6GAW
Unique features of mammalian mitochondrial translation initiation revealed by cryo-EM. This file contains the complete 55S ribosome.
This is a non-PDB format compatible entry.
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | CL, DL, EL, FL, GL... | Mitochondrial ribosomal protein L12 | polymer | 198 | 21269.0 | 7 | UniProt (A0A287ARV8) UniProt (by SIFTS) (A0A4X1U6S6) Pfam (PF16320) Pfam (PF00542) In PDB | Sus scrofa (Pig) | |
| 2 | B0 | Mitochondrial ribosomal protein L27 | polymer | 148 | 15943.7 | 1 | UniProt (F1RT79) UniProt (by SIFTS) (A0A4X1U0F6) Pfam (PF01016) In PDB | Sus scrofa (Pig) | |
| 3 | B1 | Mitochondrial ribosomal protein L28 | polymer | 256 | 30149.0 | 1 | UniProt (A0A286ZTW8) Pfam (PF00830) In PDB | Sus scrofa (Pig) | |
| 4 | B2 | Mitochondrial ribosomal protein L47 | polymer | 252 | 30085.1 | 1 | UniProt (F1SGC7) Pfam (PF06984) In PDB | Sus scrofa (Pig) | |
| 5 | B3 | uL30m | polymer | 161 | 18585.8 | 1 | UniProt (F1STE5) UniProt (by SIFTS) (A0A8D1MIP3) Pfam (PF00327) In PDB | Sus scrofa (Pig) | |
| 6 | B4 | 39S ribosomal protein L55, mitochondrial | polymer | 126 | 15156.5 | 1 | UniProt (I3L9J0) UniProt (by SIFTS) (A0A4X1ULI6) Pfam (PF09776) In PDB | Sus scrofa (Pig) | |
| 7 | B5 | bL32m | polymer | 188 | 21537.9 | 1 | UniProt (I3LTC4) Pfam (PF01783) In PDB | Sus scrofa (Pig) | |
| 8 | B6 | bL33m | polymer | 65 | 7508.1 | 1 | UniProt (A0A286ZU68) UniProt (by SIFTS) (A0A4X1TLP9) Pfam (PF00471) In PDB | Sus scrofa (Pig) | |
| 9 | B7 | Mitochondrial ribosomal protein L34 | polymer | 95 | 10871.7 | 1 | UniProt (A0A287A119) UniProt (by SIFTS) (A0A4X1UFR4) Pfam (PF00468) In PDB | Sus scrofa (Pig) | |
| 10 | B8 | Mitochondrial ribosomal protein L35 | polymer | 188 | 21548.5 | 1 | UniProt (F1SVC5) In PDB | Sus scrofa (Pig) | |
| 11 | B9 | Ribosomal protein | polymer | 100 | 10841.0 | 1 | UniProt (A0A287A731) Pfam (PF00444) In PDB | Sus scrofa (Pig) | |
| 12 | BA | 16S ribosomal RNA, mitochondrial | polymer | 1571 | 504852.0 | 1 | GenBank (33320725) | Sus scrofa (pig) | |
| 13 | BB | tRNA-Phe, mitochondrial | polymer | 73 | 23402.0 | 1 | GenBank (76262549) | Sus scrofa (pig) | |
| 14 | BC | Translation initiation factor IF-2, mitochondrial | polymer | 650 | 72321.8 | 1 | UniProt (P46199) Pfam (PF11987) Pfam (PF00009) Pfam (PF22042) In PDB | Homo sapiens (Human) | IF2(mt) |
| 15 | BD | 39S ribosomal protein L2, mitochondrial | polymer | 306 | 33270.9 | 1 | UniProt (F1RRN2) Pfam (PF00181) In PDB | Sus scrofa (Pig) | |
| 16 | BE | ICT1 | polymer | 348 | 38427.2 | 1 | UniProt (A0A140UHW4) Pfam (PF00297) In PDB | Sus scrofa (Pig) | Mitochondrial ribosomal protein L3 |
| 17 | BF | Mitochondrial ribosomal protein L4 | polymer | 294 | 33251.5 | 1 | UniProt (A0A287B9C4) Pfam (PF00573) In PDB | Sus scrofa (Pig) | |
| 18 | BI | Mitochondrial ribosomal protein L9 | polymer | 268 | 30373.4 | 1 | UniProt (I3LR45) Pfam (PF01281) Pfam (PF22078) In PDB | Sus scrofa (Pig) | |
