9SMD
Ribosome-dome complex including the Sec-translocon (SecYEG-SecA-SecDF) from antibiotics treated Mycoplasma pneumoniae cells (Combined)
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 (0) | Large ribosomal subunit protein bL34 | polymer | 48 | 5616.8 | 1 | UniProt (P78006) | Mycoplasmoides pneumoniae M129 | 50S ribosomal protein L34 |
| 2 | B (1) | 50S ribosomal protein L35 | polymer | 59 | 6793.1 | 1 | UniProt (P75447) | Mycoplasmoides pneumoniae M129 | |
| 3 | C (10) | Protein translocase subunit SecY | polymer | 477 | 52003.6 | 1 | UniProt (Q59548) | Mycoplasmoides pneumoniae M129 | |
| 4 | D (11) | Probable protein-export membrane protein SecG | polymer | 76 | 8352.3 | 1 | UniProt (Q9EXD0) | Mycoplasmoides pneumoniae M129 | |
| 5 | E (12) | SecE | polymer | 125 | 14489.4 | 1 | UniProt (P75048) | Mycoplasmoides pneumoniae M129 | |
| 6 | F (17) | SecDF | polymer | 971 | 108345.6 | 1 | UniProt (P75387) | Mycoplasmoides pneumoniae M129 | |
| 7 | G (2) | 50S ribosomal protein L36 | polymer | 37 | 4400.5 | 1 | UniProt (P52864) | Mycoplasmoides pneumoniae M129 | |
| 8 | H (3) | 23S ribosomal RNA | polymer | 2907 | 940911.5 | 1 | GenBank (26117688) | Mycoplasmoides pneumoniae M129 | |
| 9 | I (4) | 5S ribosomal RNA | polymer | 108 | 34796.7 | 1 | GenBank (3042778399) | Mycoplasmoides pneumoniae M129 | |
| 10 | J (5) | 16S ribosomal RNA | polymer | 1523 | 492302.4 | 1 | GenBank (26117688) | Mycoplasmoides pneumoniae M129 | |
| 11 | K (6) | 16S ribosomal RNA | polymer | 1523 | 492303.4 | 1 | GenBank (26117688) | Mycoplasmoides pneumoniae M129 | |
| 12 | L (7) | tRNA-Asp (P-site) | polymer | 76 | 24732.0 | 1 | Mycoplasmoides pneumoniae M129 | ||
| 13 | M (8) | tRNA-Lys (A-site) | polymer | 76 | 24697.8 | 1 | Mycoplasmoides pneumoniae M129 | ||
| 14 | N (9) | Protein translocase subunit SecA | polymer | 808 | 91942.2 | 1 | UniProt (P75559) | Mycoplasmoides pneumoniae M129 | |
| 15 | O (A) | 30S ribosomal protein S2 | polymer | 294 | 33468.6 | 1 | UniProt (P75560) | Mycoplasmoides pneumoniae M129 | |
| 16 | P (AA) | 30S ribosomal protein S5 | polymer | 219 | 24138.0 | 1 | UniProt (Q50301) | Mycoplasmoides pneumoniae M129 | |
| 17 | Q (AB) | mRNA | polymer | 21 | 6618.0 | 1 | Mycoplasmoides pneumoniae M129 | ||
| 18 | JB, R (AC, x) | 50S ribosomal protein L31 | polymer | 97 | 10980.7 | 2 | UniProt (P78020) | Mycoplasmoides pneumoniae M129 | |
| 19 | S (C) | 30S ribosomal protein S4 | polymer | 205 | 23817.6 | 1 | UniProt (P46775) | Mycoplasmoides pneumoniae M129 | |
| 20 | T (E) | 30S ribosomal protein S6 | polymer | 215 | 25430.5 | 1 | UniProt (P75543) | Mycoplasmoides pneumoniae M129 | |
| 21 | U (F) | 30S ribosomal protein S7 | polymer | 155 | 17897.0 | 1 | UniProt (P75545) | Mycoplasmoides pneumoniae M129 | |
| 22 | V (G) | 30S ribosomal protein S8 | polymer | 142 | 15903.1 | 1 | UniProt (Q50304) | Mycoplasmoides pneumoniae M129 | |
| 23 | W (H) | Small ribosomal subunit protein uS9 | polymer | 132 | 15158.7 | 1 | UniProt (P75179) | Mycoplasmoides pneumoniae M129 | 30S ribosomal protein S9 |
| 24 | X (I) | 30S ribosomal protein S10 | polymer | 108 | 12226.6 | 1 | UniProt (P75581) | Mycoplasmoides pneumoniae M129 | |
| 25 | Y (J) | 30S ribosomal protein S11 | polymer | 121 | 12709.9 | 1 | UniProt (Q50296) | Mycoplasmoides pneumoniae M129 | |
