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 | A, B, C, D, E... (CL, DL, EL, FL, GL...) | Mitochondrial ribosomal protein L12 | polymer | 198 | 21269.0 | 7 | UniProt (A0A287ARV8) UniProt (by SIFTS) (A0A4X1U6S6) Pfam (PF16320) Pfam (PF00542) | Sus scrofa (Pig) | |
| 2 | G (B0) | Mitochondrial ribosomal protein L27 | polymer | 148 | 15943.7 | 1 | UniProt (F1RT79) UniProt (by SIFTS) (A0A4X1U0F6) | Sus scrofa (Pig) | |
| 3 | H (B1) | Mitochondrial ribosomal protein L28 | polymer | 256 | 30149.0 | 1 | UniProt (A0A286ZTW8) Pfam (PF00830) | Sus scrofa (Pig) | |
| 4 | I (B2) | Mitochondrial ribosomal protein L47 | polymer | 252 | 30085.1 | 1 | UniProt (F1SGC7) Pfam (PF06984) | Sus scrofa (Pig) | |
| 5 | J (B3) | uL30m | polymer | 161 | 18585.8 | 1 | UniProt (F1STE5) UniProt (by SIFTS) (A0A8D1MIP3) Pfam (PF00327) | Sus scrofa (Pig) | |
| 6 | K (B4) | 39S ribosomal protein L55, mitochondrial | polymer | 126 | 15156.5 | 1 | UniProt (I3L9J0) UniProt (by SIFTS) (A0A4X1ULI6) Pfam (PF09776) | Sus scrofa (Pig) | |
| 7 | L (B5) | bL32m | polymer | 188 | 21537.9 | 1 | UniProt (I3LTC4) Pfam (PF01783) | Sus scrofa (Pig) | |
| 8 | M (B6) | bL33m | polymer | 65 | 7508.1 | 1 | UniProt (A0A286ZU68) UniProt (by SIFTS) (A0A4X1TLP9) Pfam (PF00471) | Sus scrofa (Pig) | |
| 9 | N (B7) | Mitochondrial ribosomal protein L34 | polymer | 95 | 10871.7 | 1 | UniProt (A0A287A119) UniProt (by SIFTS) (A0A4X1UFR4) Pfam (PF00468) | Sus scrofa (Pig) | |
| 10 | O (B8) | Mitochondrial ribosomal protein L35 | polymer | 188 | 21548.5 | 1 | UniProt (F1SVC5) | Sus scrofa (Pig) | |
| 11 | P (B9) | Ribosomal protein | polymer | 100 | 10841.0 | 1 | UniProt (A0A287A731) Pfam (PF00444) | Sus scrofa (Pig) | |
| 12 | Q (BA) | 16S ribosomal RNA, mitochondrial | polymer | 1571 | 504852.0 | 1 | GenBank (33320725) | Sus scrofa (pig) | |
| 13 | R (BB) | tRNA-Phe, mitochondrial | polymer | 73 | 23402.0 | 1 | GenBank (76262549) | Sus scrofa (pig) | |
| 14 | S (BC) | Translation initiation factor IF-2, mitochondrial | polymer | 650 | 72321.8 | 1 | UniProt (P46199) Pfam (PF00009) Pfam (PF22042) Pfam (PF11987) | Homo sapiens (Human) | IF2(mt) |
| 15 | T (BD) | 39S ribosomal protein L2, mitochondrial | polymer | 306 | 33270.9 | 1 | UniProt (F1RRN2) Pfam (PF00181) | Sus scrofa (Pig) | |
| 16 | U (BE) | ICT1 | polymer | 348 | 38427.2 | 1 | UniProt (A0A140UHW4) Pfam (PF00297) | Sus scrofa (Pig) | Mitochondrial ribosomal protein L3 |
| 17 | V (BF) | Mitochondrial ribosomal protein L4 | polymer | 294 | 33251.5 | 1 | UniProt (A0A287B9C4) Pfam (PF00573) | Sus scrofa (Pig) | |
| 18 | W (BI) | Mitochondrial ribosomal protein L9 | polymer | 268 | 30373.4 | 1 | UniProt (I3LR45) Pfam (PF25131) Pfam (PF01281) Pfam (PF22078) | Sus scrofa (Pig) | |
| 19 | X (BJ) | Mitochondrial ribosomal protein L10 | polymer | 262 | 29449.7 | 1 | UniProt (F1RWJ0) Pfam (PF00466) | Sus scrofa (Pig) | |