| 19 | BJ | Mitochondrial ribosomal protein L10 | polymer | 262 | 29449.7 | 1 | UniProt (F1RWJ0) Pfam (PF00466) In PDB | Sus scrofa (Pig) | |
| 20 | BK | Mitochondrial ribosomal protein L11 | polymer | 192 | 20809.3 | 1 | UniProt (F1RU54) Pfam (PF00298) In PDB | Sus scrofa (pig) | |
| 21 | BN | 39S ribosomal protein L13, mitochondrial | polymer | 178 | 20633.8 | 1 | UniProt (K7GP19) Pfam (PF00572) In PDB | Sus scrofa (Pig) | |
| 22 | BO | uL14m | polymer | 145 | 15955.6 | 1 | UniProt (A0A287BMZ6) UniProt (by SIFTS) (F1RQV7) Pfam (PF00238) In PDB | Sus scrofa (Pig) | |
| 23 | BP | 39S ribosomal protein L15, mitochondrial | polymer | 296 | 33481.7 | 1 | UniProt (F1RSH0) In PDB | Sus scrofa (Pig) | |
| 24 | BQ | 39S ribosomal protein L16, mitochondrial | polymer | 251 | 28680.5 | 1 | UniProt (F1RI89) Pfam (PF00252) In PDB | Sus scrofa (Pig) | |
| 25 | BR | 39S ribosomal protein L17, mitochondrial | polymer | 169 | 19268.2 | 1 | UniProt (F1RMQ4) Pfam (PF01196) In PDB | Sus scrofa (Pig) | |
| 26 | BS | Mitochondrial ribosomal protein L18 | polymer | 180 | 20582.6 | 1 | UniProt (A0A286ZNK1) Pfam (PF00861) In PDB | Sus scrofa (Pig) | |
| 27 | BT | Mitochondrial ribosomal protein L19 | polymer | 292 | 33441.5 | 1 | UniProt (I3LNJ0) Pfam (PF01245) In PDB | Sus scrofa (Pig) | |
| 28 | BU | Mitochondrial ribosomal protein L20 | polymer | 149 | 17554.8 | 1 | UniProt (A0A286ZU56) Pfam (PF00453) In PDB | Sus scrofa (Pig) | |
| 29 | BV | Mitochondrial ribosomal protein L21 | polymer | 209 | 23154.9 | 1 | UniProt (F1RY70) Pfam (PF00829) In PDB | Sus scrofa (Pig) | |
| 30 | BW | uL22m | polymer | 210 | 24313.4 | 1 | UniProt (F1RQC9) UniProt (by SIFTS) (A0A4X1TXR4) Pfam (PF00237) In PDB | Sus scrofa (Pig) | |
| 31 | BX | uL23m | polymer | 150 | 17643.2 | 1 | UniProt (A0A286ZZC6) In PDB | Sus scrofa (Pig) | |
| 32 | BY | 39S ribosomal protein L24, mitochondrial | polymer | 216 | 24893.5 | 1 | UniProt (F1RHJ1) Pfam (PF00467) Pfam (PF17136) In PDB | Sus scrofa (Pig) | |
| 33 | Ba | Mitochondrial ribosomal protein L37 | polymer | 423 | 47918.0 | 1 | UniProt (A0A287BIV6) Pfam (PF07147) In PDB | Sus scrofa (Pig) | |
| 34 | Bb | Mitochondrial ribosomal protein L38 | polymer | 380 | 44656.4 | 1 | UniProt (F1RW03) Pfam (PF01161) In PDB | Sus scrofa (Pig) | |
| 35 | Bc | Mitochondrial ribosomal protein L39 | polymer | 334 | 38523.4 | 1 | UniProt (F1SHP6) In PDB | Sus scrofa (Pig) | |
| 36 | Bd | 39S ribosomal protein L40, mitochondrial isoform 1 | polymer | 206 | 24075.7 | 1 | UniProt (A0A286ZP98) Pfam (PF09812) In PDB | Sus scrofa (Pig) | |
| 37 | Be | Mitochondrial ribosomal protein L41 | polymer | 135 | 15073.4 | 1 | UniProt (A0A287AWS0) UniProt (by SIFTS) (A0A8D1F1K9) Pfam (PF09809) In PDB | Sus scrofa (Pig) | |
| 38 | Bf | mL42 | polymer | 142 | 16680.2 | 1 | UniProt (A0A287BQA1) Pfam (PF10210) In PDB | Sus scrofa (Pig) | |