| 26 | Z (K) | 30S ribosomal protein S12 | polymer | 139 | 15666.6 | 1 | UniProt (P75546) | Mycoplasmoides pneumoniae M129 | |
| 27 | AA (L) | 30S ribosomal protein S13 | polymer | 124 | 14209.6 | 1 | UniProt (Q50297) | Mycoplasmoides pneumoniae M129 | |
| 28 | BA (M) | 30S ribosomal protein S14 type Z | polymer | 61 | 6901.4 | 1 | UniProt (Q50305) | Mycoplasmoides pneumoniae M129 | |
| 29 | CA (N) | 30S ribosomal protein S15 | polymer | 86 | 9921.7 | 1 | UniProt (P75173) | Mycoplasmoides pneumoniae M129 | |
| 30 | DA (O) | 30S ribosomal protein S16 | polymer | 94 | 10806.9 | 1 | UniProt (A0A0H3DLS7) | Mycoplasmoides pneumoniae M129 | |
| 31 | EA (P) | 30S ribosomal protein S17 | polymer | 85 | 9859.6 | 1 | UniProt (Q50309) | Mycoplasmoides pneumoniae M129 | |
| 32 | FA (Q) | 30S ribosomal protein S18 | polymer | 104 | 12411.5 | 1 | UniProt (P75541) | Mycoplasmoides pneumoniae M129 | |
| 33 | GA (R) | 30S ribosomal protein S19 | polymer | 87 | 10057.6 | 1 | UniProt (P75576) | Mycoplasmoides pneumoniae M129 | |
| 34 | HA (S) | 30S ribosomal protein S20 | polymer | 87 | 9993.6 | 1 | UniProt (P75237) | Mycoplasmoides pneumoniae M129 | |
| 35 | IA (T) | 30S ribosomal protein S21 | polymer | 60 | 7539.2 | 1 | UniProt (P57079) | Mycoplasmoides pneumoniae M129 | |
| 36 | JA (W) | 30S ribosomal protein S3 | polymer | 273 | 30657.2 | 1 | UniProt (P41205) | Mycoplasmoides pneumoniae M129 | |
| 37 | KA (Y) | mRNA | polymer | 21 | 6698.0 | 1 | Mycoplasmoides pneumoniae M129 | ||
| 38 | LA (Z) | Nascent peptide | polymer | 36 | 3127.8 | 1 | Mycoplasmoides pneumoniae M129 | ||
| 39 | MA (a) | 50S ribosomal protein L2 | polymer | 287 | 31966.9 | 1 | UniProt (P75577) | Mycoplasmoides pneumoniae M129 | |
| 40 | NA (b) | 50S ribosomal protein L3 | polymer | 287 | 31298.2 | 1 | UniProt (P75580) | Mycoplasmoides pneumoniae M129 | |
| 41 | OA (c) | 50S ribosomal protein L4 | polymer | 212 | 23632.6 | 1 | UniProt (P75579) | Mycoplasmoides pneumoniae M129 | |
| 42 | PA (d) | 50S ribosomal protein L5 | polymer | 180 | 20270.8 | 1 | UniProt (Q50306) | Mycoplasmoides pneumoniae M129 | |
| 43 | QA (e) | 50S ribosomal protein L6 | polymer | 184 | 20624.1 | 1 | UniProt (Q50303) | Mycoplasmoides pneumoniae M129 | |
| 44 | RA (f) | 50S ribosomal protein L9 | polymer | 149 | 17185.0 | 1 | UniProt (P75540) | Mycoplasmoides pneumoniae M129 | |
| 45 | SA (g) | 50S ribosomal protein L10 | polymer | 161 | 17645.7 | 1 | UniProt (P75240) | Mycoplasmoides pneumoniae M129 | |
| 46 | TA (h) | 50S ribosomal protein L11 | polymer | 137 | 14803.6 | 1 | UniProt (P75550) | Mycoplasmoides pneumoniae M129 | |
| 47 | UA (i) | 50S ribosomal protein L13 | polymer | 146 | 16821.5 | 1 | UniProt (P75178) | Mycoplasmoides pneumoniae M129 | |
| 48 | VA (j) | 50S ribosomal protein L14 | polymer | 122 | 13478.9 | 1 | UniProt (Q50308) | Mycoplasmoides pneumoniae M129 | |
| 49 | WA (k) | 50S ribosomal protein L15 | polymer | 151 | 16768.8 | 1 | UniProt (Q50300) | Mycoplasmoides pneumoniae M129 | |
| 50 | XA (l) | 50S ribosomal protein L16 | polymer | 139 | 15646.5 | 1 | UniProt (P41204) | Mycoplasmoides pneumoniae M129 | |
| 51 | YA (m) | 50S ribosomal protein L17 | polymer | 124 | 14270.7 | 1 | UniProt (Q59547) | Mycoplasmoides pneumoniae M129 | |
| 52 | ZA (n) | Large ribosomal subunit protein uL18 | polymer | 116 | 13073.3 | 1 | UniProt (Q50302) | Mycoplasmoides pneumoniae M129 | 50S ribosomal protein L18 |
