6LQQ
Cryo-EM structure of 90S small subunit preribosomes in transition states (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 | 3A | U3 snoRNA | polymer | 333 | 106503.3 | 1 | Saccharomyces cerevisiae S288C (Baker's yeast) | ||
2 | 5A | 5' ETS | polymer | 700 | 225543.1 | 1 | Saccharomyces cerevisiae S288C (Baker's yeast) | ||
3 | SA | 18S pre-rRNA | polymer | 1808 | 582381.7 | 1 | Saccharomyces cerevisiae S288C (Baker's yeast) | ||
4 | SC | 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 |
5 | SF | 40S ribosomal protein S4-A | polymer | 261 | 29469.3 | 1 | UniProt (P0CX35) Pfam (PF08071) Pfam (PF01479) Pfam (PF00900) Pfam (PF00467) Pfam (PF16121) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP5,S7,YS6 |
6 | SG | 40S ribosomal protein S5 | polymer | 225 | 25072.6 | 1 | UniProt (P26783) Pfam (PF00177) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP14,S2,YS8 |
7 | SH | 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,YS4 |
8 | SI | 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 |
9 | SJ | 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,YS9 |
10 | SK | 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,YP28,YS11 |
11 | SM | 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,YS12 |
12 | SO | 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,YS15 |
13 | SP | 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 |
14 | SR | 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 |
15 | SX | 40S ribosomal protein S22-B | polymer | 130 | 14650.1 | 1 | UniProt (Q3E7Y3) Pfam (PF00410) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RP50,S24,Small ribosomal subunit protein uS8-B,YP58,YS22 |
16 | SY | 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,YS14 |
17 | SZ | 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 |
18 | Sc | 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,YS20 |
19 | Sd | 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,YS27 |
20 | 3B, 3C | rRNA 2'-O-methyltransferase fibrillarin | polymer | 327 | 34525.4 | 2 | UniProt (P15646) Pfam (PF01269) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Histone-glutamine methyltransferase,U3 small nucleolar RNA-associated protein NOP1,U3 snoRNA-associated protein NOP1 |
21 | 3D | Nucleolar protein 56 | polymer | 504 | 56961.2 | 1 | UniProt (Q12460) Pfam (PF08156) Pfam (PF01798) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Ribosome biosynthesis protein SIK1,Suppressor of I kappa b protein 1 |
22 | 3E | Nucleolar protein 58 | polymer | 511 | 57060.3 | 1 | UniProt (Q12499) Pfam (PF08156) Pfam (PF01798) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Nucleolar protein 5 |
23 | 3F | Ribosomal RNA-processing protein 9 | polymer | 573 | 65147.0 | 1 | UniProt (Q06506) Pfam (PF00400) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
24 | 3G, 3H | 13 kDa ribonucleoprotein-associated protein | polymer | 126 | 13582.9 | 2 | UniProt (P39990) Pfam (PF01248) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Small nuclear ribonucleoprotein-associated protein 1 |
25 | A4 | U3 small nucleolar RNA-associated protein 4 | polymer | 776 | 87909.2 | 1 | UniProt (Q06679) Pfam (PF00400) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 4,U three protein 4,U3 protein 4 required for transcription,t-UTP4 |
26 | A5 | U3 small nucleolar RNA-associated protein 5 | polymer | 643 | 72079.4 | 1 | UniProt (Q04177) Pfam (PF04003) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 5,U three protein 5,U3 protein 5 required for transcription,t-UTP5 |
27 | A8 | U3 small nucleolar RNA-associated protein 8 | polymer | 713 | 80269.6 | 1 | UniProt (P53276) Pfam (PF10395) Pfam (PF22542) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 8,U three protein 8,U3 protein 8 required for transcription,t-UTP8 |
28 | A9 | U3 small nucleolar RNA-associated protein 9 | polymer | 575 | 65347.3 | 1 | UniProt (P38882) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 9,U three protein 9,U3 protein 9 required for transcription,t-UTP9 |
29 | AE | U3 small nucleolar RNA-associated protein 10 | polymer | 1769 | 200299.0 | 1 | UniProt (P42945) Pfam (PF12397) Pfam (PF08146) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 10,U three protein 10,U3 protein 10 required for transcription,t-UTP10 |
30 | AF | U3 small nucleolar RNA-associated protein 15 | polymer | 513 | 57765.3 | 1 | UniProt (Q04305) Pfam (PF00400) Pfam (PF09384) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 15,U three protein 15,U3 protein 15 required for transcription,t-UTP15 |
31 | AG | NET1-associated nuclear protein 1 | polymer | 896 | 101341.7 | 1 | UniProt (Q02931) Pfam (PF00400) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U three protein 17,t-17,U3 protein 17 required for transcription,U3 small nucleolar RNA-associated protein 17,U3 snoRNA-associated protein 17 |
32 | B1 | Periodic tryptophan protein 2 | polymer | 923 | 104097.0 | 1 | UniProt (P25635) Pfam (PF00400) Pfam (PF04003) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U three protein 1,U3 small nucleolar RNA-associated protein 1,U3 snoRNA-associated protein 1 |
33 | B2 | U3 small nucleolar RNA-associated protein 12 | polymer | 943 | 106481.1 | 1 | UniProt (Q12220) Pfam (PF00400) Pfam (PF04003) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 12,DOM34-interacting protein 2,U three protein 12 |
34 | B3 | U3 small nucleolar RNA-associated protein 13 | polymer | 817 | 91132.6 | 1 | UniProt (Q05946) Pfam (PF00400) Pfam (PF08625) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 13,U three protein 13 |
35 | B8 | U3 small nucleolar RNA-associated protein 18 | polymer | 594 | 66494.3 | 1 | UniProt (P40362) Pfam (PF00400) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 18,U three protein 18 |