| 39 | Bg | mL43 | polymer | 159 | 17728.1 | 1 | UniProt (F1S8U4) Pfam (PF05047) In PDB | Sus scrofa (Pig) | |
| 40 | Bh | 39S ribosomal protein L44, mitochondrial | polymer | 332 | 37527.2 | 1 | UniProt (F1SR64) Pfam (PF22935) Pfam (PF22892) In PDB | Sus scrofa (Pig) | |
| 41 | Bi | mL45 | polymer | 306 | 35331.8 | 1 | UniProt (I3LGM5) Pfam (PF04280) In PDB | Sus scrofa (Pig) | |
| 42 | Bj | Mitochondrial ribosomal protein L46 | polymer | 279 | 32216.0 | 1 | UniProt (F1SRT0) Pfam (PF11788) In PDB | Sus scrofa (Pig) | |
| 43 | Bk | Mitochondrial ribosomal protein L48 | polymer | 212 | 23749.5 | 1 | UniProt (F1SUS9) UniProt (by SIFTS) (A0A480J9Z6) Pfam (PF00338) In PDB | Sus scrofa (Pig) | |
| 44 | Bl | 39S ribosomal protein L49, mitochondrial | polymer | 166 | 18957.8 | 1 | UniProt (A0A0R4J8D6) Pfam (PF05046) In PDB | Sus scrofa (Pig) | Mrpl34 |
| 45 | Bm | mL50 | polymer | 159 | 18351.0 | 1 | UniProt (I3L9H6) Pfam (PF10501) In PDB | Sus scrofa (Pig) | |
| 46 | Bn | Mitochondrial ribosomal protein L51 | polymer | 128 | 15249.0 | 1 | UniProt (A0A287BE26) UniProt (by SIFTS) (A0A8D1P1C8) Pfam (PF10244) In PDB | Sus scrofa (Pig) | |
| 47 | Bo | 39S ribosomal protein L52, mitochondrial | polymer | 124 | 13813.7 | 1 | UniProt (F1S9B7) Pfam (PF18699) In PDB | Sus scrofa (Pig) | |
| 48 | Bp | mL53 | polymer | 112 | 12029.8 | 1 | Sus scrofa | ||
| 49 | Bq | mL54 | polymer | 138 | 15957.4 | 1 | UniProt (I3LN63) Pfam (PF08561) In PDB | Sus scrofa (Pig) | |
| 50 | Bt | Mitochondrial ribosomal protein L57 | polymer | 102 | 12001.9 | 1 | UniProt (A0A287BP93) Pfam (PF14978) In PDB | Sus scrofa (Pig) | |
| 51 | Bu | Peptidyl-tRNA hydrolase ICT1, mitochondrial | polymer | 205 | 23545.9 | 1 | UniProt (A0A286ZJR2) Pfam (PF00472) In PDB | Sus scrofa (Pig) | |
| 52 | Bv | mL64 | polymer | 222 | 25815.0 | 1 | UniProt (A0A286ZXA6) Pfam (PF10147) In PDB | Sus scrofa (Pig) | |
| 53 | Bw | mL65 | polymer | 433 | 49100.5 | 1 | Sus scrofa | ||
| 54 | Bx | Mitochondrial ribosomal protein S18A | polymer | 196 | 22273.1 | 1 | UniProt (F1RRH6) Pfam (PF01084) In PDB | Sus scrofa (Pig) | |
| 55 | Bz | unassigned secondary structure elements | polymer | 82 | 5846.4 | 1 | Sus scrofa | ||
| 56 | AA | 12S ribosomal RNA, mitochondrial | polymer | 962 | 308989.1 | 1 | GenBank (11055671) | Sus scrofa | |
| 57 | AB | Mitochondrial ribosomal protein S2 | polymer | 289 | 31731.6 | 1 | UniProt (F1S001) Pfam (PF00318) In PDB | Sus scrofa (Pig) | |
| 58 | AC | Mitochondrial ribosomal protein S24 | polymer | 167 | 18935.2 | 1 | UniProt (A0A287ANU4) Pfam (PF14955) In PDB | Sus scrofa (Pig) | |
| 59 | AE | Mitochondrial ribosomal protein S5 | polymer | 430 | 48213.1 | 1 | UniProt (F1SU66) Pfam (PF21251) Pfam (PF00333) Pfam (PF03719) In PDB | Sus scrofa (Pig) | |
| 60 | AF | Mitochondrial ribosomal protein S6 | polymer | 124 | 14283.7 | 1 | UniProt (I3LEJ9) In PDB | Sus scrofa (Pig) | Mitoribosomal protein bs6m,mrps6 |