| 20 | Y (BK) | Mitochondrial ribosomal protein L11 | polymer | 192 | 20809.3 | 1 | UniProt (F1RU54) Pfam (PF00298) | Sus scrofa (pig) | |
| 21 | AA (BN) | 39S ribosomal protein L13, mitochondrial | polymer | 178 | 20633.8 | 1 | UniProt (K7GP19) Pfam (PF00572) | Sus scrofa (Pig) | |
| 22 | BA (BO) | uL14m | polymer | 145 | 15955.6 | 1 | UniProt (A0A287BMZ6) UniProt (by SIFTS) (F1RQV7) Pfam (PF00238) | Sus scrofa (Pig) | |
| 23 | CA (BP) | 39S ribosomal protein L15, mitochondrial | polymer | 296 | 33481.7 | 1 | UniProt (F1RSH0) | Sus scrofa (Pig) | |
| 24 | DA (BQ) | 39S ribosomal protein L16, mitochondrial | polymer | 251 | 28680.5 | 1 | UniProt (F1RI89) Pfam (PF00252) | Sus scrofa (Pig) | |
| 25 | EA (BR) | 39S ribosomal protein L17, mitochondrial | polymer | 169 | 19268.2 | 1 | UniProt (F1RMQ4) Pfam (PF01196) | Sus scrofa (Pig) | |
| 26 | FA (BS) | Mitochondrial ribosomal protein L18 | polymer | 180 | 20582.6 | 1 | UniProt (A0A286ZNK1) Pfam (PF00861) | Sus scrofa (Pig) | |
| 27 | GA (BT) | Mitochondrial ribosomal protein L19 | polymer | 292 | 33441.5 | 1 | UniProt (I3LNJ0) Pfam (PF01245) | Sus scrofa (Pig) | |
| 28 | HA (BU) | Mitochondrial ribosomal protein L20 | polymer | 149 | 17554.8 | 1 | UniProt (A0A286ZU56) Pfam (PF00453) | Sus scrofa (Pig) | |
| 29 | IA (BV) | Mitochondrial ribosomal protein L21 | polymer | 209 | 23154.9 | 1 | UniProt (F1RY70) Pfam (PF00829) | Sus scrofa (Pig) | |
| 30 | JA (BW) | uL22m | polymer | 210 | 24313.4 | 1 | UniProt (F1RQC9) UniProt (by SIFTS) (A0A4X1TXR4) Pfam (PF00237) | Sus scrofa (Pig) | |
| 31 | KA (BX) | uL23m | polymer | 150 | 17643.2 | 1 | UniProt (A0A286ZZC6) | Sus scrofa (Pig) | |
| 32 | LA (BY) | 39S ribosomal protein L24, mitochondrial | polymer | 216 | 24893.5 | 1 | UniProt (F1RHJ1) Pfam (PF00467) Pfam (PF17136) | Sus scrofa (Pig) | |
| 33 | MA (Ba) | Mitochondrial ribosomal protein L37 | polymer | 423 | 47918.0 | 1 | UniProt (A0A287BIV6) Pfam (PF07147) | Sus scrofa (Pig) | |
| 34 | NA (Bb) | Mitochondrial ribosomal protein L38 | polymer | 380 | 44656.4 | 1 | UniProt (F1RW03) Pfam (PF01161) | Sus scrofa (Pig) | |
| 35 | OA (Bc) | Mitochondrial ribosomal protein L39 | polymer | 334 | 38523.4 | 1 | UniProt (F1SHP6) | Sus scrofa (Pig) | |
| 36 | PA (Bd) | 39S ribosomal protein L40, mitochondrial isoform 1 | polymer | 206 | 24075.7 | 1 | UniProt (A0A286ZP98) Pfam (PF09812) | Sus scrofa (Pig) | |
| 37 | QA (Be) | Mitochondrial ribosomal protein L41 | polymer | 135 | 15073.4 | 1 | UniProt (A0A287AWS0) UniProt (by SIFTS) (A0A8D1F1K9) Pfam (PF09809) | Sus scrofa (Pig) | |
| 38 | RA (Bf) | mL42 | polymer | 142 | 16680.2 | 1 | UniProt (A0A287BQA1) Pfam (PF10210) | Sus scrofa (Pig) | |
| 39 | SA (Bg) | mL43 | polymer | 159 | 17728.1 | 1 | UniProt (F1S8U4) | Sus scrofa (Pig) | |