| 53 | AB (o) | 50S ribosomal protein L19 | polymer | 119 | 13870.3 | 1 | UniProt (P75133) | Mycoplasmoides pneumoniae M129 | |
| 54 | BB (p) | 50S ribosomal protein L20 | polymer | 127 | 14742.4 | 1 | UniProt (P78023) | Mycoplasmoides pneumoniae M129 | |
| 55 | CB (q) | 50S ribosomal protein L21 | polymer | 100 | 11664.8 | 1 | UniProt (P78026) | Mycoplasmoides pneumoniae M129 | |
| 56 | DB (r) | 50S ribosomal protein L22 | polymer | 159 | 17355.4 | 1 | UniProt (P75575) | Mycoplasmoides pneumoniae M129 | |
| 57 | EB (s) | Large ribosomal subunit protein uL23 | polymer | 194 | 21139.1 | 1 | UniProt (P75578) | Mycoplasmoides pneumoniae M129 | 50S ribosomal protein L23 |
| 58 | FB (t) | 50S ribosomal protein L24 | polymer | 111 | 12461.9 | 1 | UniProt (Q50307) | Mycoplasmoides pneumoniae M129 | |
| 59 | GB (u) | 50S ribosomal protein L27 | polymer | 104 | 11527.3 | 1 | UniProt (P75458) | Mycoplasmoides pneumoniae M129 | |
| 60 | HB (v) | 50S ribosomal protein L28 | polymer | 65 | 7549.9 | 1 | UniProt (P75171) | Mycoplasmoides pneumoniae M129 | |
| 61 | IB (w) | 50S ribosomal protein L29 | polymer | 111 | 13003.3 | 1 | UniProt (Q50310) | Mycoplasmoides pneumoniae M129 | |
| 62 | KB (y) | 50S ribosomal protein L32 | polymer | 57 | 6641.9 | 1 | UniProt (P75238) | Mycoplasmoides pneumoniae M129 | |
| 63 | LB (z) | 50S ribosomal protein L33 1 | polymer | 53 | 6298.6 | 1 | UniProt (P78015) | Mycoplasmoides pneumoniae M129 | |
| 64 | MB (13) | Uncharacterized lipoprotein MG307 homolog | polymer | 1217 | 136216.7 | 1 | UniProt (P75342) | Mycoplasmoides pneumoniae M129 | |
| 65 | NB (14) | Uncharacterized lipoprotein MG309 homolog | polymer | 1298 | 143385.1 | 1 | UniProt (P75334) | Mycoplasmoides pneumoniae M129 | |
| 66 | OB (15) | Uncharacterized lipoprotein MG338 homolog | polymer | 1274 | 140427.9 | 1 | UniProt (P75296) | Mycoplasmoides pneumoniae M129 | |
| 67 | PB, QB (18, 16) | Uncharacterized lipoprotein MG348 homolog | polymer | 276 | 30410.3 | 2 | UniProt (P75255) | Mycoplasmoides pneumoniae M129 | |
| 68 | CO, EO, KO, LO, OO... (M, Q, x, y, z...) | ZINC ION | non-polymer | 65.4 | 7 | Chemie (ZN) PubChem (32051) | |||
| 69 | AC, AD, AE, AF, AG... (3, 5, AB, K, P...) | MAGNESIUM ION | non-polymer | 24.3 | 317 | Chemie (MG) PubChem (888) | |||
| 70 | CK, GK, HO, JK, JL... (3, 5, b) | 1,4-DIAMINOBUTANE | non-polymer | 88.2 | 12 | Chemie (PUT) PubChem (1045) | |||
| 71 | GJ (3) | POTASSIUM ION | non-polymer | 39.1 | 1 | Chemie (K) PubChem (813) | |||
| 72 | QO, RO, SO, TO (3, 5, A, i) | water | water | 18.0 | 19 | Chemie (HOH) |
Sequence modifications
5: 1 - 1520 (GenBank: 26117688)
6: 50 - 1572 (GenBank: 26117688)
H: 1 - 132 (UniProt: P75179)
| PDB | External Database | Details |
|---|---|---|
| G7m 525 | - | insertion |
| A 1003 | G 119315 | conflict |
| Ma6 1493 | - | insertion |
| Ma6 1494 | - | insertion |
| PDB | External Database | Details |
|---|---|---|
| 7mg 574 | - | insertion |
| A 1053 | G 119315 | conflict |
| Ma6 1543 | - | insertion |
| Ma6 1544 | - | insertion |
| PDB | External Database | Details |
|---|---|---|
| His 27 | Lys 27 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 69 |
| Total formula weight | 3543459.1 | |
| Non-Polymers* | Number of molecules | 337 |
| Total formula weight | 9259.5 | |
| All* | Total formula weight | 3552718.6 |
