7BTB
Cryo-EM structure of pre-60S ribosome from Saccharomyces cerevisiae rpl4delta63-87 strain at 3.22 Angstroms resolution(state R2)
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 (L) | 60S ribosomal protein L13-A | polymer | 199 | 22604.2 | 1 | UniProt (Q12690) Pfam (PF01294) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Large ribosomal subunit protein eL13-A |
| 2 | B (a) | 60S ribosomal protein L28 | polymer | 149 | 16761.7 | 1 | UniProt (P02406) Pfam (PF00828) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L27a,L29,RP44,RP62,YL24 |
| 3 | C (A) | 60S ribosomal protein L2-A | polymer | 254 | 27463.6 | 1 | UniProt (P0CX45) Pfam (PF00181) Pfam (PF03947) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L5,Large ribosomal subunit protein uL2-A,RP8,YL6 |
| 4 | D (B) | 60S ribosomal protein L3 | polymer | 387 | 43850.8 | 1 | UniProt (P14126) Pfam (PF00297) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Large ribosomal subunit protein uL3,Maintenance of killer protein 8,RP1,Trichodermin resistance protein,YL1 |
| 5 | E (C) | 60S ribosomal protein L4-A | polymer | 362 | 39159.1 | 1 | UniProt (P10664) Pfam (PF00573) Pfam (PF14374) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L2,Large ribosomal subunit protein uL4-A,RP2,YL2 |
| 6 | F (D) | 60S ribosomal protein L5 | polymer | 297 | 33764.8 | 1 | UniProt (P26321) Pfam (PF17144) Pfam (PF14204) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L1,L1a,Ribosomal 5S RNA-binding protein,YL3 |
| 7 | G (E) | 60S ribosomal protein L6-A | polymer | 176 | 20000.6 | 1 | UniProt (Q02326) Pfam (PF01159) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L17,Large ribosomal subunit protein eL6-A,RP18,YL16 |
| 8 | H (F) | 60S ribosomal protein L7-A | polymer | 244 | 27686.3 | 1 | UniProt (P05737) Pfam (PF00327) Pfam (PF08079) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L6,Large ribosomal subunit protein uL30-A,RP11,YL8 |
| 9 | I (G) | 60S ribosomal protein L8-A | polymer | 256 | 28175.8 | 1 | UniProt (P17076) Pfam (PF01248) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L4,L4-2,L7a-1,Large ribosomal subunit protein eL8-A,Maintenance of killer protein 7,RP6,YL5 |
| 10 | J (H) | 60S ribosomal protein L9-A | polymer | 191 | 21605.1 | 1 | UniProt (P05738) Pfam (PF00347) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L8,Large ribosomal subunit protein uL6-A,RP24,YL11 |
| 11 | K (J) | 60S ribosomal protein L11-A | polymer | 174 | 19755.7 | 1 | UniProt (P0C0W9) Pfam (PF00281) Pfam (PF00673) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L16,RP39,YL22 |
| 12 | L (K) | Proteasome-interacting protein CIC1 | polymer | 376 | 42596.7 | 1 | UniProt (P38779) Pfam (PF00687) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Core interacting component 1 |
| 13 | M (M) | 60S ribosomal protein L14-A | polymer | 138 | 15195.1 | 1 | UniProt (P36105) Pfam (PF00467) Pfam (PF01929) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Large ribosomal subunit protein eL14-A |
| 14 | N (N) | 60S ribosomal protein L15-A | polymer | 204 | 24482.4 | 1 | UniProt (P05748) Pfam (PF00827) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L13,Large ribosomal subunit protein eL15-A,RP15R,YL10,YP18 |
| 15 | O (O) | 60S ribosomal protein L16-A | polymer | 199 | 22247.2 | 1 | UniProt (P26784) Pfam (PF00572) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L13a,L21,Large ribosomal subunit protein uL13-A,RP22,YL15 |
| 16 | P (P) | 60S ribosomal protein L17-A | polymer | 184 | 20589.5 | 1 | UniProt (P05740) Pfam (PF00237) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L20A,Large ribosomal subunit protein uL22-A,YL17 |