| 61 | AG | Mitochondrial ribosomal protein S7 | polymer | 242 | 28150.9 | 1 | UniProt (A0A286ZJ25) Pfam (PF00177) In PDB | Sus scrofa (Pig) | |
| 62 | AI | 28S ribosomal protein S9, mitochondrial | polymer | 397 | 45604.6 | 1 | UniProt (I3LU08) Pfam (PF00380) In PDB | Sus scrofa (Pig) | |
| 63 | AJ | Mitochondrial ribosomal protein S10 | polymer | 201 | 23192.8 | 1 | UniProt (F1RUU2) Pfam (PF00338) In PDB | Sus scrofa (Pig) | |
| 64 | AK | 28S ribosomal protein S11, mitochondrial | polymer | 196 | 20841.9 | 1 | UniProt (A0A286ZJJ6) Pfam (PF00411) In PDB | Sus scrofa (Pig) | |
| 65 | AL | Mitochondrial ribosomal protein S12 | polymer | 139 | 15257.1 | 1 | UniProt (A0A0M3KL52) Pfam (PF00164) In PDB | Sus scrofa (Pig) | Mitoribosomal protein us12m,mrps12 |
| 66 | AN | Mitochondrial ribosomal protein S14 | polymer | 128 | 15120.7 | 1 | UniProt (A0A0M3KL53) Pfam (PF00253) In PDB | Sus scrofa (Pig) | Mitoribosomal protein us14m,mrps14 |
| 67 | AO | Uncharacterized protein | polymer | 239 | 27411.4 | 1 | UniProt (A0A287BMP0) Pfam (PF00312) In PDB | Sus scrofa (Pig) | |
| 68 | AP | bS16m | polymer | 135 | 15182.7 | 1 | Sus scrofa | ||
| 69 | AQ | uS17m | polymer | 130 | 14452.0 | 1 | UniProt (F1RIU0) Pfam (PF00366) UniProt (by SIFTS) (A0A8D1UDM1) In PDB | Sus scrofa (Pig) | |
| 70 | AR | Mitochondrial ribosomal protein S18C | polymer | 143 | 16211.1 | 1 | UniProt (A0A0M3KL54) Pfam (PF01084) In PDB | Sus scrofa (Pig) | Mitoribosomal protein bs18m,mrps18c |
| 71 | AU | bS21m | polymer | 87 | 10682.5 | 1 | UniProt (A0A286ZNB3) Pfam (PF01165) In PDB | Sus scrofa (Pig) | |
| 72 | AV | P-site fMet-tRNAMet, mitochondrial | polymer | 71 | 22664.5 | 1 | GenBank (1390216722) | Homo sapiens | |
| 73 | AX | MT-CO3 mRNA, mitochondrial | polymer | 201 | 63946.1 | 1 | GenBank (1388777935) | Homo sapiens | |
| 74 | AZ | unassigned secondary structure elements | polymer | 18 | 1297.4 | 1 | Sus scrofa | ||
| 75 | Aa | Mitochondrial ribosomal protein S22 | polymer | 382 | 43234.6 | 1 | UniProt (A0A287AQT5) Pfam (PF10245) In PDB | Sus scrofa (Pig) | |
| 76 | Ab | 28S ribosomal protein S23, mitochondrial | polymer | 190 | 21666.7 | 1 | UniProt (A0A287AEW3) Pfam (PF10484) In PDB | Sus scrofa (Pig) | |
| 77 | Ac | Mitochondrial ribosomal protein S25 | polymer | 173 | 19954.2 | 1 | UniProt (A0A0M3KL55) Pfam (PF05047) In PDB | Sus scrofa (Pig) | Mitoribosomal protein ms25,mrps25 |
| 78 | Ad | Mitochondrial ribosomal protein S26 | polymer | 205 | 23637.9 | 1 | UniProt (A0A287AY01) In PDB | Sus scrofa (Pig) | |
| 79 | Ae | mS27 | polymer | 455 | 51946.0 | 1 | Sus scrofa | ||
| 80 | Af | 28S ribosomal protein S28, mitochondrial | polymer | 188 | 21014.9 | 1 | UniProt (A0A0M3KL56) Pfam (PF10246) In PDB | Sus scrofa (Pig) | Mitoribosomal protein ms28,mrps28 |