| 40 | TA (Bh) | 39S ribosomal protein L44, mitochondrial | polymer | 332 | 37527.2 | 1 | UniProt (F1SR64) Pfam (PF22935) Pfam (PF22892) | Sus scrofa (Pig) | |
| 41 | UA (Bi) | mL45 | polymer | 306 | 35331.8 | 1 | UniProt (I3LGM5) Pfam (PF04280) | Sus scrofa (Pig) | |
| 42 | VA (Bj) | Mitochondrial ribosomal protein L46 | polymer | 279 | 32216.0 | 1 | UniProt (F1SRT0) Pfam (PF11788) | Sus scrofa (Pig) | |
| 43 | WA (Bk) | Mitochondrial ribosomal protein L48 | polymer | 212 | 23749.5 | 1 | UniProt (F1SUS9) UniProt (by SIFTS) (A0A480J9Z6) Pfam (PF00338) | Sus scrofa (Pig) | |
| 44 | XA (Bl) | 39S ribosomal protein L49, mitochondrial | polymer | 166 | 18957.8 | 1 | UniProt (A0A0R4J8D6) Pfam (PF05046) | Sus scrofa (Pig) | Mrpl34 |
| 45 | YA (Bm) | mL50 | polymer | 159 | 18351.0 | 1 | UniProt (I3L9H6) Pfam (PF10501) | Sus scrofa (Pig) | |
| 46 | ZA (Bn) | Mitochondrial ribosomal protein L51 | polymer | 128 | 15249.0 | 1 | UniProt (A0A287BE26) UniProt (by SIFTS) (A0A8D1P1C8) Pfam (PF10244) | Sus scrofa (Pig) | |
| 47 | AB (Bo) | 39S ribosomal protein L52, mitochondrial | polymer | 124 | 13813.7 | 1 | UniProt (F1S9B7) Pfam (PF18699) | Sus scrofa (Pig) | |
| 48 | BB (Bp) | mL53 | polymer | 112 | 12029.8 | 1 | Sus scrofa | ||
| 49 | CB (Bq) | mL54 | polymer | 138 | 15957.4 | 1 | UniProt (I3LN63) Pfam (PF08561) | Sus scrofa (Pig) | |
| 50 | DB (Bt) | Mitochondrial ribosomal protein L57 | polymer | 102 | 12001.9 | 1 | UniProt (A0A287BP93) Pfam (PF14978) | Sus scrofa (Pig) | |
| 51 | EB (Bu) | Peptidyl-tRNA hydrolase ICT1, mitochondrial | polymer | 205 | 23545.9 | 1 | UniProt (A0A286ZJR2) Pfam (PF00472) | Sus scrofa (Pig) | |
| 52 | FB (Bv) | mL64 | polymer | 222 | 25815.0 | 1 | UniProt (A0A286ZXA6) Pfam (PF10147) | Sus scrofa (Pig) | |
| 53 | GB (Bw) | mL65 | polymer | 433 | 49100.5 | 1 | Sus scrofa | ||
| 54 | HB (Bx) | Mitochondrial ribosomal protein S18A | polymer | 196 | 22273.1 | 1 | UniProt (F1RRH6) Pfam (PF01084) | Sus scrofa (Pig) | |
| 55 | IB (Bz) | unassigned secondary structure elements | polymer | 82 | 5846.4 | 1 | Sus scrofa | ||
| 56 | JB (AA) | 12S ribosomal RNA, mitochondrial | polymer | 962 | 308989.1 | 1 | GenBank (11055671) | Sus scrofa | |
| 57 | KB (AB) | Mitochondrial ribosomal protein S2 | polymer | 289 | 31731.6 | 1 | UniProt (F1S001) Pfam (PF00318) | Sus scrofa (Pig) | |
| 58 | LB (AC) | Mitochondrial ribosomal protein S24 | polymer | 167 | 18935.2 | 1 | UniProt (A0A287ANU4) Pfam (PF14955) | Sus scrofa (Pig) | |
| 59 | MB (AE) | Mitochondrial ribosomal protein S5 | polymer | 430 | 48213.1 | 1 | UniProt (F1SU66) Pfam (PF21251) Pfam (PF00333) Pfam (PF03719) | Sus scrofa (Pig) | |
| 60 | NB (AF) | Mitochondrial ribosomal protein S6 | polymer | 124 | 14283.7 | 1 | UniProt (I3LEJ9) | Sus scrofa (Pig) | Mitoribosomal protein bs6m,mrps6 |
