9N6Y image
Deposition Date 2025-02-05
Release Date 2025-11-05
Last Version Date 2025-12-24
Entry Detail
PDB ID:
9N6Y
Keywords:
RIBOSOME
Title:
SSU processome maturation and disassembly, State C
Biological Source:
Source Organism(s):
Saccharomyces cerevisiae S288C (Taxon ID: 559292)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
3.65 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
9N6Y validation report
Macromolecular Entities
Polymer Type:polyribonucleotide
Molecule:5'ETS rRNA
Chain IDs:A (auth: L0)
Chain Length:700
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
Polymer Type:polyribonucleotide
Molecule:18S rRNA
Chain IDs:B (auth: L1)
Chain Length:1808
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
Polymer Type:polyribonucleotide
Molecule:TPA: Saccharomyces cerevisiae U3a gene for small nucleolar RNA U3a
Chain IDs:C (auth: L2)
Chain Length:333
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S18-A
Gene (Uniprot):RPS18A
Chain IDs:D (auth: L3)
Chain Length:146
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P0CX55 Pfam ID:PF00416
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S4-A
Gene (Uniprot):RPS4A
Chain IDs:E (auth: L4)
Chain Length:261
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P0CX35 Pfam ID:PF08071, PF01479, PF00900, PF00467, PF16121
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S5
Gene (Uniprot):RPS5
Chain IDs:F (auth: L5)
Chain Length:225
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P26783 Pfam ID:PF00177
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S6-A
Gene (Uniprot):RPS6A
Chain IDs:G (auth: L6)
Chain Length:236
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P0CX37 Pfam ID:PF01092
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S7-A
Gene (Uniprot):RPS7A
Chain IDs:H (auth: L7)
Chain Length:190
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P26786 Pfam ID:PF01251
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S8-A
Gene (Uniprot):RPS8A
Chain IDs:I (auth: L8)
Chain Length:200
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P0CX39 Pfam ID:PF01201
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S9-A
Gene (Uniprot):RPS9A
Chain IDs:J (auth: L9)
Chain Length:197
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:O13516 Pfam ID:PF00163, PF01479
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S16-A
Gene (Uniprot):RPS16A
Chain IDs:K (auth: LC)
Chain Length:143
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P0CX51 Pfam ID:PF00380
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S11-A
Gene (Uniprot):RPS11A
Chain IDs:L (auth: LD)
Chain Length:156
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P0CX47 Pfam ID:PF16205, PF00366
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S22-A
Gene (Uniprot):RPS22A
Chain IDs:M (auth: LE)
Chain Length:130
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P0C0W1 Pfam ID:PF00410
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S24-A
Gene (Uniprot):RPS24A
Chain IDs:N (auth: LF)
Chain Length:135
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P0CX31 Pfam ID:PF01282
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S28-A
Gene (Uniprot):RPS28A
Chain IDs:O (auth: LG)
Chain Length:67
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q3E7X9 Pfam ID:PF01200
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:NET1-associated nuclear protein 1
Gene (Uniprot):NAN1
Chain IDs:P (auth: LH)
Chain Length:896
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q02931 Pfam ID:PF00400
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein 8
Gene (Uniprot):UTP8
Chain IDs:Q (auth: LI)
Chain Length:713
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P53276 Pfam ID:PF10395, PF22542
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein 15
Gene (Uniprot):UTP15
Chain IDs:R (auth: LJ)
Chain Length:513
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q04305 Pfam ID:PF00400, PF09384
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein 9
Gene (Uniprot):UTP9
Chain IDs:S (auth: LK)
Chain Length:575
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P38882
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein 5
Gene (Uniprot):UTP5
Chain IDs:T (auth: LL)
Chain Length:643
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q04177 Pfam ID:PF04003
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein 10
Gene (Uniprot):UTP10
Chain IDs:U (auth: LM)
Chain Length:1769
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P42945 Pfam ID:PF12397, PF08146, PF23243
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein 4
Gene (Uniprot):UTP4
Chain IDs:V (auth: LN)
Chain Length:776
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q06679 Pfam ID:PF00400
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Periodic tryptophan protein 2
Gene (Uniprot):PWP2
Chain IDs:W (auth: LO)
Chain Length:923
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P25635 Pfam ID:PF00400, PF04003
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein 6
Gene (Uniprot):UTP6
Chain IDs:X (auth: LP)
Chain Length:440
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q02354 Pfam ID:PF08640, PF05843, PF23240
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein 12
Gene (Uniprot):DIP2
Chain IDs:Y (auth: LQ)
Chain Length:943
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q12220 Pfam ID:PF00400, PF04003
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein 13
Gene (Uniprot):UTP13
Chain IDs:Z (auth: LR)
Chain Length:817
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q05946 Pfam ID:PF00400, PF08625