| 17 | Q (Q) | 60S ribosomal protein L18-A | polymer | 186 | 20609.3 | 1 | UniProt (P0CX49) Pfam (PF17135) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Large ribosomal subunit protein eL18-A,RP28 |
| 18 | R (R) | 60S ribosomal protein L19-A | polymer | 189 | 21762.3 | 1 | UniProt (P0CX82) Pfam (PF01280) Pfam (PF25476) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L23,RP15L,RP33,YL14 |
| 19 | S (S) | 60S ribosomal protein L20-A | polymer | 172 | 20478.9 | 1 | UniProt (P0CX23) Pfam (PF01775) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L18a,Large ribosomal subunit protein eL20-A |
| 20 | T (T) | 60S ribosomal protein L21-A | polymer | 160 | 18279.3 | 1 | UniProt (Q02753) Pfam (PF01157) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 21 | U (U) | 60S ribosomal protein L22-A | polymer | 121 | 13711.4 | 1 | UniProt (P05749) Pfam (PF01776) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L1c,RP4,YL31 |
| 22 | V (V) | 60S ribosomal protein L23-A | polymer | 137 | 14494.0 | 1 | UniProt (P0CX41) Pfam (PF00238) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L17a,YL32 |
| 23 | W (W) | Ribosome assembly factor MRT4 | polymer | 236 | 27098.0 | 1 | UniProt (P33201) Pfam (PF00466) Pfam (PF17777) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's 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 (strain ATCC 204508 / S288c) (Baker's 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 (strain ATCC 204508 / S288c) (Baker's yeast) | L33,Large ribosomal subunit protein uL24-A,YL33 |
| 26 | Z (Z) | 60S ribosomal protein L27-A | polymer | 136 | 15568.4 | 1 | UniProt (P0C2H6) Pfam (PF01777) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 27 | AA (b) | Nucleolar GTP-binding protein 1 | polymer | 647 | 74531.2 | 1 | UniProt (Q02892) Pfam (PF17835) Pfam (PF06858) Pfam (PF08155) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 28 | BA (c) | 60S ribosomal protein L30 | polymer | 105 | 11430.4 | 1 | UniProt (P14120) Pfam (PF01248) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L32,RP73,YL38 |
| 29 | CA (d) | 60S ribosomal protein L31-A | polymer | 113 | 12980.2 | 1 | UniProt (P0C2H8) Pfam (PF01198) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L34,YL28 |
| 30 | DA (e) | 60S ribosomal protein L32 | polymer | 130 | 14809.4 | 1 | UniProt (P38061) Pfam (PF01655) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Large ribosomal subunit protein eL32 |
| 31 | EA (f) | 60S ribosomal protein L33-A | polymer | 107 | 12177.1 | 1 | UniProt (P05744) Pfam (PF01247) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L37,Large ribosomal subunit protein eL33-A,RP47,YL37 |
| 32 | FA (g) | 60S ribosomal protein L34-A | polymer | 121 | 13673.2 | 1 | UniProt (P87262) Pfam (PF01199) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 33 | GA (h) | 60S ribosomal protein L35-A | polymer | 120 | 13942.6 | 1 | UniProt (P0CX84) Pfam (PF00831) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Large ribosomal subunit protein uL29-A |
| 34 | HA (i) | 60S ribosomal protein L36-A | polymer | 100 | 11151.3 | 1 | UniProt (P05745) Pfam (PF01158) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L39,Large ribosomal subunit protein eL36-A,YL39 |
| 35 | IA (j) | 60S ribosomal protein L37-A | polymer | 88 | 9877.4 | 1 | UniProt (P49166) Pfam (PF01907) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L43,Large ribosomal subunit protein eL37-A,YL35,YP55 |
