6LSR
Cryo-EM structure of a pre-60S ribosomal subunit - state B
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) | Zinc finger protein 622 | polymer | 477 | 54357.1 | 1 | UniProt (Q969S3) Pfam (PF12171) Pfam (PF12756) | Homo sapiens (Human) | Zinc finger-like protein 9 |
| 2 | B (1) | Large subunit GTPase 1 homolog | polymer | 658 | 75336.4 | 1 | UniProt (Q9H089) Pfam (PF01926) | Homo sapiens (Human) | hLsg1 |
| 3 | C (2) | 28S rRNA | polymer | 5070 | 1641892.6 | 1 | Homo sapiens (Human) | ||
| 4 | D (3) | 60S ribosomal export protein NMD3 | polymer | 534 | 61396.9 | 1 | UniProt (Q96D46) Pfam (PF04981) Pfam (PF21193) Pfam (PF21192) | Homo sapiens (Human) | hNMD3 |
| 5 | E (5) | 5S rRNA | polymer | 120 | 38691.9 | 1 | GenBank (NR_023363) | Homo sapiens (Human) | |
| 6 | F (6) | Eukaryotic translation initiation factor 6 | polymer | 245 | 26620.0 | 1 | UniProt (P56537) Pfam (PF01912) | Homo sapiens (Human) | eIF-6,B(2)GCN homolog,B4 integrin interactor,CAB,p27(BBP) |
| 7 | G (8) | 5.8S rRNA | polymer | 156 | 50143.6 | 1 | GenBank (KY962518) | Homo sapiens (Human) | |
| 8 | H (A) | 60S ribosomal protein L10a | polymer | 217 | 24879.4 | 1 | UniProt (P62906) Pfam (PF00687) | Homo sapiens (Human) | Large ribosomal subunit protein uL1 |
| 9 | I (B) | 60S ribosomal protein L3 | polymer | 403 | 46211.1 | 1 | UniProt (P39023) Pfam (PF00297) | Homo sapiens (Human) | Large ribosomal subunit protein uL3 |
| 10 | J (C) | 60S ribosomal protein L29 | polymer | 159 | 17804.3 | 1 | UniProt (P47914) Pfam (PF01779) | Homo sapiens (Human) | Large ribosomal subunit protein eL29 |
| 11 | K (D) | 60S ribosomal protein L4 | polymer | 427 | 47804.6 | 1 | UniProt (P36578) Pfam (PF00573) Pfam (PF14374) | Homo sapiens (Human) | Large ribosomal subunit protein uL4 |
| 12 | L (E) | 60S ribosomal protein L30 | polymer | 115 | 12805.1 | 1 | UniProt (P62888) Pfam (PF01248) | Homo sapiens (Human) | Large ribosomal subunit protein eL30 |
| 13 | M (F) | 60S ribosomal protein L34 | polymer | 117 | 13326.1 | 1 | UniProt (P49207) Pfam (PF01199) | Homo sapiens (Human) | Large ribosomal subunit protein eL34 |
| 14 | N (G) | 60S ribosomal protein L7a | polymer | 266 | 30061.8 | 1 | UniProt (P62424) Pfam (PF01248) | Homo sapiens (Human) | Large ribosomal subunit protein eL8 |
| 15 | O (H) | 60S ribosomal protein L35 | polymer | 123 | 14593.6 | 1 | UniProt (P42766) Pfam (PF00831) | Homo sapiens (Human) | Large ribosomal subunit protein uL29 |
| 16 | P (I) | 60S ribosomal protein L9 | polymer | 192 | 21899.5 | 1 | UniProt (P32969) Pfam (PF00347) | Homo sapiens (Human) | Large ribosomal subunit protein uL6 |
| 17 | Q (K) | 60S ribosomal protein L36 | polymer | 105 | 12290.9 | 1 | UniProt (Q9Y3U8) Pfam (PF01158) | Homo sapiens (Human) | Large ribosomal subunit protein eL36 |
| 18 | R (L) | 60S ribosomal protein L27a | polymer | 148 | 16604.5 | 1 | UniProt (P46776) Pfam (PF00828) | Homo sapiens (Human) | Large ribosomal subunit protein uL15 |
| 19 | S (M) | 60S ribosomal protein L37 | polymer | 97 | 11111.0 | 1 | UniProt (P61927) Pfam (PF01907) | Homo sapiens (Human) | Large ribosomal subunit protein eL37 |
| 20 | T (N) | 60S ribosomal protein L11 | polymer | 178 | 20288.5 | 1 | UniProt (P62913) Pfam (PF00281) Pfam (PF00673) | Homo sapiens (Human) | Large ribosomal subunit protein uL5 |
