 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) |
| O [auth R] | Ribosomal_L22 | e7qiwR1 | 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) |
| R [auth U] | Ribosomal_L18A | e7qiwU1 | A: a+b two layers | X: GP2-like | H: RplX-like (From Topology) | T: RplX-like | F: Ribosomal_L18A | ECOD (1.6) |
| S [auth V] | Ribosomal_L21e | e7qiwV1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L21e | ECOD (1.6) |
| V [auth Y] | Ribosomal_L24e | e7qiwY1 | A: few secondary structure elements | X: Glucocorticoid receptor-like | H: LIM domain-like | T: LIM domain-like | F: Ribosomal_L24e | ECOD (1.6) |
| W [auth Z] | Ribosomal_L23_3 | e7qiwZ1 | 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) |
| X [auth a] | Ribosomal_L26 | e7qiwa1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L26 | ECOD (1.6) |
| Y [auth b] | Ribosomal_L27e | e7qiwb1 | A: beta barrels | X: SH3 | H: SH3 | T: SH3 | F: Ribosomal_L27e | ECOD (1.6) |
| Z [auth c] | Ribosomal_L18 | e7qiwc1 | 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) |
| BA [auth e] | Ribosomal_L7Ae | e7qiwe1 | A: a+b three layers | X: Bacillus chorismate mutase-like | H: L30e-like (From Topology) | T: L30e-like | F: Ribosomal_L7Ae | ECOD (1.6) |
| CA [auth f] | Ribosomal_L31e | e7qiwf1 | 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) |
| DA [auth g] | Ribosomal_L32e | e7qiwg1 | 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) |
| EA [auth h] | Ribosomal_L35Ae | e7qiwh1 | A: beta barrels | X: cradle loop barrel | H: RIFT-related | T: Alanine racemase-C | F: Ribosomal_L35Ae | ECOD (1.6) |
| FA [auth i] | Ribosomal_L34e | e7qiwi1 | A: few secondary structure elements | X: Glucocorticoid receptor-like | H: RPL34 (From Topology) | T: RPL34 | F: Ribosomal_L34e | ECOD (1.6) |
| GA [auth j] | Ribosomal_L29_2 | e7qiwj1 | 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) |
| IA [auth l] | Ribosomal_L37e | e7qiwl1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: Ribosomal_L37e | ECOD (1.6) |
| JA [auth m] | Ribosomal_L38e | e7qiwm1 | 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) |
| KA [auth n] | Ribosomal_L39 | e7qiwn1 | 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) |
| LA [auth o] | Ribosomal_L40e | e7qiwo1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: Ribosomal_L40e | ECOD (1.6) |
| MA [auth p] | Ribosomal_L44 | e7qiwp1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: Ribosomal_L44 | ECOD (1.6) |
| NA [auth q] | Ribosomal_L37ae | e7qiwq1 | A: few secondary structure elements | X: Rubredoxin-like | H: Rubredoxin-related | T: Rubredoxin-related | F: Ribosomal_L37ae | ECOD (1.6) |
| OA [auth r] | Ribosomal_L28e | e7qiwr1 | A: a+b two layers | X: RPL28 (From Topology) | H: RPL28 (From Topology) | T: RPL28 | F: Ribosomal_L28e | ECOD (1.6) |
| D [auth G] | Ribosomal_L5e | e7qiwG1 | 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) |
| AA [auth d] | Ribosomal_L29e | e7qiwd1 | A: extended segments | X: RPL29 (From Topology) | H: RPL29 (From Topology) | T: RPL29 | F: Ribosomal_L29e | ECOD (1.6) |
| U [auth X] | Ribosomal_L14 | e7qiwX1 | 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) |
| T [auth W] | Ribosomal_L22e | e7qiwW1 | 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) |
| Q [auth T] | Ribosomal_L19e_N | e7qiwT2 | 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 [auth T] | Ribosomal_L19e_C | e7qiwT1 | 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) |
Protein Family Annotation Pfam Database Homepage
| Chains | Accession | Name | Description | Comments | Source |
|---|---|---|---|---|---|
| A [auth D] | PF03947 | Ribosomal Proteins L2, C-terminal domain (Ribosomal_L2_C) | Ribosomal Proteins L2, C-terminal domain | Domain | |
| A [auth D] | PF00181 | Ribosomal Proteins L2, RNA binding N-terminal domain (Ribosomal_L2_N) | Ribosomal Proteins L2, RNA binding N-terminal domain | Domain | |
| B [auth F] | 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 |
| B [auth F] | PF01198 | Ribosomal protein L31e (Ribosomal_L31e) | Ribosomal protein L31e | - | Family |
| B [auth F] | PF00573 | Ribosomal protein L4/L1 family (Ribosomal_L4) | Ribosomal protein L4/L1 family | - | Family |
| E [auth H] | PF01159 | Ribosomal protein L6e (Ribosomal_L6e) | Ribosomal protein L6e | - | Family |
| E [auth H] | PF01247 | Ribosomal protein L35Ae (Ribosomal_L35Ae) | Ribosomal protein L35Ae | This entry represents the ribosomal eL33 previously known as L35A, eukaryotic and archaebacterial ribosomal proteins. | Domain |