| 36 | JA (k) | 60S ribosomal protein L38 | polymer | 78 | 8845.6 | 1 | UniProt (P49167) Pfam (PF01781) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 37 | KA (m) | Nucleolar GTP-binding protein 2 | polymer | 486 | 55585.6 | 1 | UniProt (P53742) Pfam (PF08153) Pfam (PF01926) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 38 | LA (n) | Pescadillo homolog | polymer | 605 | 69984.1 | 1 | UniProt (P53261) Pfam (PF06732) Pfam (PF16589) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Nucleolar protein 7,Ribosomal RNA-processing protein 13 |
| 39 | MA (o) | Ribosome biogenesis protein 15 | polymer | 220 | 25499.2 | 1 | UniProt (P53927) Pfam (PF00076) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Nucleolar protein 15 |
| 40 | NA (p) | 60S ribosomal protein L43-A | polymer | 92 | 10113.0 | 1 | UniProt (P0CX25) Pfam (PF01780) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | L37a,YL35 |
| 41 | OA (q) | Ribosome biogenesis protein NOP53 | polymer | 455 | 52667.8 | 1 | UniProt (Q12080) Pfam (PF07767) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Nucleolar protein 53 |
| 42 | PA (r) | Ribosome biogenesis protein NSA2 | polymer | 261 | 29786.8 | 1 | UniProt (P40078) Pfam (PF01201) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | NOP7-associated protein 2 |
| 43 | QA (t) | Ribosome biogenesis protein RLP7 | polymer | 322 | 36621.1 | 1 | UniProt (P40693) Pfam (PF00327) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Ribosomal protein L7-like |
| 44 | RA (u) | Ribosome biogenesis protein RLP24 | polymer | 199 | 24027.7 | 1 | UniProt (Q07915) Pfam (PF01246) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Ribosomal protein L24-like |
| 45 | SA (v) | Ribosome biogenesis protein RPF2 | polymer | 344 | 39665.8 | 1 | UniProt (P36160) Pfam (PF04427) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 46 | TA (w) | Regulator of ribosome biosynthesis | polymer | 203 | 23001.4 | 1 | UniProt (Q08746) Pfam (PF04939) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 47 | UA (x) | Ribosome assembly protein 4 | polymer | 515 | 57106.8 | 1 | UniProt (P25382) Pfam (PF08154) Pfam (PF00400) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Notchless protein homolog 1,Ribosome biogenesis factor RSA4 |
| 48 | VA (y) | Eukaryotic translation initiation factor 6 | polymer | 245 | 26476.6 | 1 | UniProt (Q12522) Pfam (PF01912) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | eIF-6 |
| 49 | WA (z) | UPF0642 protein YBL028C | polymer | 106 | 12435.4 | 1 | UniProt (P38202) Pfam (PF10338) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 50 | XA (1) | RDN25-1 rRNA | polymer | 3396 | 1097493.9 | 1 | GenBank (NR_132207) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 51 | YA (2) | RDN5.8-1 rRNA | polymer | 158 | 50682.9 | 1 | GenBank (1669301378) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 52 | ZA (3) | RDN5-2 rRNA | polymer | 121 | 38951.1 | 1 | GenBank (1039023795) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 53 | AB (6) | ITS2-1 miscRNA | polymer | 232 | 74308.4 | 1 | GenBank (1104417410) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 54 | BB, EB (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) | |||
| 55 | CB, FB (b, m) | MAGNESIUM ION | non-polymer | 24.3 | 2 | Chemie (MG) PubChem (888) | |||
| 56 | DB, GB, HB (j, p, u) | ZINC ION | non-polymer | 65.4 | 3 | Chemie (ZN) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 53 |
| Total formula weight | 2515819.1 | |
| Non-Polymers* | Number of molecules | 7 |
| Total formula weight | 1291.2 | |
| All* | Total formula weight | 2517110.3 |
