9N78 | pdb_00009n78

SSU processome maturation and disassembly, State L

PDB DOI: https://doi.org/10.2210/pdb9N78/pdb
NAKB: 9N78
EM Map EMD-49088: EMDB EMDataResource

Classification: RIBOSOME
Organism(s): Saccharomyces cerevisiae S288C
Mutation(s): No

Deposited: 2025-02-05 Released: 2025-11-05
Deposition Author(s): Buzovetsky, O., Klinge, S.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), Chan Zuckerberg Initiative

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 4.17 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Mechanism of helicase-mediated SSU processome maturation and disassembly

Buzovetsky, O., Klinge, S.

To be published.

Macromolecule Content

Total Structure Weight: 3,721.15 kDa
Atom Count: 149,183
Modeled Residue Count: 17,530
Deposited Residue Count: 27,557
Unique protein chains: 53
Unique nucleic acid chains: 3

Macromolecules

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Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S18-A	D [auth L3]	146	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P0CX55 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P0CX55 Go to UniProtKB: P0CX55
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0CX55
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Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S4-A	E [auth L4]	261	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P0CX35 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P0CX35 Go to UniProtKB: P0CX35
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UniProt Group	P0CX35
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Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S5	F [auth L5]	225	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P26783 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P26783 Go to UniProtKB: P26783
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P26783
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Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S6-A	G [auth L6]	236	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P0CX37 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P0CX37 Go to UniProtKB: P0CX37
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0CX37
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Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S7-A	H [auth L7]	190	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P26786 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P26786 Go to UniProtKB: P26786
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P26786
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Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S8-A	I [auth L8]	200	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P0CX39 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P0CX39 Go to UniProtKB: P0CX39
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0CX39
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Entity ID: 10
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S9-A	J [auth L9]	197	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for O13516 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore O13516 Go to UniProtKB: O13516
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O13516
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Entity ID: 11
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S16-A	K [auth LC]	143	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P0CX51 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P0CX51 Go to UniProtKB: P0CX51
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0CX51
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Entity ID: 12
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S11-A	L [auth LD]	156	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P0CX47 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P0CX47 Go to UniProtKB: P0CX47
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0CX47
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Entity ID: 13
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S22-A	M [auth LE]	130	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P0C0W1 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P0C0W1 Go to UniProtKB: P0C0W1
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0C0W1
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Entity ID: 14
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S24-A	N [auth LF]	135	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P0CX31 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P0CX31 Go to UniProtKB: P0CX31
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0CX31
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Entity ID: 15
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S28-A	O [auth LG]	67	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q3E7X9 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q3E7X9 Go to UniProtKB: Q3E7X9
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q3E7X9
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Entity ID: 16
Molecule	Chains	Sequence Length	Organism	Details	Image
NET1-associated nuclear protein 1	P [auth LH]	896	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q02931 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q02931 Go to UniProtKB: Q02931
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q02931
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Entity ID: 17
Molecule	Chains	Sequence Length	Organism	Details	Image
U3 small nucleolar RNA-associated protein 8	Q [auth LI]	713	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P53276 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P53276 Go to UniProtKB: P53276
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P53276
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Entity ID: 18
Molecule	Chains	Sequence Length	Organism	Details	Image
U3 small nucleolar RNA-associated protein 15	R [auth LJ]	513	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q04305 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q04305 Go to UniProtKB: Q04305
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q04305
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Entity ID: 19
Molecule	Chains	Sequence Length	Organism	Details	Image
U3 small nucleolar RNA-associated protein 9	S [auth LK]	575	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P38882 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P38882 Go to UniProtKB: P38882
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P38882
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Entity ID: 20
Molecule	Chains	Sequence Length	Organism	Details	Image
U3 small nucleolar RNA-associated protein 5	T [auth LL]	643	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q04177 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q04177 Go to UniProtKB: Q04177
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q04177
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Entity ID: 21
Molecule	Chains	Sequence Length	Organism	Details	Image
U3 small nucleolar RNA-associated protein 10	U [auth LM]	1,769	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P42945 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P42945 Go to UniProtKB: P42945
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UniProt Group	P42945
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Entity ID: 22
Molecule	Chains	Sequence Length	Organism	Details	Image
U3 small nucleolar RNA-associated protein 4	V [auth LN]	776	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q06679 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q06679 Go to UniProtKB: Q06679
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q06679
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Entity ID: 23
Molecule	Chains	Sequence Length	Organism	Details	Image
U3 small nucleolar RNA-associated protein 18	W [auth LS]	594	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P40362 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P40362 Go to UniProtKB: P40362
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P40362
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Entity ID: 24
Molecule	Chains	Sequence Length	Organism	Details	Image
U3 small nucleolar RNA-associated protein MPP10	X [auth NA]	593	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P47083 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P47083 Go to UniProtKB: P47083
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UniProt Group	P47083
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Entity ID: 25
Molecule	Chains	Sequence Length	Organism	Details	Image
Something about silencing protein 10	Y [auth NB]	610	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q12136 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q12136 Go to UniProtKB: Q12136
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q12136
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Entity ID: 26
Molecule	Chains	Sequence Length	Organism	Details	Image
Bud site selection protein 21	Z [auth ND]	214	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q08492 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q08492 Go to UniProtKB: Q08492
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Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q08492
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Entity ID: 27
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S13	AA [auth NF]	151	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P05756 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P05756 Go to UniProtKB: P05756
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UniProt Group	P05756