| F [auth I] | 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 |
| F [auth I] | PF00327 | Ribosomal protein L30p/L7e (Ribosomal_L30) | Ribosomal protein L30p/L7e | This family includes prokaryotic L30 and eukaryotic L7. | Domain |
| G [auth J] | PF00831 | Ribosomal L29 protein (Ribosomal_L29) | Ribosomal L29 protein | - | Family |
| G [auth J] | 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 K] | PF00347 | Ribosomal protein L6 (Ribosomal_L6) | Ribosomal protein L6 | Domain | |
| H [auth K] | PF01158 | Ribosomal protein L36e (Ribosomal_L36e) | Ribosomal protein L36e | - | Family |
| J [auth M] | PF00281 | Ribosomal protein L5 (Ribosomal_L5) | Ribosomal protein L5 | Domain | |
| J [auth M] | PF01781 | Ribosomal L38e protein family (Ribosomal_L38e) | Ribosomal L38e protein family | - | Family |
| J [auth M] | PF00673 | ribosomal L5P family C-terminus (Ribosomal_L5_C) | ribosomal L5P family C-terminus | This region is found associated with Pfam:PF00281. | Domain |
| K [auth N] | PF00832 | Ribosomal L39 protein (Ribosomal_L39) | Ribosomal L39 protein | - | Family |
| K [auth N] | PF01294 | Ribosomal protein L13e (Ribosomal_L13e) | Ribosomal protein L13e | - | Family |
| L [auth O] | PF01020 | Ribosomal L40e family (Ribosomal_L40e) | Ribosomal L40e family | Bovine L40 has been identified as a secondary RNA binding protein [1]. L40 is fused to a ubiquitin protein [2]. | Domain |
| L [auth O] | PF01929 | Ribosomal protein L14 (Ribosomal_L14e) | Ribosomal protein L14 | - | Family |
| M [auth P] | PF00935 | Ribosomal protein L44 (Ribosomal_L44) | Ribosomal protein L44 | - | Family |
| M [auth P] | PF00827 | Ribosomal L15 (Ribosomal_L15e) | Ribosomal L15 | - | Family |
| N [auth Q] | PF01780 | Ribosomal L37ae protein family (Ribosomal_L37ae) | Ribosomal L37ae protein family | - | Family |
| N [auth Q] | PF00572 | Ribosomal protein L13 (Ribosomal_L13) | Ribosomal protein L13 | - | Family |
| O [auth R] | PF01778 | Ribosomal L28e protein family (Ribosomal_L28e) | Ribosomal L28e protein family | - | Family |
| O [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 |
| P [auth S] | PF17135 | Ribosomal protein 60S L18 and 50S L18e (Ribosomal_L18) | Ribosomal protein 60S L18 and 50S L18e | - | Family |
| R [auth U] | 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 |
| V [auth Y] | PF01246 | Ribosomal protein L24e (Ribosomal_L24e) | Ribosomal protein L24e | Domain | |
| W [auth Z] | PF00276 | Ribosomal protein L23 (Ribosomal_L23) | Ribosomal protein L23 | - | Family |
| I [auth L] | PF01907 | Ribosomal protein L37e (Ribosomal_L37e) | Ribosomal protein L37e | - | Family |
| I [auth L] | PF00252 | Ribosomal protein L16p/L10e (Ribosomal_L16) | Ribosomal protein L16p/L10e | Domain | |
| D [auth G] | PF17144 | Ribosomal large subunit proteins 60S L5, and 50S L18 (Ribosomal_L5e) | Ribosomal large subunit proteins 60S L5, and 50S L18 | - | Family |
| D [auth G] | 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 |
| D [auth G] | PF01655 | Ribosomal protein L32 (Ribosomal_L32e) | Ribosomal protein L32 | - | Family |
| U [auth X] | PF00238 | Ribosomal protein L14p/L23e (Ribosomal_L14) | Ribosomal protein L14p/L23e | Domain | |
| Q [auth T] | PF01280 | Ribosomal protein L19e, N-terminal domain (Ribosomal_L19e) | Ribosomal protein L19e, N-terminal domain | This domain is found at the N-terminal end of the large ribosomal subunit protein eL19 found in eukaryotes and archaea. This is an helical domain that assumes an orthogonal bundle topology. | Domain |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Protein Modification Annotation
| Modified Residue(s) | ||
|---|---|---|
| Chain | Residue(s) | Description |
| C [auth E] | HIC | Parent Component: HIS :  AA0317 :  1'-methyl-L-histidine MOD:00322 |
| OA [auth r] | THC | Parent Component: THR :  AA0317 |
| QA [auth 2] | 1MA | Parent Component: A :  AA0317 |
| QA [auth 2] | 5MC | Parent Component: C :  AA0317 |
| QA [auth 2] | A2M | Parent Component: A :  AA0317 |
| QA [auth 2] | OMC | Parent Component: C :  AA0317 |
| QA [auth 2] | OMG | Parent Component: G :  AA0317 |
| QA [auth 2] | OMU | Parent Component: U :  AA0317 |
| QA [auth 2] | PSU | Parent Component: U :  AA0317 |
| QA [auth 2] | UR3 | Parent Component: U :  AA0317 |
| SA [auth 8] | A2M | Parent Component: A :  AA0317 |
| SA [auth 8] | OMG | Parent Component: G :  AA0317 |
| SA [auth 8] | PSU | Parent Component: U :  AA0317 |














