6ZQG
Cryo-EM structure of the 90S pre-ribosome from Saccharomyces cerevisiae, state Dis-C
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 | UB | Nucleolar complex protein 14 | polymer | 810 | 94463.2 | 1 | UniProt (Q99207) Pfam (PF04147) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U three protein 2,U3 small nucleolar RNA-associated protein 2,U3 snoRNA-associated protein 2 |
| 2 | UC | Something about silencing protein 10 | polymer | 610 | 70364.4 | 1 | UniProt (Q12136) Pfam (PF04000) Pfam (PF09368) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U three protein 3,U3 small nucleolar RNA-associated protein 3,U3 snoRNA-associated protein 11 |
| 3 | US | Noc4,Nucleolar complex protein 4,Noc4 | polymer | 552 | 63707.8 | 1 | Saccharomyces cerevisiae S288C | ||
| 4 | UX | rRNA-processing protein FCF1 | polymer | 189 | 21650.7 | 1 | UniProt (Q05498) Pfam (PF04900) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | FAF1-copurifying factor 1 |
| 5 | CJ | U3 small nucleolar ribonucleoprotein protein IMP4 | polymer | 290 | 33536.2 | 1 | UniProt (P53941) Pfam (PF04427) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNP protein IMP4,Interacting with MPP10 protein 4 |
| 6 | CK | U3 small nucleolar RNA-associated protein MPP10 | polymer | 593 | 67042.5 | 1 | UniProt (P47083) Pfam (PF04006) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein MPP10,M phase phosphoprotein 10 |
| 7 | CL | Ribosome biogenesis protein BMS1 | polymer | 1183 | 135792.3 | 1 | UniProt (Q08965) Pfam (PF00004) Pfam (PF08142) Pfam (PF04950) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 8 | CM | RNA 3'-terminal phosphate cyclase-like protein | polymer | 367 | 40220.6 | 1 | UniProt (Q08096) Pfam (PF01137) Pfam (PF05189) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 9 | JF, JG | Ribosomal RNA small subunit methyltransferase NEP1 | polymer | 252 | 27936.5 | 2 | UniProt (Q06287) Pfam (PF03587) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | 18S rRNA (pseudouridine(1189)-N1)-methyltransferase,18S rRNA Psi1189 methyltransferase,Essential for mitotic growth protein 1,Nucleolar essential protein 1 |
| 10 | JH | Essential nuclear protein 1 | polymer | 483 | 55207.4 | 1 | UniProt (P38333) Pfam (PF05291) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 11 | JL | Dimethyladenosine transferase | polymer | 318 | 36003.8 | 1 | UniProt (P41819) Pfam (PF00398) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | 18S rRNA (adenine(1779)-N(6)/adenine(1780)-N(6))-dimethyltransferase,18S rRNA dimethylase,S-adenosylmethionine-6-N',N'-adenosyl(rRNA) dimethyltransferase |
| 12 | JJ | Pre-rRNA-processing protein PNO1 | polymer | 274 | 30380.6 | 1 | UniProt (Q99216) Pfam (PF17903) Pfam (PF22891) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Partner of NOB1,Ribosomal RNA-processing protein 20 |
| 13 | DF | Rps5p | polymer | 225 | 25072.6 | 1 | UniProt (P26783) Pfam (PF00177) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
| 14 | DQ | 40S ribosomal protein S16-A | polymer | 143 | 15877.5 | 1 | UniProt (P0CX51) Pfam (PF00380) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP61R,Small ribosomal subunit protein uS9-A |
| 15 | DS | 40S ribosomal protein S18-A,40S ribosomal protein S18-A,Rps18 | polymer | 147 | 16303.9 | 1 | UniProt (P0CX55) Pfam (PF00416) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Small ribosomal subunit protein uS13-A |
| 16 | DT | 40S ribosomal protein S19-A | polymer | 144 | 15942.1 | 1 | UniProt (P07280) Pfam (PF01090) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP55A,S16a,Small ribosomal subunit protein eS19-A,YP45,YS16A |
| 17 | Dc | 40S ribosomal protein S28-A | polymer | 67 | 7605.8 | 1 | UniProt (Q3E7X9) Pfam (PF01200) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | S33,Small ribosomal subunit protein eS28-A,YS27 |
| 18 | D3 | 18S rRNA | polymer | 1758 | 566062.2 | 1 | Saccharomyces cerevisiae S288C | ||
| 19 | DA | 40S ribosomal protein S1-A | polymer | 255 | 28798.5 | 1 | UniProt (P33442) Pfam (PF01015) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP10A,Small ribosomal subunit protein eS1-A |
