6LQV
Cryo-EM structure of 90S small subunit preribosomes in transition states (State C1)
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 | 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) | Rps4, RP5,S7,YS6 |
5 | 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) | Rps5, RP14,S2,YS8 |
6 | 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) | Rps6, RP9,S10,YS4 |
7 | 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) | Rps8, RP19,S14,YS9 |
8 | 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) | Rps9, RP21,S13,YP28,YS11 |
9 | 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) | Rps11, RP41,S18,YS12 |
10 | 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) | Rps16, RP61R |
11 | 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) | Rps23, RP37,S28,YS14 |
12 | 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) | Rps24,RP50 |
13 | 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) | Rps28, S33,YS27 |
14 | 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) | Nop1, Histone-glutamine methyltransferase,U3 small nucleolar RNA-associated protein NOP1,U3 snoRNA-associated protein NOP1 |
15 | 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) | Nop56, Ribosome biosynthesis protein SIK1,Suppressor of I kappa b protein 1 |
16 | 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 |
17 | 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) | Rrp9 |
18 | 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) | Snu13, Small nuclear ribonucleoprotein-associated protein 1 |
19 | 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) | Utp4, U3 snoRNA-associated protein 4,U three protein 4,U3 protein 4 required for transcription,t-UTP4 |
20 | 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) | Utp5, U3 snoRNA-associated protein 5,U three protein 5,U3 protein 5 required for transcription,t-UTP5 |
21 | A8 | U3 small nucleolar RNA-associated protein 8 | polymer | 713 | 80269.6 | 1 | UniProt (P53276) Pfam (PF10395) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Utp8, U3 snoRNA-associated protein 8,U three protein 8,U3 protein 8 required for transcription,t-UTP8 |
22 | 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) | Utp9, U3 snoRNA-associated protein 9,U three protein 9,U3 protein 9 required for transcription,t-UTP9 |
23 | 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) | Utp10, U3 snoRNA-associated protein 10,U three protein 10,U3 protein 10 required for transcription,t-UTP10 |
24 | 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) | Utp15, U3 snoRNA-associated protein 15,U three protein 15,U3 protein 15 required for transcription,t-UTP15 |
25 | 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) | Utp17, U three protein 17,t-17,U3 protein 17 required for transcription,U3 small nucleolar RNA-associated protein 17,U3 snoRNA-associated protein 17 |
26 | 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) | Utp1, U three protein 1,U3 small nucleolar RNA-associated protein 1,U3 snoRNA-associated protein 1 |
27 | 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) | Utp12, U3 snoRNA-associated protein 12,DOM34-interacting protein 2,U three protein 12 |
28 | 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) | Utp13, U3 snoRNA-associated protein 13,U three protein 13 |
29 | 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) | Utp18, U3 snoRNA-associated protein 18,U three protein 18 |
30 | 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 |
31 | B6 | U3 small nucleolar RNA-associated protein 6 | polymer | 440 | 52495.3 | 1 | UniProt (Q02354) Pfam (PF08640) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Utp6, U3 snoRNA-associated protein 6,U three protein 6 |
32 | 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) | Bud21, U three protein 16,U3 small nucleolar RNA-associated protein 16,U3 snoRNA-associated protein 16 |
33 | 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) | Utp7, U3 snoRNA-associated protein 7,U three protein 7 |
34 | 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) | Utp11, U3 snoRNA-associated protein 11,U three protein 11 |
35 | 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) | Mpp10, U3 snoRNA-associated protein MPP10,M phase phosphoprotein 10 |
36 | 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) | Imp3, U3 snoRNP protein IMP3,Interacting with MPP10 protein 3 |
37 | 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) | Imp4, U3 snoRNP protein IMP4,Interacting with MPP10 protein 4 |
38 | 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) | Sas10, U three protein 3,U3 small nucleolar RNA-associated protein 3,U3 snoRNA-associated protein 11 |
39 | 5I | Protein SOF1 | polymer | 489 | 56888.9 | 1 | UniProt (P33750) Pfam (PF04158) Pfam (PF00400) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | Sof1, U3 small nucleolar RNA-associated protein SOF1,U3 snoRNA-associated protein SOF1 |
40 | 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 |
41 | 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) | Utp24, FAF1-copurifying factor 1 |
42 | 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) | Enp2, Essential nuclear protein 2 |
43 | 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) | Lcp5 |
44 | 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) | Emg1, 18S rRNA (pseudouridine(1189)-N1)-methyltransferase,18S rRNA Psi1189 methyltransferase,Essential for mitotic growth protein 1,Nucleolar essential protein 1 |
45 | 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) | Bms1 |
46 | 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) | Rcl1 |
47 | 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) | Kre33, 18S rRNA cytosine acetyltransferase,Killer toxin-resistance protein 33,Ribosomal RNA cytidine acetyltransferase 1 |
48 | 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 |
49 | 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) | Noc4, U three protein 19,U3 small nucleolar RNA-associated protein 19,U3 snoRNA-associated protein 19 |
50 | RP | U3 small nucleolar RNA-associated protein 20 | polymer | 2493 | 287915.5 | 1 | UniProt (P35194) Pfam (PF07539) Pfam (PF20416) In PDB | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | U3 snoRNA-associated protein 20,U three protein 20 |
51 | 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) | Utp14, U3 snoRNA-associated protein 14,U three protein 14 |
52 | 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) | Enp1 |
53 | 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 |
54 | X1 | Unassigned helices | polymer | 347 | 29549.3 | 1 | Saccharomyces cerevisiae S288C (Baker's yeast) | ||
55 | 5K | ZINC ION | non-polymer | 65.4 | 1 | Chemie (ZN) | |||
56 | RJ | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 1 | Chemie (GTP) | |||
57 | RJ | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) |
Sequence viewer
Contents of the asymmetric unit
Polymers | Number of chains | 58 |
Total formula weight | 4282488.5 | |
Non-Polymers* | Number of molecules | 3 |
Total formula weight | 612.9 | |
All* | Total formula weight | 4283101.4 |