| 61 | OB (AG) | Mitochondrial ribosomal protein S7 | polymer | 242 | 28150.9 | 1 | UniProt (A0A286ZJ25) Pfam (PF00177) | Sus scrofa (Pig) | |
| 62 | PB (AI) | 28S ribosomal protein S9, mitochondrial | polymer | 397 | 45604.6 | 1 | UniProt (I3LU08) Pfam (PF00380) | Sus scrofa (Pig) | |
| 63 | QB (AJ) | Mitochondrial ribosomal protein S10 | polymer | 201 | 23192.8 | 1 | UniProt (F1RUU2) Pfam (PF00338) | Sus scrofa (Pig) | |
| 64 | RB (AK) | 28S ribosomal protein S11, mitochondrial | polymer | 196 | 20841.9 | 1 | UniProt (A0A286ZJJ6) Pfam (PF00411) | Sus scrofa (Pig) | |
| 65 | SB (AL) | Mitochondrial ribosomal protein S12 | polymer | 139 | 15257.1 | 1 | UniProt (A0A0M3KL52) | Sus scrofa (Pig) | Mitoribosomal protein us12m,mrps12 |
| 66 | TB (AN) | Mitochondrial ribosomal protein S14 | polymer | 128 | 15120.7 | 1 | UniProt (A0A0M3KL53) Pfam (PF00253) | Sus scrofa (Pig) | Mitoribosomal protein us14m,mrps14 |
| 67 | UB (AO) | Uncharacterized protein | polymer | 239 | 27411.4 | 1 | UniProt (A0A287BMP0) Pfam (PF00312) | Sus scrofa (Pig) | |
| 68 | VB (AP) | bS16m | polymer | 135 | 15182.7 | 1 | Sus scrofa | ||
| 69 | WB (AQ) | uS17m | polymer | 130 | 14452.0 | 1 | UniProt (F1RIU0) UniProt (by SIFTS) (A0A8D1UDM1) Pfam (PF00366) | Sus scrofa (Pig) | |
| 70 | XB (AR) | Mitochondrial ribosomal protein S18C | polymer | 143 | 16211.1 | 1 | UniProt (A0A0M3KL54) Pfam (PF01084) | Sus scrofa (Pig) | Mitoribosomal protein bs18m,mrps18c |
| 71 | YB (AU) | bS21m | polymer | 87 | 10682.5 | 1 | UniProt (A0A286ZNB3) Pfam (PF01165) | Sus scrofa (Pig) | |
| 72 | ZB (AV) | P-site fMet-tRNAMet, mitochondrial | polymer | 71 | 22664.5 | 1 | GenBank (1390216722) | Homo sapiens | |
| 73 | AC (AX) | MT-CO3 mRNA, mitochondrial | polymer | 201 | 63946.1 | 1 | GenBank (1388777935) | Homo sapiens | |
| 74 | BC (AZ) | unassigned secondary structure elements | polymer | 18 | 1297.4 | 1 | Sus scrofa | ||
| 75 | CC (Aa) | Mitochondrial ribosomal protein S22 | polymer | 382 | 43234.6 | 1 | UniProt (A0A287AQT5) Pfam (PF10245) | Sus scrofa (Pig) | |
| 76 | DC (Ab) | 28S ribosomal protein S23, mitochondrial | polymer | 190 | 21666.7 | 1 | UniProt (A0A287AEW3) Pfam (PF10484) | Sus scrofa (Pig) | |
| 77 | EC (Ac) | Mitochondrial ribosomal protein S25 | polymer | 173 | 19954.2 | 1 | UniProt (A0A0M3KL55) Pfam (PF05047) | Sus scrofa (Pig) | Mitoribosomal protein ms25,mrps25 |
| 78 | FC (Ad) | Mitochondrial ribosomal protein S26 | polymer | 205 | 23637.9 | 1 | UniProt (A0A287AY01) | Sus scrofa (Pig) | |
| 79 | GC (Ae) | mS27 | polymer | 455 | 51946.0 | 1 | Sus scrofa | ||
| 80 | HC (Af) | 28S ribosomal protein S28, mitochondrial | polymer | 188 | 21014.9 | 1 | UniProt (A0A0M3KL56) Pfam (PF10246) | Sus scrofa (Pig) | Mitoribosomal protein ms28,mrps28 |