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Entity ID: 28
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S14-A	BA [auth NG]	137	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P06367 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P06367 Go to UniProtKB: P06367
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UniProt Group	P06367
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Entity ID: 29
Molecule	Chains	Sequence Length	Organism	Details	Image
Dimethyladenosine transferase	CA [auth NL]	318	Saccharomyces cerevisiae S288C	Mutation(s): 0 EC: 2.1.1.183
UniProt
Find proteins for P41819 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P41819 Go to UniProtKB: P41819
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UniProt Group	P41819
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Entity ID: 30
Molecule	Chains	Sequence Length	Organism	Details	Image
Small ribosomal subunit protein eS1A	DA [auth NM]	255	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P33442 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P33442 Go to UniProtKB: P33442
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UniProt Group	P33442
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Entity ID: 31
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S19-A	EA [auth NP]	144	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P07280 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P07280 Go to UniProtKB: P07280
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UniProt Group	P07280
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Entity ID: 32
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S27-A	FA [auth NQ]	82	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P35997 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P35997 Go to UniProtKB: P35997
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UniProt Group	P35997
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Entity ID: 33
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable ATP-dependent RNA helicase DHR1	GA [auth NS]	1,267	Saccharomyces cerevisiae S288C	Mutation(s): 0 EC: 3.6.4.13
UniProt
Find proteins for Q04217 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q04217 Go to UniProtKB: Q04217
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UniProt Group	Q04217
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Entity ID: 34
Molecule	Chains	Sequence Length	Organism	Details	Image
Exosome complex exonuclease RRP6	HA [auth NV]	733	Saccharomyces cerevisiae S288C	Mutation(s): 0 EC: 3.1.13
UniProt
Find proteins for Q12149 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q12149 Go to UniProtKB: Q12149
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UniProt Group	Q12149
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Entity ID: 35
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S12	IA [auth OH]	143	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P48589 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P48589 Go to UniProtKB: P48589
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UniProt Group	P48589
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Entity ID: 36
Molecule	Chains	Sequence Length	Organism	Details	Image
Ubiquitin-40S ribosomal protein S31	JA [auth OU]	152	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P05759 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P05759 Go to UniProtKB: P05759
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UniProt Group	P05759
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Entity ID: 37
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleolar protein 56	KA [auth SA]	504	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q12460 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q12460 Go to UniProtKB: Q12460
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UniProt Group	Q12460
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Entity ID: 38
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleolar protein 58	LA [auth SB]	511	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q12499 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q12499 Go to UniProtKB: Q12499
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UniProt Group	Q12499
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Entity ID: 39
Molecule	Chains	Sequence Length	Organism	Details	Image
rRNA 2'-O-methyltransferase fibrillarin	MA [auth SC], NA [auth SD]	327	Saccharomyces cerevisiae S288C	Mutation(s): 0 EC: 2.1.1
UniProt
Find proteins for P15646 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P15646 Go to UniProtKB: P15646
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UniProt Group	P15646
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Entity ID: 40
Molecule	Chains	Sequence Length	Organism	Details	Image
13 kDa ribonucleoprotein-associated protein	OA [auth SE], PA [auth SF]	126	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P39990 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P39990 Go to UniProtKB: P39990
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UniProt Group	P39990
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Entity ID: 41
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribosomal RNA-processing protein 9	QA [auth SG]	573	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q06506 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q06506 Go to UniProtKB: Q06506
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UniProt Group	Q06506
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Entity ID: 42
Molecule	Chains	Sequence Length	Organism	Details	Image
RNA 3'-terminal phosphate cyclase-like protein	RA [auth SH]	367	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q08096 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q08096 Go to UniProtKB: Q08096
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UniProt Group	Q08096
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Entity ID: 43
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribosome biogenesis protein BMS1	SA [auth SI]	1,183	Saccharomyces cerevisiae S288C	Mutation(s): 0 EC: 3.6.5
UniProt
Find proteins for Q08965 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q08965 Go to UniProtKB: Q08965
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UniProt Group	Q08965
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Entity ID: 44
Molecule	Chains	Sequence Length	Organism	Details	Image
Ribosomal RNA small subunit methyltransferase NEP1	TA [auth SJ], UA [auth SK]	252	Saccharomyces cerevisiae S288C	Mutation(s): 0 EC: 2.1.1.260
UniProt
Find proteins for Q06287 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q06287 Go to UniProtKB: Q06287
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UniProt Group	Q06287
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Entity ID: 45
Molecule	Chains	Sequence Length	Organism	Details	Image
rRNA-processing protein FCF1	VA [auth SL]	189	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q05498 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q05498 Go to UniProtKB: Q05498
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UniProt Group	Q05498
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Entity ID: 46
Molecule	Chains	Sequence Length	Organism	Details	Image
U3 small nucleolar ribonucleoprotein protein IMP4	WA [auth SM]	290	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P53941 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P53941 Go to UniProtKB: P53941
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UniProt Group	P53941
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Entity ID: 47
Molecule	Chains	Sequence Length	Organism	Details	Image
U3 small nucleolar RNA-associated protein 20	XA [auth SP]	2,493	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P35194 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P35194 Go to UniProtKB: P35194
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UniProt Group	P35194
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Entity ID: 48
Molecule	Chains	Sequence Length	Organism	Details	Image
rRNA-processing protein FCF2	YA [auth SQ]	217	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q12035 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q12035 Go to UniProtKB: Q12035
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UniProt Group	Q12035
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Entity ID: 49
Molecule	Chains	Sequence Length	Organism	Details	Image
40S ribosomal protein S23-A	ZA [auth SR]	145	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P0CX29 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P0CX29 Go to UniProtKB: P0CX29
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UniProt Group	P0CX29
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Entity ID: 50
Molecule	Chains	Sequence Length	Organism	Details	Image
U3 small nucleolar RNA-associated protein 14	AB [auth SS]	899	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q04500 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q04500 Go to UniProtKB: Q04500
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UniProt Group	Q04500
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Entity ID: 51
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleolar complex protein 14	BB [auth ST]	810	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q99207 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q99207 Go to UniProtKB: Q99207
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q99207
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Reference Sequence

