3JCT
Cryo-em structure of eukaryotic pre-60S ribosomal subunits
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 (A) | 60S ribosomal protein L2-A | polymer | 254 | 27463.6 | 1 | UniProt (P0CX45) Pfam (PF00181) Pfam (PF03947) | Saccharomyces cerevisiae S288c (yeast) | L5, RP8, YL6 |
| 2 | B (B) | 60S ribosomal protein L3 | polymer | 387 | 43850.8 | 1 | UniProt (P14126) Pfam (PF00297) | Saccharomyces cerevisiae S288c (yeast) | Maintenance of killer protein 8, RP1, Trichodermin resistance protein, YL1 |
| 3 | C (C) | 60S ribosomal protein L4-A | polymer | 362 | 39159.1 | 1 | UniProt (P10664) Pfam (PF00573) Pfam (PF14374) | Saccharomyces cerevisiae S288c (yeast) | L2, RP2, YL2 |
| 4 | D (D) | 60S ribosomal protein L5 | polymer | 297 | 33764.8 | 1 | UniProt (P26321) Pfam (PF17144) Pfam (PF14204) | Saccharomyces cerevisiae S288c (yeast) | L1, L1a, Ribosomal 5S RNA-binding protein, YL3 |
| 5 | E (E) | 60S ribosomal protein L6-A | polymer | 176 | 20000.6 | 1 | UniProt (Q02326) Pfam (PF01159) | Saccharomyces cerevisiae S288c (yeast) | L17, RP18, YL16 |
| 6 | F (F) | 60S ribosomal protein L7-A | polymer | 244 | 27686.3 | 1 | UniProt (P05737) Pfam (PF08079) Pfam (PF00327) | Saccharomyces cerevisiae S288c (yeast) | L6, RP11, YL8 |
| 7 | G (G) | 60S ribosomal protein L8-A | polymer | 256 | 28175.8 | 1 | UniProt (P17076) Pfam (PF01248) | Saccharomyces cerevisiae S288c (yeast) | L4, L4-2, L7a-1, Maintenance of killer protein 7, RP6, YL5 |
| 8 | H (H) | 60S ribosomal protein L9-A | polymer | 191 | 21605.1 | 1 | UniProt (P05738) Pfam (PF00347) | Saccharomyces cerevisiae S288c (yeast) | L8, RP24, YL11 |
| 9 | I (I) | Bud site selection protein 20 | polymer | 166 | 18547.0 | 1 | UniProt (Q08004) Pfam (PF12171) | Saccharomyces cerevisiae S288c (yeast) | |
| 10 | J (J) | 60S ribosomal protein L11-A | polymer | 174 | 19755.7 | 1 | UniProt (P0C0W9) Pfam (PF00281) Pfam (PF00673) | Saccharomyces cerevisiae S288c (yeast) | L16, RP39, YL22 |
| 11 | K (K) | Proteasome-interacting protein CIC1 | polymer | 376 | 42596.7 | 1 | UniProt (P38779) Pfam (PF00687) | Saccharomyces cerevisiae S288c (yeast) | Core interacting component 1 |
| 12 | L (L) | 60S ribosomal protein L13-A | polymer | 199 | 22604.2 | 1 | UniProt (Q12690) Pfam (PF01294) | Saccharomyces cerevisiae S288c (yeast) | |
| 13 | M (M) | 60S ribosomal protein L14-A | polymer | 138 | 15195.1 | 1 | UniProt (P36105) Pfam (PF00467) Pfam (PF01929) | Saccharomyces cerevisiae S288c (yeast) | |
| 14 | N (N) | 60S ribosomal protein L15-A | polymer | 204 | 24482.4 | 1 | UniProt (P05748) Pfam (PF00827) | Saccharomyces cerevisiae S288c (yeast) | L13, RP15R, YL10, YP18 |
| 15 | O (O) | 60S ribosomal protein L16-A | polymer | 199 | 22247.2 | 1 | UniProt (P26784) Pfam (PF00572) | Saccharomyces cerevisiae S288c (yeast) | L13a, L21, RP22, YL15 |
| 16 | P (P) | 60S ribosomal protein L17-A | polymer | 184 | 20589.5 | 1 | UniProt (P05740) Pfam (PF00237) | Saccharomyces cerevisiae S288c (yeast) | L20A, YL17 |
| 17 | Q (Q) | 60S ribosomal protein L18-A | polymer | 186 | 20609.3 | 1 | UniProt (P0CX49) Pfam (PF17135) | Saccharomyces cerevisiae S288c (yeast) | RP28 |
| 18 | R (R) | 60S ribosomal protein L19-A | polymer | 189 | 21762.3 | 1 | UniProt (P0CX82) Pfam (PF01280) Pfam (PF25476) | Saccharomyces cerevisiae S288c (yeast) | L23, RP15L, RP33, YL14 |
| 19 | S (S) | 60S ribosomal protein L20-A | polymer | 172 | 20478.9 | 1 | UniProt (P0CX23) Pfam (PF01775) | Saccharomyces cerevisiae S288c (yeast) | L18a |