| 21 | U (O) | 60S ribosomal protein L38 | polymer | 70 | 8238.9 | 1 | UniProt (P63173) Pfam (PF01781) | Homo sapiens (Human) | Large ribosomal subunit protein eL38 |
| 22 | V (P) | 60S ribosomal protein L39 | polymer | 51 | 6426.8 | 1 | UniProt (P62891) Pfam (PF00832) | Homo sapiens (Human) | Large ribosomal subunit protein eL39 |
| 23 | W (Q) | 60S ribosomal protein L13 | polymer | 211 | 24321.7 | 1 | UniProt (P26373) Pfam (PF01294) | Homo sapiens (Human) | Large ribosomal subunit protein eL13 |
| 24 | X (S) | 60S ribosomal protein L14 | polymer | 215 | 23485.0 | 1 | UniProt (P50914) Pfam (PF01929) | Homo sapiens (Human) | Large ribosomal subunit protein eL14 |
| 25 | Y (T) | 60S ribosomal protein L31 | polymer | 125 | 14494.9 | 1 | UniProt (P62899) Pfam (PF01198) | Homo sapiens (Human) | Large ribosomal subunit protein eL31 |
| 26 | Z (U) | 60S ribosomal protein L15 | polymer | 204 | 24207.3 | 1 | UniProt (P61313) Pfam (PF00827) | Homo sapiens (Human) | Large ribosomal subunit protein eL15 |
| 27 | AA (V) | 60S ribosomal protein L13a | polymer | 203 | 23633.4 | 1 | UniProt (P40429) Pfam (PF00572) | Homo sapiens (Human) | Large ribosomal subunit protein uL13 |
| 28 | BA (W) | 60S ribosomal protein L36a | polymer | 106 | 12477.0 | 1 | UniProt (P83881) Pfam (PF00935) | Homo sapiens (Human) | Large ribosomal subunit protein eL42 |
| 29 | CA (X) | 60S ribosomal protein L37a | polymer | 92 | 10299.4 | 1 | UniProt (P61513) Pfam (PF01780) | Homo sapiens (Human) | Large ribosomal subunit protein eL43 |
| 30 | DA (Y) | 60S ribosomal protein L17 | polymer | 184 | 21443.2 | 1 | UniProt (P18621) Pfam (PF00237) | Homo sapiens (Human) | Large ribosomal subunit protein uL22 |
| 31 | EA (Z) | 60S ribosomal protein L18 | polymer | 188 | 21687.7 | 1 | UniProt (Q07020) Pfam (PF17135) | Homo sapiens (Human) | Large ribosomal subunit protein eL18 |
| 32 | FA (a) | 60S ribosomal protein L19 | polymer | 196 | 23535.3 | 1 | UniProt (P84098) Pfam (PF01280) | Homo sapiens (Human) | Large ribosomal subunit protein eL19 |
| 33 | GA (b) | 60S ribosomal protein L18a | polymer | 176 | 20808.5 | 1 | UniProt (Q02543) Pfam (PF01775) | Homo sapiens (Human) | Large ribosomal subunit protein eL20 |
| 34 | HA (c) | 60S ribosomal protein L21 | polymer | 160 | 18610.0 | 1 | UniProt (P46778) Pfam (PF01157) | Homo sapiens (Human) | Large ribosomal subunit protein eL21 |
| 35 | IA (d) | 60S ribosomal protein L22 | polymer | 128 | 14813.0 | 1 | UniProt (P35268) Pfam (PF01776) | Homo sapiens (Human) | Large ribosomal subunit protein eL22 |
| 36 | JA (e) | 60S ribosomal protein L23 | polymer | 140 | 14892.5 | 1 | UniProt (P62829) Pfam (PF00238) | Homo sapiens (Human) | Large ribosomal subunit protein uL14 |
| 37 | KA (f) | 60S ribosomal protein L24 | polymer | 157 | 17825.1 | 1 | UniProt (P83731) Pfam (PF01246) | Homo sapiens (Human) | Large ribosomal subunit protein eL24 |
| 38 | LA (g) | 60S ribosomal protein L23a | polymer | 156 | 17740.2 | 1 | UniProt (P62750) Pfam (PF03939) Pfam (PF00276) | Homo sapiens (Human) | Large ribosomal subunit protein uL23 |