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Entity ID: 52
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleolar complex protein 4	CB [auth SU]	552	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q06512 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q06512 Go to UniProtKB: Q06512
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q06512
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Reference Sequence

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Entity ID: 53
Molecule	Chains	Sequence Length	Organism	Details	Image
Regulator of rDNA transcription protein 14	DB [auth SV]	206	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P40470 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P40470 Go to UniProtKB: P40470
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P40470
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Reference Sequence

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| 3D Structure

Entity ID: 54
Molecule	Chains	Sequence Length	Organism	Details	Image
Pre-rRNA-processing protein PNO1	EB [auth SW]	274	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for Q99216 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore Q99216 Go to UniProtKB: Q99216
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q99216
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Reference Sequence

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Entity ID: 55
Molecule	Chains	Sequence Length	Organism	Details	Image
U3 small nucleolar RNA-associated protein 11	FB [auth SY]	250	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P34247 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P34247 Go to UniProtKB: P34247
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P34247
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Reference Sequence

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Entity ID: 56
Molecule	Chains	Sequence Length	Organism	Details	Image
Essential nuclear protein 1	GB [auth SZ]	483	Saccharomyces cerevisiae S288C	Mutation(s): 0
UniProt
Find proteins for P38333 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P38333 Go to UniProtKB: P38333
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P38333
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Reference Sequence

