Structure of the yeast mitochondrial large ribosomal subunit
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
| Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
|---|---|---|---|---|---|
| C | SCOP2B Superfamily | Translational proteins | 8098614 | 3000811 | SCOP2B (2022-06-29) |
| H | SCOP2 Family | Ribosomal protein L13 | 8066070 | 4003623 | SCOP2 (2022-06-29) |
| H | SCOP2 Superfamily | Ribosomal protein L13 | 8066071 | 3001134 | SCOP2 (2022-06-29) |
| I | SCOP2 Family | Ribosomal protein L14 | 8072039 | 4001826 | SCOP2 (2022-06-29) |
| I | SCOP2 Superfamily | 50S Ribosomal protein L14-like | 8072040 | 3000433 | SCOP2 (2022-06-29) |
| AA [auth 0] | SCOP2 Family | Ribosomal protein L36 | 8083317 | 4003715 | SCOP2 (2022-06-29) |
| AA [auth 0] | SCOP2 Superfamily | Ribosomal protein L36 | 8083318 | 3001346 | SCOP2 (2022-06-29) |
| DA [auth 3] | SCOP2 Family | Mitochondrial ribosomal protein L27-like | 8045632 | 4004579 | SCOP2 (2022-06-29) |
| DA [auth 3] | SCOP2 Superfamily | Mitochondrial ribosomal protein L27-like | 8053894 | 3002240 | SCOP2 (2022-06-29) |
| Z | SCOP2 Family | Ribosomal protein L35p | 8098751 | 4003406 | SCOP2 (2022-06-29) |
| Z | SCOP2 Superfamily | L35p-like | 8098752 | 3000790 | 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) |
|---|---|---|---|---|---|---|---|---|
| C | PemK_toxin | e3j6bC1 | A: alpha arrays | X: Alpha-crystallin B chain N-terminal domain | H: profilin-like | T: C-terminal domain in DHH phosphoesterases | F: PemK_toxin | ECOD (v295.2) |
| D | L51_S25_CI-B8 | e3j6bD1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| G | L51_S25_CI-B8 | e3j6bG1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| H | L51_S25_CI-B8 | e3j6bH1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| I | L51_S25_CI-B8 | e3j6bI1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| K | L51_S25_CI-B8 | e3j6bK1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| L | L51_S25_CI-B8 | e3j6bL1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| L | Mrpl_C | e3j6bL2 | A: alpha arrays | X: SH3 | H: SH3 | T: SH3 | F: Mrpl_C | ECOD (v295.2) |
| O | L51_S25_CI-B8 | e3j6bO1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| P | L51_S25_CI-B8 | e3j6bP1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| Q | KOW, Ribosomal_uL24m-like | e3j6bQ1 | A: alpha arrays | X: SH3 | H: SH3 | T: SH3 | F: KOW, Ribosomal_uL24m-like | ECOD (v295.2) |
| R | L51_S25_CI-B8 | e3j6bR1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| R | Ribosomal_L27_C | e3j6bR2 | A: alpha arrays | X: Mitochondrial 54S ribosomal protein L25 | H: Mitochondrial 54S ribosomal protein L25 | T: Mitochondrial 54S ribosomal protein L25 | F: Ribosomal_L27_C | ECOD (v295.2) |
| S | L51_S25_CI-B8 | e3j6bS1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| T | L51_S25_CI-B8 | e3j6bT1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| V | FlaF_Ig-like | e3j6bV1 | A: alpha arrays | X: Immunoglobulin-like beta-sandwich | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: FlaF_Ig-like | ECOD (v295.2) |
| X | PemK_toxin | e3j6bX1 | A: alpha arrays | X: Alpha-crystallin B chain N-terminal domain | H: profilin-like | T: C-terminal domain in DHH phosphoesterases | F: PemK_toxin | ECOD (v295.2) |
| AA [auth 0] | L51_S25_CI-B8 | e3j6b01 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| BA [auth 1] | L51_S25_CI-B8 | e3j6b11 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| DA [auth 3] | MRP-L27 | e3j6b31 | A: alpha arrays | X: SH3 | H: Mitochondrial 54S ribosomal protein L27 | T: Mitochondrial 54S ribosomal protein L27 | F: MRP-L27 | ECOD (v295.2) |
| EA [auth 4] | L51_S25_CI-B8 | e3j6b41 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| GA [auth 6] | MRP-L46 | e3j6b61 | A: alpha arrays | X: SH3 | H: Nudix | T: Nudix | F: MRP-L46 | ECOD (v295.2) |
| IA [auth 8] | Ribosomal_L4 | e3j6b81 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: Ribosomal_L4 | ECOD (v295.2) |