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein 18
Gene (Uniprot):UTP18
Chain IDs:AA (auth: LS)
Chain Length:594
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P40362 Pfam ID:PF00400
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein 21
Gene (Uniprot):UTP21
Chain IDs:BA (auth: LT)
Chain Length:939
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q06078 Pfam ID:PF00400, PF04192
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Protein SOF1
Gene (Uniprot):SOF1
Chain IDs:CA (auth: LU)
Chain Length:489
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P33750 Pfam ID:PF00400, PF04158
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosome biogenesis protein ENP2
Gene (Uniprot):ENP2
Chain IDs:DA (auth: LV)
Chain Length:707
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P48234 Pfam ID:PF08159, PF23098, PF23097
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein 7
Gene (Uniprot):UTP7
Chain IDs:EA (auth: LW)
Chain Length:554
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P40055 Pfam ID:PF00400, PF08149
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:RNA cytidine acetyltransferase
Gene (Uniprot):KRE33
Chain IDs:FA (auth: LX), GA (auth: LY)
Chain Length:1056
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P53914 Pfam ID:PF08351, PF05127, PF13718, PF13725
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar ribonucleoprotein protein IMP3
Gene (Uniprot):IMP3
Chain IDs:HA (auth: LZ)
Chain Length:183
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P32899 Pfam ID:PF00163, PF01479
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein MPP10
Chain IDs:IA (auth: NA)
Chain Length:593
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Something about silencing protein 10
Gene (Uniprot):SAS10
Chain IDs:JA (auth: NB)
Chain Length:610
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q12136 Pfam ID:PF04000, PF09368
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar ribonucleoprotein protein LCP5
Gene (Uniprot):LCP5
Chain IDs:KA (auth: NC)
Chain Length:357
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P40079 Pfam ID:PF04000
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Bud site selection protein 21
Gene (Uniprot):BUD21
Chain IDs:LA (auth: ND)
Chain Length:214
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q08492 Pfam ID:PF08297
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Protein FAF1
Gene (Uniprot):FAF1
Chain IDs:MA (auth: NE)
Chain Length:346
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P40546
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S13
Gene (Uniprot):RPS13
Chain IDs:NA (auth: NF)
Chain Length:151
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P05756 Pfam ID:PF08069, PF00312
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S14-A
Gene (Uniprot):RPS14A
Chain IDs:OA (auth: NG)
Chain Length:137
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P06367 Pfam ID:PF00411
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein 22
Gene (Uniprot):UTP22
Chain IDs:PA (auth: NH)
Chain Length:1237
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P53254 Pfam ID:PF03813, PF17403, PF17404, PF17405, PF17406, PF17407
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal RNA-processing protein 7
Gene (Uniprot):RRP7
Chain IDs:QA (auth: NI)
Chain Length:297
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P25368 Pfam ID:PF17799, PF12923
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:KRR1 small subunit processome component
Gene (Uniprot):KRR1
Chain IDs:RA (auth: NK)
Chain Length:316
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P25586 Pfam ID:PF17903, PF21800
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS1A
Gene (Uniprot):RPS1A
Chain IDs:SA (auth: NM)
Chain Length:255
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P33442 Pfam ID:PF01015
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Protein BFR2
Gene (Uniprot):BFR2
Chain IDs:TA (auth: NN)
Chain Length:534
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q06631 Pfam ID:PF13339, PF08164
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S27-A
Gene (Uniprot):RPS27A
Chain IDs:UA (auth: NQ)
Chain Length:82
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P35997 Pfam ID:PF01667
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Exosome complex exonuclease RRP6
Gene (Uniprot):RRP6
Chain IDs:VA (auth: NV)
Chain Length:733
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q12149 Pfam ID:PF08066, PF01612, PF00570
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:rRNA biogenesis protein RRP5
Gene (Uniprot):RRP5
Chain IDs:WA (auth: OA)
Chain Length:1729
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q05022 Pfam ID:PF00575, PF05843, PF23240
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Nucleolar protein 56
Gene (Uniprot):NOP56
Chain IDs:XA (auth: SA)
Chain Length:504
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q12460 Pfam ID:PF08156, PF01798
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Nucleolar protein 58
Gene (Uniprot):NOP58
Chain IDs:YA (auth: SB)
Chain Length:511
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q12499 Pfam ID:PF08156, PF01798
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:rRNA 2'-O-methyltransferase fibrillarin
Gene (Uniprot):NOP1
Chain IDs:ZA (auth: SC), AB (auth: SD)
Chain Length:327
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P15646 Pfam ID:PF01269
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:13 kDa ribonucleoprotein-associated protein
Gene (Uniprot):SNU13
Chain IDs:BB (auth: SE), CB (auth: SF)
Chain Length:126