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Molecule	Chains	Length	Organism
Entity ID: 1
5'ETS rRNA	A [auth L0]	700	Saccharomyces cerevisiae S288C
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Reference Sequence

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Molecule	Chains	Length	Organism
Entity ID: 2
18S rRNA	B [auth L1]	1,803	Saccharomyces cerevisiae S288C
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Reference Sequence

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Molecule	Chains	Length	Organism
Entity ID: 3
U3 snoRNA	C [auth L2]	334	Saccharomyces cerevisiae S288C
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GTP Query on GTP Download:Ideal Coordinates CCD File SDF format, chain CD [auth SI] MOL2 format, chain CD [auth SI] mmCIF format, chain CD [auth SI]	CD [auth SI]	GUANOSINE-5'-TRIPHOSPHATE C₁₀ H₁₆ N₅ O₁₄ P₃ XKMLYUALXHKNFT-UUOKFMHZSA-N		Interactions Focus chain CD [auth SI] Interactions & Density Focus chain CD [auth SI]
ZN Query on ZN Download:Ideal Coordinates CCD File SDF format, chain BD [auth NQ] SDF format, chain ED [auth SL] MOL2 format, chain BD [auth NQ] MOL2 format, chain ED [auth SL] mmCIF format, chain BD [auth NQ] mmCIF format, chain ED [auth SL]	BD [auth NQ], ED [auth SL]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain BD [auth NQ] Focus chain ED [auth SL] Interactions & Density Focus chain BD [auth NQ] Focus chain ED [auth SL]
MG Query on MG Download:Ideal Coordinates CCD File SDF format, chain CC [auth L1] SDF format, chain HC [auth L1] SDF format, chain LC [auth L1] SDF format, chain MB [auth L1] SDF format, chain OC [auth L1] SDF format, chain QB [auth L1] SDF format, chain ZC [auth L1] SDF format, chain ZB [auth L1] SDF format, chain YC [auth L1] SDF format, chain YB [auth L1] SDF format, chain XC [auth L1] SDF format, chain XB [auth L1] SDF format, chain WC [auth L1] SDF format, chain WB [auth L1] SDF format, chain VC [auth L1] SDF format, chain VB [auth L1] SDF format, chain UC [auth L1] SDF format, chain UB [auth L1] SDF format, chain TC [auth L1] SDF format, chain TB [auth L1] SDF format, chain SC [auth L1] SDF format, chain SB [auth L1] SDF format, chain RC [auth L1] SDF format, chain RB [auth L1] SDF format, chain QC [auth L1] SDF format, chain PC [auth L1] SDF format, chain PB [auth L1] SDF format, chain OB [auth L1] SDF format, chain NC [auth L1] SDF format, chain NB [auth L1] SDF format, chain MC [auth L1] SDF format, chain LB [auth L1] SDF format, chain KC [auth L1] SDF format, chain KB [auth L1] SDF format, chain JC [auth L1] SDF format, chain JB [auth L1] SDF format, chain IC [auth L1] SDF format, chain IB [auth L1] SDF format, chain HB [auth L1] SDF format, chain GC [auth L1] SDF format, chain FC [auth L1] SDF format, chain EC [auth L1] SDF format, chain DD [auth SI] SDF format, chain DC [auth L1] SDF format, chain BC [auth L1] SDF format, chain AD [auth L1] SDF format, chain AC [auth L1] MOL2 format, chain CC [auth L1] MOL2 format, chain HC [auth L1] MOL2 format, chain LC [auth L1] MOL2 format, chain MB [auth L1] MOL2 format, chain OC [auth L1] MOL2 format, chain QB [auth L1] MOL2 format, chain ZC [auth L1] MOL2 format, chain ZB [auth L1] MOL2 format, chain YC [auth L1] MOL2 format, chain YB [auth L1] MOL2 format, chain XC [auth L1] MOL2 format, chain XB [auth L1] MOL2 format, chain WC [auth L1] MOL2 format, chain WB [auth L1] MOL2 format, chain VC [auth L1] MOL2 format, chain VB [auth L1] MOL2 format, chain UC [auth L1] MOL2 format, chain UB [auth L1] MOL2 format, chain TC [auth L1] MOL2 format, chain TB [auth L1] MOL2 format, chain SC [auth L1] MOL2 format, chain SB [auth L1] MOL2 format, chain RC [auth L1] MOL2 format, chain RB [auth L1] MOL2 