36 | BE | U3 small nucleolar RNA-associated protein 21 | polymer | 939 | 104927.8 | 1 | UniProt (Q06078) Pfam (PF00400) Pfam (PF04192) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 21,U three protein 21 |
37 | B6 | U3 small nucleolar RNA-associated protein 6 | polymer | 440 | 52495.3 | 1 | UniProt (Q02354) Pfam (PF08640) Pfam (PF05843) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 6,U three protein 6 |
38 | 5B | Bud site selection protein 21 | polymer | 214 | 24431.0 | 1 | UniProt (Q08492) Pfam (PF08297) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U three protein 16,U3 small nucleolar RNA-associated protein 16,U3 snoRNA-associated protein 16 |
39 | 5C | U3 small nucleolar RNA-associated protein 7 | polymer | 554 | 62418.6 | 1 | UniProt (P40055) Pfam (PF00400) Pfam (PF08149) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 7,U three protein 7 |
40 | 5D | U3 small nucleolar RNA-associated protein 11 | polymer | 250 | 29806.3 | 1 | UniProt (P34247) Pfam (PF03998) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 11,U three protein 11 |
41 | 5E | 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 |
42 | 5F | U3 small nucleolar ribonucleoprotein protein IMP3 | polymer | 183 | 21928.5 | 1 | UniProt (P32899) Pfam (PF00163) Pfam (PF01479) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNP protein IMP3,Interacting with MPP10 protein 3 |
43 | 5G | 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 |
44 | 5H | 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 |
45 | 5I | Protein SOF1 | polymer | 489 | 56888.9 | 1 | UniProt (P33750) Pfam (PF00400) Pfam (PF04158) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 small nucleolar RNA-associated protein SOF1,U3 snoRNA-associated protein SOF1 |
46 | 5J | rRNA-processing protein FCF2 | polymer | 217 | 25689.2 | 1 | UniProt (Q12035) Pfam (PF08698) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | FAF1 copurifying factor 2 |
47 | 5K | 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 |
48 | RA | Ribosome biogenesis protein ENP2 | polymer | 707 | 81864.2 | 1 | UniProt (P48234) Pfam (PF08159) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Essential nuclear protein 2 |
49 | RB | U3 small nucleolar ribonucleoprotein protein LCP5 | polymer | 357 | 40864.4 | 1 | UniProt (P40079) Pfam (PF04000) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
50 | RC | KRR1 small subunit processome component | polymer | 316 | 37226.3 | 1 | UniProt (P25586) Pfam (PF17903) Pfam (PF21800) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | KRR-R motif-containing protein 1,Ribosomal RNA assembly protein KRR1 |
51 | RD | rRNA biogenesis protein RRP5 | polymer | 1729 | 193411.4 | 1 | UniProt (Q05022) Pfam (PF00575) Pfam (PF05843) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Ribosomal RNA-processing protein 5,U3 small nucleolar RNA-associated protein RRP5,U3 snoRNA-associated protein RRP5 |
52 | RE | U3 small nucleolar RNA-associated protein 22 | polymer | 1237 | 140660.1 | 1 | UniProt (P53254) Pfam (PF03813) Pfam (PF17403) Pfam (PF17404) Pfam (PF17405) Pfam (PF17406) Pfam (PF17407) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 22,U three protein 22 |
53 | RF | Ribosomal RNA-processing protein 7 | polymer | 297 | 34526.4 | 1 | UniProt (P25368) Pfam (PF17799) Pfam (PF12923) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
54 | RG, RH | 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 |
55 | RJ | 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) | |
56 | RK | 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) | |
57 | RL, RM | RNA cytidine acetyltransferase | polymer | 1056 | 119509.4 | 2 | UniProt (P53914) Pfam (PF08351) Pfam (PF05127) Pfam (PF13718) Pfam (PF13725) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | 18S rRNA cytosine acetyltransferase,Killer toxin-resistance protein 33,Ribosomal RNA cytidine acetyltransferase 1 |
58 | RN | 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 |
59 | RO | Nucleolar complex protein 4 | polymer | 552 | 63707.8 | 1 | UniProt (Q06512) Pfam (PF03914) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U three protein 19,U3 small nucleolar RNA-associated protein 19,U3 snoRNA-associated protein 19 |
60 | RP | U3 small nucleolar RNA-associated protein 20 | polymer | 2493 | 287915.5 | 1 | UniProt (P35194) Pfam (PF20416) Pfam (PF07539) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 20,U three protein 20 |
61 | RQ | 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 |
62 | RS | Essential nuclear protein 1 | polymer | 483 | 55207.4 | 1 | UniProt (P38333) Pfam (PF05291) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | |
63 | RT | Pno1 | polymer | 326 | 36356.5 | 1 | Saccharomyces cerevisiae S288C (Baker's yeast) | ||
64 | RV | Protein FAF1 | polymer | 346 | 38961.5 | 1 | UniProt (P40546) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Forty S assembly factor |
65 | RY | Protein BFR2 | polymer | 534 | 61285.0 | 1 | UniProt (Q06631) Pfam (PF13339) Pfam (PF08164) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Brefeldin A resistance protein 2 |
66 | X1 | Unassigned helices | polymer | 347 | 29549.3 | 1 | Saccharomyces cerevisiae S288C (Baker's yeast) | ||
67 | Sc, 5K | ZINC ION | non-polymer | 65.4 | 2 | Chemie (ZN) | |||
68 | RJ | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 1 | Chemie (GTP) | |||
69 | RJ | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 70 |
Total formula weight | 4869253.5 | |
Non-Polymers* | Number of molecules | 4 |
Total formula weight | 678.3 | |
All* | Total formula weight | 4869931.8 |