| 20 | DE | 40S ribosomal protein S4-A | polymer | 261 | 29469.3 | 1 | UniProt (P0CX35) Pfam (PF01479) Pfam (PF00900) Pfam (PF00467) Pfam (PF16121) Pfam (PF08071) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP5,S7,Small ribosomal subunit protein eS4-A,YS6 |
| 21 | DG | 40S ribosomal protein S6-A | polymer | 236 | 27054.5 | 1 | UniProt (P0CX37) Pfam (PF01092) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP9,S10,Small ribosomal subunit protein eS6-A,YS4 |
| 22 | DH | 40S ribosomal protein S7-A | polymer | 190 | 21658.2 | 1 | UniProt (P26786) Pfam (PF01251) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP30,RP40,Small ribosomal subunit protein eS7-A |
| 23 | DI | 40S ribosomal protein S8-A | polymer | 200 | 22537.8 | 1 | UniProt (P0CX39) Pfam (PF01201) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP19,S14,Small ribosomal subunit protein eS8-A,YS9 |
| 24 | DJ | 40S ribosomal protein S9-A | polymer | 197 | 22487.9 | 1 | UniProt (O13516) Pfam (PF00163) Pfam (PF01479) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP21,S13,Small ribosomal subunit protein uS4-A,YP28,YS11 |
| 25 | DL | 40S ribosomal protein S11-A | polymer | 156 | 17785.9 | 1 | UniProt (P0CX47) Pfam (PF16205) Pfam (PF00366) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP41,S18,Small ribosomal subunit protein uS17-A,YS12 |
| 26 | DN | 40S ribosomal protein S13 | polymer | 151 | 17059.9 | 1 | UniProt (P05756) Pfam (PF08069) Pfam (PF00312) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | S27a,Small ribosomal subunit protein uS15,YS15 |
| 27 | DO | 40S ribosomal protein S14-A | polymer | 137 | 14562.7 | 1 | UniProt (P06367) Pfam (PF00411) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP59A,Small ribosomal subunit protein uS11-A |
| 28 | DZ | 40S ribosomal protein S25-A | polymer | 108 | 12067.3 | 1 | UniProt (Q3E792) Pfam (PF03297) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP45,S31,Small ribosomal subunit protein eS25-A,YS23 |
| 29 | DW | 40S ribosomal protein S22-A | polymer | 130 | 14650.1 | 1 | UniProt (P0C0W1) Pfam (PF00410) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP50,S24,Small ribosomal subunit protein uS8-A,YP58,YS22 |
| 30 | DX | 40S ribosomal protein S23-A | polymer | 145 | 16073.9 | 1 | UniProt (P0CX29) Pfam (PF00164) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP37,S28,Small ribosomal subunit protein uS12-A,YS14 |
| 31 | DY | 40S ribosomal protein S24-A | polymer | 135 | 15362.8 | 1 | UniProt (P0CX31) Pfam (PF01282) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP50,Small ribosomal subunit protein eS24-A |
| 32 | Db | 40S ribosomal protein S27-A | polymer | 82 | 8893.4 | 1 | UniProt (P35997) Pfam (PF01667) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP61,Small ribosomal subunit protein eS27-A,YS20 |
| 33 | UN | U3 small nucleolar RNA-associated protein 14 | polymer | 899 | 103189.8 | 1 | UniProt (Q04500) Pfam (PF04615) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 14,U three protein 14 |
| 34 | JD | Probable ATP-dependent RNA helicase DHR1 | polymer | 1267 | 145171.4 | 1 | UniProt (Q04217) Pfam (PF00270) Pfam (PF00271) Pfam (PF04408) Pfam (PF21010) Pfam (PF07717) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | DEAH box RNA helicase DHR1,Extracellular mutant protein 16 |
| 35 | D4 | U3 snoRNA | polymer | 23 | 7459.4 | 1 | Saccharomyces cerevisiae S288C | ||
| 36 | D5 | Poly-U RNA | polymer | 9 | 2710.5 | 1 | Saccharomyces cerevisiae S288C | ||
| 37 | UX | ZINC ION | non-polymer | 65.4 | 1 | Chemie (ZN) | |||
| 38 | CL | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 1 | Chemie (GTP) | |||
| 39 | D3, CL, DG | MAGNESIUM ION | non-polymer | 24.3 | 39 | Chemie (MG) |
Sequence modifications
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 37 |
| Total formula weight | 1878099.9 | |
| Non-Polymers* | Number of molecules | 41 |
| Total formula weight | 1536.5 | |
| All* | Total formula weight | 1879636.4 |