| 20 | T (T) | 60S ribosomal protein L21-A | polymer | 160 | 18279.3 | 1 | UniProt (Q02753) Pfam (PF01157) | Saccharomyces cerevisiae S288c (yeast) | |
| 21 | U (U) | 60S ribosomal protein L22-A | polymer | 121 | 13711.4 | 1 | UniProt (P05749) Pfam (PF01776) | Saccharomyces cerevisiae S288c (yeast) | L1c, RP4, YL31 |
| 22 | V (V) | 60S ribosomal protein L23-A | polymer | 137 | 14494.0 | 1 | UniProt (P0CX41) Pfam (PF00238) | Saccharomyces cerevisiae S288c (yeast) | L17a, YL32 |
| 23 | W (W) | Ribosome assembly factor MRT4 | polymer | 236 | 27098.0 | 1 | UniProt (P33201) Pfam (PF00466) Pfam (PF17777) | Saccharomyces cerevisiae S288c (yeast) | mRNA turnover protein 4 |
| 24 | X (X) | 60S ribosomal protein L25 | polymer | 142 | 15787.6 | 1 | UniProt (P04456) Pfam (PF03939) Pfam (PF00276) | Saccharomyces cerevisiae S288c (yeast) | RP16L, YL25, YP42' |
| 25 | Y (Y) | 60S ribosomal protein L26-A | polymer | 127 | 14265.8 | 1 | UniProt (P05743) Pfam (PF16906) Pfam (PF00467) | Saccharomyces cerevisiae S288c (yeast) | L33, YL33 |
| 26 | Z (Z) | 60S ribosomal protein L27-A | polymer | 136 | 15568.4 | 1 | UniProt (P0C2H6) Pfam (PF01777) | Saccharomyces cerevisiae S288c (yeast) | |
| 27 | AA (a) | 60S ribosomal protein L28 | polymer | 149 | 16761.7 | 1 | UniProt (P02406) Pfam (PF00828) | Saccharomyces cerevisiae S288c (yeast) | L27a, L29, RP44, RP62, YL24 |
| 28 | BA (b) | Nucleolar GTP-binding protein 1 | polymer | 647 | 74531.2 | 1 | UniProt (Q02892) Pfam (PF17835) Pfam (PF06858) Pfam (PF08155) | Saccharomyces cerevisiae S288c (yeast) | |
| 29 | CA (c) | 60S ribosomal protein L30 | polymer | 105 | 11430.4 | 1 | UniProt (P14120) Pfam (PF01248) | Saccharomyces cerevisiae S288c (yeast) | L32, RP73, YL38 |
| 30 | DA (d) | 60S ribosomal protein L31-A | polymer | 113 | 12980.2 | 1 | UniProt (P0C2H8) Pfam (PF01198) | Saccharomyces cerevisiae S288c (yeast) | L34, YL28 |
| 31 | EA (e) | 60S ribosomal protein L32 | polymer | 130 | 14809.4 | 1 | UniProt (P38061) Pfam (PF01655) | Saccharomyces cerevisiae S288c (yeast) | |
| 32 | FA (f) | 60S ribosomal protein L33-A | polymer | 107 | 12177.1 | 1 | UniProt (P05744) Pfam (PF01247) | Saccharomyces cerevisiae S288c (yeast) | L37, RP47, YL37 |
| 33 | GA (g) | 60S ribosomal protein L34-A | polymer | 121 | 13673.2 | 1 | UniProt (P87262) Pfam (PF01199) | Saccharomyces cerevisiae S288c (yeast) | |
| 34 | HA (h) | 60S ribosomal protein L35-A | polymer | 120 | 13942.6 | 1 | UniProt (P0CX84) Pfam (PF00831) | Saccharomyces cerevisiae S288c (yeast) | |
| 35 | IA (i) | 60S ribosomal protein L36-A | polymer | 100 | 11151.3 | 1 | UniProt (P05745) Pfam (PF01158) | Saccharomyces cerevisiae S288c (yeast) | L39, YL39 |
| 36 | JA (j) | 60S ribosomal protein L37-A | polymer | 88 | 9877.4 | 1 | UniProt (P49166) Pfam (PF01907) | Saccharomyces cerevisiae S288c (yeast) | L43, YL35, YP55 |
| 37 | KA (k) | 60S ribosomal protein L38 | polymer | 78 | 8845.6 | 1 | UniProt (P49167) Pfam (PF01781) | Saccharomyces cerevisiae S288c (yeast) | |
| 38 | LA (l) | 60S ribosomal protein L39 | polymer | 51 | 6358.6 | 1 | UniProt (P04650) Pfam (PF00832) | Saccharomyces cerevisiae S288c (yeast) | L46, YL40 |
| 39 | MA (m) | Nucleolar GTP-binding protein 2 | polymer | 486 | 55585.6 | 1 | UniProt (P53742) Pfam (PF08153) Pfam (PF01926) | Saccharomyces cerevisiae S288c (yeast) | |
| 40 | NA (n) | Pescadillo homolog | polymer | 605 | 69984.1 | 1 | UniProt (P53261) Pfam (PF06732) Pfam (PF16589) | Saccharomyces cerevisiae S288c (yeast) | Nucleolar protein 7, Ribosomal RNA-processing protein 13 |