format, chain QC [auth L1] MOL2 format, chain PC [auth L1] MOL2 format, chain PB [auth L1] MOL2 format, chain OB [auth L1] MOL2 format, chain NC [auth L1] MOL2 format, chain NB [auth L1] MOL2 format, chain MC [auth L1] MOL2 format, chain LB [auth L1] MOL2 format, chain KC [auth L1] MOL2 format, chain KB [auth L1] MOL2 format, chain JC [auth L1] MOL2 format, chain JB [auth L1] MOL2 format, chain IC [auth L1] MOL2 format, chain IB [auth L1] MOL2 format, chain HB [auth L1] MOL2 format, chain GC [auth L1] MOL2 format, chain FC [auth L1] MOL2 format, chain EC [auth L1] MOL2 format, chain DD [auth SI] MOL2 format, chain DC [auth L1] MOL2 format, chain BC [auth L1] MOL2 format, chain AD [auth L1] MOL2 format, chain AC [auth L1] mmCIF format, chain CC [auth L1] mmCIF format, chain HC [auth L1] mmCIF format, chain LC [auth L1] mmCIF format, chain MB [auth L1] mmCIF format, chain OC [auth L1] mmCIF format, chain QB [auth L1] mmCIF format, chain ZC [auth L1] mmCIF format, chain ZB [auth L1] mmCIF format, chain YC [auth L1] mmCIF format, chain YB [auth L1] mmCIF format, chain XC [auth L1] mmCIF format, chain XB [auth L1] mmCIF format, chain WC [auth L1] mmCIF format, chain WB [auth L1] mmCIF format, chain VC [auth L1] mmCIF format, chain VB [auth L1] mmCIF format, chain UC [auth L1] mmCIF format, chain UB [auth L1] mmCIF format, chain TC [auth L1] mmCIF format, chain TB [auth L1] mmCIF format, chain SC [auth L1] mmCIF format, chain SB [auth L1] mmCIF format, chain RC [auth L1] mmCIF format, chain RB [auth L1] mmCIF format, chain QC [auth L1] mmCIF format, chain PC [auth L1] mmCIF format, chain PB [auth L1] mmCIF format, chain OB [auth L1] mmCIF format, chain NC [auth L1] mmCIF format, chain NB [auth L1] mmCIF format, chain MC [auth L1] mmCIF format, chain LB [auth L1] mmCIF format, chain KC [auth L1] mmCIF format, chain KB [auth L1] mmCIF format, chain JC [auth L1] mmCIF format, chain JB [auth L1] mmCIF format, chain IC [auth L1] mmCIF format, chain IB [auth L1] mmCIF format, chain HB [auth L1] mmCIF format, chain GC [auth L1] mmCIF format, chain FC [auth L1] mmCIF format, chain EC [auth L1] mmCIF format, chain DD [auth SI] mmCIF format, chain DC [auth L1] mmCIF format, chain BC [auth L1] mmCIF format, chain AD [auth L1] mmCIF format, chain AC [auth L1]	AC [auth L1] AD [auth L1] BC [auth L1] CC [auth L1] DC [auth L1] AC [auth L1], AD [auth L1], BC [auth L1], CC [auth L1], DC [auth L1], DD [auth SI], EC [auth L1], FC [auth L1], GC [auth L1], HB [auth L1], HC [auth L1], IB [auth L1], IC [auth L1], JB [auth L1], JC [auth L1], KB [auth L1], KC [auth L1], LB [auth L1], LC [auth L1], MB [auth L1], MC [auth L1], NB [auth L1], NC [auth L1], OB [auth L1], OC [auth L1], PB [auth L1], PC [auth L1], QB [auth L1], QC [auth L1], RB [auth L1], RC [auth L1], SB [auth L1], SC [auth L1], TB [auth L1], TC [auth L1], UB [auth L1], UC [auth L1], VB [auth L1], VC [auth L1], WB [auth L1], WC [auth L1], XB [auth L1], XC [auth L1], YB [auth L1], YC [auth L1], ZB [auth L1], ZC [auth L1]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain AC [auth L1] Focus chain AD [auth L1] Focus chain BC [auth L1] Focus chain CC [auth L1] Focus chain DC [auth L1] Focus chain DD [auth SI] Focus chain EC [auth L1] Focus chain FC [auth L1] Focus chain GC [auth L1] Focus chain HB [auth L1] Focus chain HC [auth L1] Focus chain IB [auth L1] Focus chain IC [auth L1] Focus chain JB [auth L1] Focus chain JC [auth L1] Focus chain KB [auth L1] Focus chain KC [auth L1] Focus chain LB [auth L1] Focus chain LC [auth L1] Focus chain MB [auth L1] Focus chain MC [auth L1] Focus chain NB [auth L1] Focus chain NC [auth L1] Focus chain OB [auth L1] Focus chain OC [auth L1] Focus chain PB [auth L1] Focus