| 39 | MA (h) | 60S ribosomal protein L26 | polymer | 145 | 17303.4 | 1 | UniProt (P61254) Pfam (PF16906) Pfam (PF00467) | Homo sapiens (Human) | Large ribosomal subunit protein uL24 |
| 40 | NA (i) | 60S ribosomal protein L27 | polymer | 136 | 15835.8 | 1 | UniProt (P61353) Pfam (PF00467) Pfam (PF01777) | Homo sapiens (Human) | Large ribosomal subunit protein eL27 |
| 41 | OA (l) | 60S ribosomal protein L28 | polymer | 137 | 15784.6 | 1 | UniProt (P46779) Pfam (PF01778) | Homo sapiens (Human) | Large ribosomal subunit protein eL28 |
| 42 | PA (m) | 60S ribosomal protein L8 | polymer | 257 | 28088.9 | 1 | UniProt (P62917) Pfam (PF00181) Pfam (PF03947) | Homo sapiens (Human) | Large ribosomal subunit protein uL2 |
| 43 | QA (r) | 60S ribosomal protein L5 | polymer | 297 | 34426.8 | 1 | UniProt (P46777) Pfam (PF17144) Pfam (PF14204) | Homo sapiens (Human) | Large ribosomal subunit protein uL18 |
| 44 | RA (t) | 60S ribosomal protein L32 | polymer | 135 | 15898.9 | 1 | UniProt (P62910) Pfam (PF01655) | Homo sapiens (Human) | Large ribosomal subunit protein eL32 |
| 45 | SA (u) | 60S ribosomal protein L35a | polymer | 110 | 12564.7 | 1 | UniProt (P18077) Pfam (PF01247) | Homo sapiens (Human) | Large ribosomal subunit protein eL33 |
| 46 | TA (v) | 60S ribosomal protein L6 | polymer | 288 | 32810.2 | 1 | UniProt (Q02878) Pfam (PF03868) Pfam (PF01159) | Homo sapiens (Human) | Large ribosomal subunit protein eL6 |
| 47 | UA (w) | 60S ribosomal protein L7 | polymer | 248 | 29291.0 | 1 | UniProt (P18124) Pfam (PF08079) Pfam (PF00327) | Homo sapiens (Human) | Large ribosomal subunit protein uL30 |
| 48 | VA (z) | Proliferation-associated protein 2G4 | polymer | 394 | 43851.9 | 1 | UniProt (Q9UQ80) Pfam (PF00557) | Homo sapiens (Human) | Cell cycle protein p38-2G4 homolog,hG4-1,ErbB3-binding protein 1 |
| 49 | AB, AC, AD, AE, AF... (2, 5, 8, F, a...) | MAGNESIUM ION | non-polymer | 24.3 | 246 | Chemie (MG) | |||
| 50 | IK (2) | water | water | 18.0 | 7 | Chemie (HOH) |
Sequence modifications
3: 1 - 503 (UniProt: Q96D46)
| PDB | External Database | Details |
|---|---|---|
| Gly 504 | - | expression tag |
| Ser 505 | - | expression tag |
| Glu 506 | - | expression tag |
| Asn 507 | - | expression tag |
| Leu 508 | - | expression tag |
| Tyr 509 | - | expression tag |
| Phe 510 | - | expression tag |
| Gln 511 | - | expression tag |
| Gly 512 | - | expression tag |
| Asp 513 | - | expression tag |
| Tyr 514 | - | expression tag |
| Lys 515 | - | expression tag |
| Asp 516 | - | expression tag |
| His 517 | - | expression tag |
| Asp 518 | - | expression tag |
| Gly 519 | - | expression tag |
| Asp 520 | - | expression tag |
| Tyr 521 | - | expression tag |
| Lys 522 | - | expression tag |
| Asp 523 | - | expression tag |
| His 524 | - | expression tag |
| Asp 525 | - | expression tag |
| Ile 526 | - | expression tag |
| Asp 527 | - | expression tag |
| Tyr 528 | - | expression tag |
| Lys 529 | - | expression tag |
| Asp 530 | - | expression tag |
| Asp 531 | - | expression tag |
| Asp 532 | - | expression tag |
| Asp 533 | - | expression tag |
| Lys 534 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 48 |
| Total formula weight | 2802914.9 | |
| Non-Polymers* | Number of molecules | 246 |
| Total formula weight | 5979.0 | |
| All* | Total formula weight | 2808893.9 |