| 81 | Ag | Death associated protein 3 | polymer | 397 | 45582.4 | 1 | UniProt (I3LS10) Pfam (PF10236) UniProt (by SIFTS) (A0A8D1XNL0) In PDB | Sus scrofa (Pig) | |
| 82 | Ah | mS31 | polymer | 387 | 44092.0 | 1 | Sus scrofa (Pig) | ||
| 83 | Ai | mS33 | polymer | 106 | 12544.6 | 1 | UniProt (F1S8G3) Pfam (PF08293) UniProt (by SIFTS) (A0A4X1V2H3) In PDB | Sus scrofa (Pig) | |
| 84 | Aj | 28S ribosomal protein S34, mitochondrial | polymer | 218 | 25843.8 | 1 | UniProt (F1RG19) In PDB | Sus scrofa (Pig) | |
| 85 | Ak | 28S ribosomal protein S35, mitochondrial | polymer | 325 | 37104.8 | 1 | UniProt (F1SG95) Pfam (PF10213) In PDB | Sus scrofa (Pig) | |
| 86 | Am | Coiled-coil-helix-coiled-coil-helix domain-containing protein 1 | polymer | 118 | 13561.9 | 1 | UniProt (F1SU49) Pfam (PF06747) UniProt (by SIFTS) (A0A4X1SZV4) In PDB | Sus scrofa (Pig) | |
| 87 | An | Aurora kinase A interacting protein 1 | polymer | 199 | 22843.9 | 1 | UniProt (A0A287B3R8) Pfam (PF08213) UniProt (by SIFTS) (A0A8D2A802) In PDB | Sus scrofa (Pig) | |
| 88 | Ao | Pentatricopeptide repeat domain-containing protein 3, mitochondrial | polymer | 692 | 78518.2 | 1 | UniProt (K7GKS8) Pfam (PF13812) Pfam (PF22330) In PDB | Sus scrofa (Pig) | |
| 89 | Ap | 28S ribosomal protein S18b, mitochondrial | polymer | 258 | 29220.5 | 1 | UniProt (Q767K8) Pfam (PF01084) In PDB | Sus scrofa (Pig) | S18mt-b,28S ribosomal protein S18-2,mitochondrial,MRP-S18-2 |
| 90 | BA, BJ, AA, BP, Be... | MAGNESIUM ION | non-polymer | 24.3 | 326 | Chemie (MG) | |||
| 91 | Bx, AR, Ac, B5, B9... | ZINC ION | non-polymer | 65.4 | 6 | Chemie (ZN) | |||
| 92 | BA | GUANOSINE-5'-MONOPHOSPHATE | non-polymer | 363.2 | 2 | Chemie (5GP) | |||
| 93 | BR, AA, BA | SPERMINE | non-polymer | 202.3 | 3 | Chemie (SPM) | |||
| 94 | BC | 5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE | non-polymer | 539.2 | 1 | Chemie (GSP) | |||
| 95 | BC | SODIUM ION | non-polymer | 23.0 | 1 | Chemie (NA) | |||
| 96 | AV | N-FORMYLMETHIONINE | non-polymer | 177.2 | 1 | Chemie (FME) | |||
| 97 | Ag | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 1 | Chemie (GTP) | |||
| 98 | water | water | 18.0 | 5 | Chemie (HOH) |
Sequence modifications
BB: 1 - 70 (GenBank: 76262549)
BQ: 1 - 251 (UniProt: F1RI89)
Bl: 1 - 166 (UniProt: A0A0R4J8D6)
AV: 1 - 68 (GenBank: 1390216722)
| PDB | External Database | Details |
|---|---|---|
| C 71 | - | insertion |
| C 72 | - | insertion |
| A 73 | - | insertion |
| PDB | External Database | Details |
|---|---|---|
| His 237 | Tyr 237 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Arg 59 | Lys 59 | conflict |
| PDB | External Database | Details |
|---|---|---|
| C 69 | - | insertion |
| C 70 | - | insertion |
| A 71 | - | insertion |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 95 |
| Total formula weight | 3196227.7 | |
| Non-Polymers* | Number of molecules | 341 |
| Total formula weight | 10912.0 | |
| All* | Total formula weight | 3207139.7 |