| 41 | OA (o) | Ribosome biogenesis protein 15 | polymer | 220 | 25499.2 | 1 | UniProt (P53927) Pfam (PF00076) | Saccharomyces cerevisiae S288c (yeast) | Nucleolar protein 15 |
| 42 | PA (p) | 60S ribosomal protein L43-A | polymer | 92 | 10113.0 | 1 | UniProt (P0CX25) Pfam (PF01780) | Saccharomyces cerevisiae S288c (yeast) | L37a, YL35 |
| 43 | QA (q) | Ribosome biogenesis protein NOP53 | polymer | 455 | 52667.8 | 1 | UniProt (Q12080) Pfam (PF07767) | Saccharomyces cerevisiae S288c (yeast) | Nucleolar protein 53 |
| 44 | RA (r) | Ribosome biogenesis protein NSA2 | polymer | 261 | 29786.8 | 1 | UniProt (P40078) Pfam (PF01201) | Saccharomyces cerevisiae S288c (yeast) | NOP7-associated protein 2 |
| 45 | SA (s) | Nuclear GTP-binding protein NUG1 | polymer | 520 | 57798.7 | 1 | UniProt (P40010) Pfam (PF08701) Pfam (PF01926) | Saccharomyces cerevisiae S288c (yeast) | Nuclear GTPase 1 |
| 46 | TA (t) | Ribosome biogenesis protein RLP7 | polymer | 322 | 36621.1 | 1 | UniProt (P40693) Pfam (PF00327) | Saccharomyces cerevisiae S288c (yeast) | Ribosomal protein L7-like |
| 47 | UA (u) | Ribosome biogenesis protein RLP24 | polymer | 199 | 24027.7 | 1 | UniProt (Q07915) Pfam (PF01246) | Saccharomyces cerevisiae S288c (yeast) | Ribosomal protein L24-like |
| 48 | VA (v) | Ribosome biogenesis protein RPF2 | polymer | 344 | 39665.8 | 1 | UniProt (P36160) Pfam (PF04427) | Saccharomyces cerevisiae S288c (yeast) | |
| 49 | WA (w) | Regulator of ribosome biosynthesis | polymer | 203 | 23001.4 | 1 | UniProt (Q08746) Pfam (PF04939) | Saccharomyces cerevisiae S288c (yeast) | |
| 50 | XA (x) | Ribosome assembly protein 4 | polymer | 515 | 57106.8 | 1 | UniProt (P25382) Pfam (PF08154) Pfam (PF00400) | Saccharomyces cerevisiae S288c (yeast) | Notchless protein homolog 1, Ribosome biogenesis factor RSA4 |
| 51 | YA (y) | Eukaryotic translation initiation factor 6 | polymer | 245 | 26476.6 | 1 | UniProt (Q12522) Pfam (PF01912) | Saccharomyces cerevisiae S288c (yeast) | eIF-6 |
| 52 | ZA (z) | UPF0642 protein YBL028C | polymer | 106 | 12435.4 | 1 | UniProt (P38202) Pfam (PF10338) | Saccharomyces cerevisiae S288c (yeast) | |
| 53 | AB (1) | RDN25-1 rRNA | polymer | 3396 | 1097493.9 | 1 | GenBank (NR_132209.1) | Saccharomyces cerevisiae S288c (yeast) | |
| 54 | BB (2) | RDN58-1 rRNA | polymer | 158 | 50682.9 | 1 | GenBank (NR_132211.1) | Saccharomyces cerevisiae S288c (yeast) | |
| 55 | CB (3) | RDN5-2 rRNA | polymer | 121 | 38951.1 | 1 | GenBank (NR_132224.1) | Saccharomyces cerevisiae S288c (yeast) | |
| 56 | DB (4) | Probable metalloprotease ARX1 | polymer | 593 | 65290.3 | 1 | UniProt (Q03862) | Saccharomyces cerevisiae S288c (yeast) | |
| 57 | EB (5) | rRNA-processing protein CGR1 | polymer | 120 | 14460.1 | 1 | UniProt (P53188) Pfam (PF03879) | Saccharomyces cerevisiae S288c (yeast) | |
| 58 | FB (6) | ITS2-1 miscRNA | polymer | 232 | 74308.4 | 1 | GenBank (NR_132210.1) | Saccharomyces cerevisiae S288c (yeast) | |
| 59 | GB, JB, MB, NB (I, j, p, u) | ZINC ION | non-polymer | 65.4 | 4 | Chemie (ZN) | |||
| 60 | HB, KB (b, m) | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 2 | 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) | |||
| 61 | IB, LB (b, m) | MAGNESIUM ION | non-polymer | 24.3 | 2 | Chemie (MG) PubChem (888) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 58 |
| Total formula weight | 2678273.7 | |
| Non-Polymers* | Number of molecules | 8 |
| Total formula weight | 1356.6 | |
| All* | Total formula weight | 2679630.4 |