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P39990 Pfam ID:PF01248
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal RNA-processing protein 9
Gene (Uniprot):RRP9
Chain IDs:DB (auth: SG)
Chain Length:573
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q06506 Pfam ID:PF00400
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:RNA 3'-terminal phosphate cyclase-like protein
Gene (Uniprot):RCL1
Chain IDs:EB (auth: SH)
Chain Length:367
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q08096 Pfam ID:PF01137, PF05189
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosome biogenesis protein BMS1
Gene (Uniprot):BMS1
Chain IDs:FB (auth: SI)
Chain Length:1183
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q08965 Pfam ID:PF00004, PF08142, PF04950
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal RNA small subunit methyltransferase NEP1
Gene (Uniprot):EMG1
Chain IDs:GB (auth: SJ), HB (auth: SK)
Chain Length:252
Number of Molecules:2
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q06287 Pfam ID:PF03587
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:rRNA-processing protein FCF1
Gene (Uniprot):FCF1
Chain IDs:IB (auth: SL)
Chain Length:189
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q05498 Pfam ID:PF04900
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar ribonucleoprotein protein IMP4
Gene (Uniprot):IMP4
Chain IDs:JB (auth: SM)
Chain Length:290
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P53941 Pfam ID:PF04427
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosome biogenesis protein UTP30
Gene (Uniprot):UTP30
Chain IDs:KB (auth: SN)
Chain Length:274
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P36144 Pfam ID:PF00687
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein 20
Gene (Uniprot):UTP20
Chain IDs:LB (auth: SP)
Chain Length:2493
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P35194 Pfam ID:PF07539, PF20416, PF23099
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:rRNA-processing protein FCF2
Gene (Uniprot):FCF2
Chain IDs:MB (auth: SQ)
Chain Length:217
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q12035 Pfam ID:PF08698
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:40S ribosomal protein S23-A
Gene (Uniprot):RPS23A
Chain IDs:NB (auth: SR)
Chain Length:145
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P0CX29 Pfam ID:PF00164
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein 14
Gene (Uniprot):UTP14
Chain IDs:OB (auth: SS)
Chain Length:899
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q04500 Pfam ID:PF04615
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Nucleolar complex protein 14
Gene (Uniprot):NOP14
Chain IDs:PB (auth: ST)
Chain Length:810
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q99207 Pfam ID:PF04147
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Nucleolar complex protein 4
Gene (Uniprot):NOC4
Chain IDs:QB (auth: SU)
Chain Length:552
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q06512 Pfam ID:PF03914
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Regulator of rDNA transcription protein 14
Gene (Uniprot):RRT14
Chain IDs:RB (auth: SV)
Chain Length:206
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P40470 Pfam ID:PF17075
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Pre-rRNA-processing protein PNO1
Gene (Uniprot):PNO1
Chain IDs:SB (auth: SW)
Chain Length:274
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:Q99216 Pfam ID:PF17903, PF22891
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U3 small nucleolar RNA-associated protein 11
Gene (Uniprot):UTP11
Chain IDs:TB (auth: SY)
Chain Length:250
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P34247 Pfam ID:PF03998
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Essential nuclear protein 1
Gene (Uniprot):ENP1
Chain IDs:UB (auth: SZ)
Chain Length:483
Number of Molecules:1
Biological Source:Saccharomyces cerevisiae S288C
UniProt ID:P38333 Pfam ID:PF05291
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
SEP W SER modified residue
Ligand Molecules
ATP
GTP
MG
ZN
Primary Citation
Helicase-mediated mechanism of SSU processome maturation and disassembly.
Nature 648 746 754 (2025)
PMID: 41162712 DOI: 10.1038/s41586-025-09688-3

Abstact

Eukaryotic ribosomal small subunit (SSU) assembly requires the SSU processome, a nucleolar precursor containing the RNA chaperone U3 small nucleolar RNA (snoRNA). The underlying molecular mechanisms of SSU processome maturation, remodelling, disassembly and RNA quality control, and the transitions between states remain unknown owing to a paucity of intermediates1-3. Here we report 16 native SSU processome structures alongside genetic data, revealing how two helicases, the Mtr4-exosome and Dhr1, are controlled for accurate and unidirectional ribosome biogenesis. Our data show how irreversible pre-ribosomal RNA degradation by the redundantly tethered RNA exosome couples the transformation of the SSU processome into a pre-40S particle, during which Utp14 can probe evolving surfaces, ultimately positioning and activating Dhr1 to unwind the U3 snoRNA and initiate nucleolar pre-40S release. This study highlights a paradigm for large dynamic RNA-protein complexes in which irreversible RNA degradation drives compositional changes and communicates these changes to govern enzyme activity while maintaining overall quality control.

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Protein

Chemical

Disease

Primary Citation of related structures
9N6Y
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