| JA [auth 9] | Ribosomal_L4 | e3j6b91 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: Ribosomal_L4 | ECOD (v295.2) |
| LA [auth b] | Mitoc_mL59 | e3j6bb1 | A: alpha arrays | X: Mitochondrial 54S ribosomal protein L25 | H: Mitochondrial 54S ribosomal protein L25 | T: Mitochondrial 54S ribosomal protein L25 | F: Mitoc_mL59 | ECOD (v295.2) |
| NA [auth d] | DUF4847 | e3j6bd1 | A: alpha arrays | X: beta-propeller-like | H: beta-propeller | T: Nucleic acid-binding protein | F: DUF4847 | ECOD (v295.2) |
| F | L51_S25_CI-B8 | e3j6bF1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| E | L51_S25_CI-B8 | e3j6bE1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| MA [auth c] | L31 | e3j6bc1 | A: alpha arrays | X: Mitochondrial 54S ribosomal protein L31 | H: Mitochondrial 54S ribosomal protein L31 | T: Mitochondrial 54S ribosomal protein L31 | F: L31 | ECOD (v295.2) |
| KA [auth a] | MRP-L20 | e3j6ba1 | A: alpha arrays | X: Mitochondrial 54S ribosomal protein L25 | H: Mitochondrial 54S ribosomal protein L25 | T: Mitochondrial 54S ribosomal protein L25 | F: MRP-L20 | ECOD (v295.2) |
| HA [auth 7] | Ribosomal_L4 | e3j6b71 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: Ribosomal_L4 | ECOD (v295.2) |
| FA [auth 5] | Ribosomal_L4 | e3j6b51 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: Ribosomal_L4 | ECOD (v295.2) |
| CA [auth 2] | MRP-L28 | e3j6b21 | A: alpha arrays | X: Mitochondrial 54S ribosomal protein L28 | H: Mitochondrial 54S ribosomal protein L28 | T: Mitochondrial 54S ribosomal protein L28 | F: MRP-L28 | ECOD (v295.2) |
| Z | L51_S25_CI-B8 | e3j6bZ1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| Y | L51_S25_CI-B8 | e3j6bY1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| W | L51_S25_CI-B8 | e3j6bW1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| U | L51_S25_CI-B8 | e3j6bU1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| B | L51_S25_CI-B8 | e3j6bB1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| N | L51_S25_CI-B8 | e3j6bN1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| M | L51_S25_CI-B8 | e3j6bM1 | A: alpha arrays | X: Spectrin repeat-like | H: Ribosomal protein S20 | T: Ribosomal protein S20 | F: L51_S25_CI-B8 | ECOD (v295.2) |
| J | PemK_toxin | e3j6bJ1 | A: alpha arrays | X: Alpha-crystallin B chain N-terminal domain | H: profilin-like | T: C-terminal domain in DHH phosphoesterases | F: PemK_toxin | ECOD (v295.2) |
Protein Family Annotation Pfam Database Homepage
| Chains | Accession | Name | Description | Comments | Source |
|---|---|---|---|---|---|
| PF12824 | Mitochondrial ribosomal protein subunit L20 (MRP-L20) | Mitochondrial ribosomal protein subunit L20 | This family is the essential mitochondrial ribosomal protein subunit L20 of fungi. | Domain | |
| PF00297 | Ribosomal protein L3 (Ribosomal_L3) | Ribosomal protein L3 | - | Family | |
| PF12829 | Transcriptional regulation of mitochondrial recombination (Mhr1) | Transcriptional regulation of mitochondrial recombination | - | Family | |
| PF00573 | Ribosomal protein L4/L1 family (Ribosomal_L4) | Ribosomal protein L4/L1 family | - | Family | |
| PF00572 | Ribosomal protein L13 (Ribosomal_L13) | Ribosomal protein L13 | - | 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 | ||
| PF01196 | Ribosomal protein L17 (Ribosomal_L17) | Ribosomal protein L17 | - | Family | |
| PF18502 | 54S ribosomal protein L8 C-terminal domain (Mrpl_C) | 54S ribosomal protein L8 C-terminal domain | This is the C-terminal domain of mitochondrial 54S ribosomal protein L8. | Domain | |
| 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 | |
| PF00467 | KOW motif (KOW) | KOW motif | - | Family | |
| PF18471 | Ribosomal L27 protein C-terminal domain (Ribosomal_L27_C) | Ribosomal L27 protein C-terminal domain | This is the C-terminal domain of 54S ribosomal protein L2 (also known as Mitochondrial large ribosomal subunit protein bL27m). bL27 C-terminal region interacts with an expansion segment of 21S rRNA to form part of the central protuberance [1]. | Domain | |