| 81 | IC (Ag) | Death associated protein 3 | polymer | 397 | 45582.4 | 1 | UniProt (I3LS10) UniProt (by SIFTS) (A0A8D1XNL0) Pfam (PF10236) | Sus scrofa (Pig) | |
| 82 | JC (Ah) | mS31 | polymer | 387 | 44092.0 | 1 | Sus scrofa (Pig) | ||
| 83 | KC (Ai) | mS33 | polymer | 106 | 12544.6 | 1 | UniProt (F1S8G3) UniProt (by SIFTS) (A0A4X1V2H3) Pfam (PF08293) | Sus scrofa (Pig) | |
| 84 | LC (Aj) | 28S ribosomal protein S34, mitochondrial | polymer | 218 | 25843.8 | 1 | UniProt (F1RG19) | Sus scrofa (Pig) | |
| 85 | MC (Ak) | 28S ribosomal protein S35, mitochondrial | polymer | 325 | 37104.8 | 1 | UniProt (F1SG95) Pfam (PF10213) | Sus scrofa (Pig) | |
| 86 | NC (Am) | Coiled-coil-helix-coiled-coil-helix domain-containing protein 1 | polymer | 118 | 13561.9 | 1 | UniProt (F1SU49) UniProt (by SIFTS) (A0A4X1SZV4) Pfam (PF06747) | Sus scrofa (Pig) | |
| 87 | OC (An) | Aurora kinase A interacting protein 1 | polymer | 199 | 22843.9 | 1 | UniProt (A0A287B3R8) UniProt (by SIFTS) (A0A8D2A802) Pfam (PF08213) | Sus scrofa (Pig) | |
| 88 | PC (Ao) | Pentatricopeptide repeat domain-containing protein 3, mitochondrial | polymer | 692 | 78518.2 | 1 | UniProt (K7GKS8) Pfam (PF13812) Pfam (PF22330) | Sus scrofa (Pig) | |
| 89 | QC (Ap) | 28S ribosomal protein S18b, mitochondrial | polymer | 258 | 29220.5 | 1 | UniProt (Q767K8) Pfam (PF01084) | Sus scrofa (Pig) | S18mt-b,28S ribosomal protein S18-2,mitochondrial,MRP-S18-2 |
| 90 | AD, AE, AF, AG, AH... (BA, BJ, AA, BP, Be...) | MAGNESIUM ION | non-polymer | 24.3 | 326 | Chemie (MG) PubChem (888) | |||
| 91 | IL, MP, PP, SC, TC... (Bx, AR, Ac, B5, B9...) | ZINC ION | non-polymer | 65.4 | 6 | Chemie (ZN) | |||
| 92 | OK, PK (BA) | GUANOSINE-5'-MONOPHOSPHATE | non-polymer | 363.2 | 2 | Chemie (5GP) | |||
| 93 | DL, JL, QK (BR, AA, BA) | SPERMINE | non-polymer | 202.3 | 3 | Chemie (SPM) PubChem (1103) | |||
| 94 | SK (BC) | 5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE | non-polymer | 539.2 | 1 | Chemie (GSP) PubChem (135398675) PubChem (135476260) PubChem (136073095) PubChem (136440011) PubChem (137176535) PubChem (169450542) | |||
| 95 | UK (BC) | SODIUM ION | non-polymer | 23.0 | 1 | Chemie (NA) PubChem (923) | |||
| 96 | NP (AV) | N-FORMYLMETHIONINE | non-polymer | 177.2 | 1 | Chemie (FME) PubChem (911) PubChem (439750) PubChem (6995182) | |||
| 97 | QP (Ag) | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 1 | Chemie (GTP) PubChem (177679032) PubChem (135400627) PubChem (135487750) PubChem (136088935) PubChem (136803486) PubChem (135398633) PubChem (135544356) PubChem (135547949) PubChem (135600366) PubChem (135749822) PubChem (136005188) PubChem (136073923) PubChem (136240914) PubChem (136664747) PubChem (136772743) PubChem (136772744) PubChem (136803487) PubChem (137286749) PubChem (164715984) PubChem (171699466) | |||
| 98 | UP, VP (BC, Ag) | 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 |