chain PC [auth L1] Focus chain QB [auth L1] Focus chain QC [auth L1] Focus chain RB [auth L1] Focus chain RC [auth L1] Focus chain SB [auth L1] Focus chain SC [auth L1] Focus chain TB [auth L1] Focus chain TC [auth L1] Focus chain UB [auth L1] Focus chain UC [auth L1] Focus chain VB [auth L1] Focus chain VC [auth L1] Focus chain WB [auth L1] Focus chain WC [auth L1] Focus chain XB [auth L1] Focus chain XC [auth L1] Focus chain YB [auth L1] Focus chain YC [auth L1] Focus chain ZB [auth L1] Focus chain ZC [auth L1] Interactions & Density Focus chain AC [auth L1] Focus chain AD [auth L1] Focus chain BC [auth L1] Focus chain CC [auth L1] Focus chain DC [auth L1] Focus chain DD [auth SI] Focus chain EC [auth L1] Focus chain FC [auth L1] Focus chain GC [auth L1] Focus chain HB [auth L1] Focus chain HC [auth L1] Focus chain IB [auth L1] Focus chain IC [auth L1] Focus chain JB [auth L1] Focus chain JC [auth L1] Focus chain KB [auth L1] Focus chain KC [auth L1] Focus chain LB [auth L1] Focus chain LC [auth L1] Focus chain MB [auth L1] Focus chain MC [auth L1] Focus chain NB [auth L1] Focus chain NC [auth L1] Focus chain OB [auth L1] Focus chain OC [auth L1] Focus chain PB [auth L1] Focus chain PC [auth L1] Focus chain QB [auth L1] Focus chain QC [auth L1] Focus chain RB [auth L1] Focus chain RC [auth L1] Focus chain SB [auth L1] Focus chain SC [auth L1] Focus chain TB [auth L1] Focus chain TC [auth L1] Focus chain UB [auth L1] Focus chain UC [auth L1] Focus chain VB [auth L1] Focus chain VC [auth L1] Focus chain WB [auth L1] Focus chain WC [auth L1] Focus chain XB [auth L1] Focus chain XC [auth L1] Focus chain YB [auth L1] Focus chain YC [auth L1] Focus chain ZB [auth L1] Focus chain ZC [auth L1]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 4.17 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2025-11-05

Deposition Author(s):

Buzovetsky, O.

Klinge, S.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	5R01GM145950-03
Chan Zuckerberg Initiative	United States	2023-332391

Revision History (Full details and data files)

Version 1.0: 2025-11-05
Type: Initial release

RCSB PDB is hosted by

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

9N78 | pdb_00009n78

SSU processome maturation and disassembly, State L

Literature

Mechanism of helicase-mediated SSU processome maturation and disassembly

Biological Assembly 1

Macromolecules

Entity ID: 4

UniProt

Entity Groups

Sequence Annotations

Entity ID: 5

UniProt

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Entity ID: 6

UniProt

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Entity ID: 7

UniProt

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Entity ID: 8

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Entity ID: 9

UniProt

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Entity ID: 10

UniProt

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Entity ID: 11

UniProt

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Entity ID: 12

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Entity ID: 13

UniProt

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Entity ID: 14

UniProt

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Entity ID: 15

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Entity ID: 16

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Entity ID: 17

UniProt

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Entity ID: 18

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Entity ID: 19

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Entity ID: 20

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Entity ID: 21

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Entity ID: 22

UniProt