| PF00830 | Ribosomal L28 family (Ribosomal_L28) | Ribosomal L28 family | - | Family | |
| PF06984 | Mitochondrial 39-S ribosomal protein L47 (MRP-L47) (MRP-L47) | Mitochondrial 39-S ribosomal protein L47 (MRP-L47) | - | Family | |
| PF21492 | Ribosomal protein L31p, N-terminal (bL31_N) | Ribosomal protein L31p, N-terminal | Ribosomal protein L31p (bL31, also known as 54S ribosomal protein L36), is a component of the mitochondrial ribosome. Overexpression of bL31m suppresses mutations in the COX2 leader peptide-encoding and initiation codon regions [1,2]. This entry repr ... | Domain | |
| AA [auth 0] | PF00444 | Ribosomal protein L36 (Ribosomal_L36) | Ribosomal protein L36 | Domain | |
| BA [auth 1] | PF01161 | Phosphatidylethanolamine-binding protein (PBP) | Phosphatidylethanolamine-binding protein | Domain | |
| DA [auth 3] | PF09809 | Mitochondrial ribosomal protein L27 (MRP-L27) | Mitochondrial ribosomal protein L27 | - | Family |
| EA [auth 4] | PF05047 | Mitochondrial ribosomal protein L51 / S25 / CI-B8 domain (L51_S25_CI-B8) | Mitochondrial ribosomal protein L51 / S25 / CI-B8 domain | The proteins in this family are located in the mitochondrion. The family includes ribosomal protein L51, and S25. This family also includes mitochondrial NADH-ubiquinone oxidoreductase B8 subunit (CI-B8) EC:1.6.5.3. It is not known whether all member ... | Domain |
| GA [auth 6] | PF11788 | 39S mitochondrial ribosomal protein L46 (MRP-L46) | 39S mitochondrial ribosomal protein L46 | - | Family |
| JA [auth 9] | PF00636 | Ribonuclease III domain (Ribonuclease_3) | Ribonuclease III domain | - | Family |
| PF00347 | Ribosomal protein L6 (Ribosomal_L6) | Ribosomal protein L6 | Domain | ||
| 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 | |
| HA [auth 7] | PF05046 | Mitochondrial large subunit ribosomal protein (Img2) (Img2) | Mitochondrial large subunit ribosomal protein (Img2) | This family of proteins have been identified as part of the mitochondrial large ribosomal subunit in yeast [1]. | Domain |
| FA [auth 5] | PF00636 | Ribonuclease III domain (Ribonuclease_3) | Ribonuclease III domain | - | Family |
| FA [auth 5] | PF22892 | MRPL44 dsRNA-binding domain (DSRM_MRPL44) | MRPL44 dsRNA-binding domain | This double stranded RNA-binding domain is found in the Large ribosomal subunit protein mL44 protein. | Domain |
| PF01632 | Ribosomal protein L35 (Ribosomal_L35p) | Ribosomal protein L35 | - | Family | |
| PF00468 | Ribosomal protein L34 (Ribosomal_L34) | Ribosomal protein L34 | - | Family | |
| PF01783 | Ribosomal L32p protein family (Ribosomal_L32p) | Ribosomal L32p protein family | - | Family | |
| PF00327 | Ribosomal protein L30p/L7e (Ribosomal_L30) | Ribosomal protein L30p/L7e | This family includes prokaryotic L30 and eukaryotic L7. | Domain | |
| PF03947 | Ribosomal Proteins L2, C-terminal domain (Ribosomal_L2_C) | Ribosomal Proteins L2, C-terminal domain | Domain | ||
| PF00181 | Ribosomal Proteins L2, RNA binding N-terminal domain (Ribosomal_L2_N) | Ribosomal Proteins L2, RNA binding N-terminal domain | Domain | ||
| PF18126 | Mitochondrial ribosomal protein mL59 (Mitoc_mL59) | Mitochondrial ribosomal protein mL59 | This domain is a protein found in mitochondrial ribosome 54S large sub unit present in species such as Saccharomyces cerevisiae. The domain used to be referred to as MRP25 but is now called mL59 protein. mL59 is known to partially stabilize a change ... | Domain | |
| PF00829 | Ribosomal prokaryotic L21 protein (Ribosomal_L21p) | Ribosomal prokaryotic L21 protein | - | Family | |
| PF01245 | Ribosomal protein L19 (Ribosomal_L19) | Ribosomal protein L19 | - | Family | |
| PF00828 | Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A (Ribosomal_L27A) | Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A | This family includes higher eukaryotic ribosomal 60S L27A, archaeal 50S L18e, prokaryotic 50S L15, fungal mitochondrial L10, plant L27A, mitochondrial L15 and chloroplast L18-3 proteins. | Domain |














