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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

6LQR

Cryo-EM structure of 90S small subunit preribosomes in transition states (State C)

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
13AU3 snoRNApolymer333106503.31Saccharomyces cerevisiae S288C (Baker's yeast)
25A5' ETSpolymer700225543.11Saccharomyces cerevisiae S288C (Baker's yeast)
3SA18S pre-rRNApolymer1809582710.91Saccharomyces cerevisiae S288C (Baker's yeast)
4SC40S ribosomal protein S1-Apolymer25528798.51UniProt (P33442)
Pfam (PF01015)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Rps1, RP10A
5SF40S ribosomal protein S4-Apolymer26129469.31UniProt (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
6SG40S ribosomal protein S5polymer22525072.61UniProt (P26783)
Pfam (PF00177)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Rps5, RP14,S2,YS8
7SH40S ribosomal protein S6-Apolymer23627054.51UniProt (P0CX37)
Pfam (PF01092)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Rps6, RP9,S10,YS4
8SI40S ribosomal protein S7-Apolymer19021658.21UniProt (P26786)
Pfam (PF01251)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Rps7, RP30,RP40
9SJ40S ribosomal protein S8-Apolymer20022537.81UniProt (P0CX39)
Pfam (PF01201)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Rps8, RP19,S14,YS9
10SK40S ribosomal protein S9-Apolymer19722487.91UniProt (O13516)
Pfam (PF00163)
Pfam (PF01479)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Rps9, RP21,S13,YP28,YS11
11SM40S ribosomal protein S11-Apolymer15617785.91UniProt (P0CX47)
Pfam (PF16205)
Pfam (PF00366)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Rps11, RP41,S18,YS12
12SO40S ribosomal protein S13polymer15117059.91UniProt (P05756)
Pfam (PF08069)
Pfam (PF00312)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Rps13, S27a,YS15
13SP40S ribosomal protein S14-Apolymer13714562.71UniProt (P06367)
Pfam (PF00411)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Rps14, RP59A
14SR40S ribosomal protein S16-Apolymer14315877.51UniProt (P0CX51)
Pfam (PF00380)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Rps16, RP61R
15SX40S ribosomal protein S22-Bpolymer13014650.11UniProt (Q3E7Y3)
Pfam (PF00410)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Rps22, RP50,S24,Small ribosomal subunit protein uS8-B,YP58,YS22
16SY40S ribosomal protein S23-Apolymer14516073.91UniProt (P0CX29)
Pfam (PF00164)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Rps23, RP37,S28,YS14
17SZ40S ribosomal protein S24-Apolymer13515362.81UniProt (P0CX31)
Pfam (PF01282)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Rps24,RP50
18Sc40S ribosomal protein S27-Apolymer828893.41UniProt (P35997)
Pfam (PF01667)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Rps27, RP61,YS20
19Sd40S ribosomal protein S28-Apolymer677605.81UniProt (Q3E7X9)
Pfam (PF01200)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Rps28, S33,YS27
203B, 3CrRNA 2'-O-methyltransferase fibrillarinpolymer32734525.42UniProt (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
213DNucleolar protein 56polymer50456961.21UniProt (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
223ENucleolar protein 58polymer51157060.31UniProt (Q12499)
Pfam (PF08156)
Pfam (PF01798)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Nucleolar protein 5
233FRibosomal RNA-processing protein 9polymer57365147.01UniProt (Q06506)
Pfam (PF00400)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Rrp9
243G, 3H13 kDa ribonucleoprotein-associated proteinpolymer12613582.92UniProt (P39990)
Pfam (PF01248)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Snu13, Small nuclear ribonucleoprotein-associated protein 1
25A4U3 small nucleolar RNA-associated protein 4polymer77687909.21UniProt (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
26A5U3 small nucleolar RNA-associated protein 5polymer64372079.41UniProt (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
27A8U3 small nucleolar RNA-associated protein 8polymer71380269.61UniProt (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
28A9U3 small nucleolar RNA-associated protein 9polymer57565347.31UniProt (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
29AEU3 small nucleolar RNA-associated protein 10polymer1769200299.01UniProt (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
30AFU3 small nucleolar RNA-associated protein 15polymer51357765.31UniProt (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
31AGNET1-associated nuclear protein 1polymer896101341.71UniProt (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
32B1Periodic tryptophan protein 2polymer923104097.01UniProt (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
33B2U3 small nucleolar RNA-associated protein 12polymer943106481.11UniProt (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
34B3U3 small nucleolar RNA-associated protein 13polymer81791132.61UniProt (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
35B8U3 small nucleolar RNA-associated protein 18polymer59466494.31UniProt (P40362)
Pfam (PF00400)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 18,U three protein 18
36BEU3 small nucleolar RNA-associated protein 21polymer939104927.81UniProt (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
37B6U3 small nucleolar RNA-associated protein 6polymer44052495.31UniProt (Q02354)
Pfam (PF08640)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 6,U three protein 6
385BBud site selection protein 21polymer21424431.01UniProt (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
395CU3 small nucleolar RNA-associated protein 7polymer55462418.61UniProt (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
405DU3 small nucleolar RNA-associated protein 11polymer25029806.31UniProt (P34247)
Pfam (PF03998)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 11,U three protein 11
415EU3 small nucleolar RNA-associated protein MPP10polymer59367042.51UniProt (P47083)
Pfam (PF04006)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein MPP10,M phase phosphoprotein 10
425FU3 small nucleolar ribonucleoprotein protein IMP3polymer18321928.51UniProt (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
435GU3 small nucleolar ribonucleoprotein protein IMP4polymer29033536.21UniProt (P53941)
Pfam (PF04427)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNP protein IMP4,Interacting with MPP10 protein 4
445HSomething about silencing protein 10polymer61070364.41UniProt (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
455IProtein SOF1polymer48956888.91UniProt (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
465JrRNA-processing protein FCF2polymer21725689.21UniProt (Q12035)
Pfam (PF08698)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)FAF1 copurifying factor 2
475KrRNA-processing protein FCF1polymer18921650.71UniProt (Q05498)
Pfam (PF04900)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)FAF1-copurifying factor 1
48RARibosome biogenesis protein ENP2polymer70781864.21UniProt (P48234)
Pfam (PF08159)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Essential nuclear protein 2
49RBU3 small nucleolar ribonucleoprotein protein LCP5polymer35740864.41UniProt (P40079)
Pfam (PF04000)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
50RDrRNA biogenesis protein RRP5polymer1729193411.41UniProt (Q05022)
Pfam (PF00575)
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
51REU3 small nucleolar RNA-associated protein 22polymer1237140660.11UniProt (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
52RFRibosomal RNA-processing protein 7polymer29734526.41UniProt (P25368)
Pfam (PF17799)
Pfam (PF12923)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
53RG, RHRibosomal RNA small subunit methyltransferase NEP1polymer25227936.52UniProt (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
54RJRibosome biogenesis protein BMS1polymer1183135792.31UniProt (Q08965)
Pfam (PF00004)
Pfam (PF08142)
Pfam (PF04950)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
55RKRNA 3'-terminal phosphate cyclase-like proteinpolymer36740220.61UniProt (Q08096)
Pfam (PF01137)
Pfam (PF05189)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
56RL, RMRNA cytidine acetyltransferasepolymer1056119509.42UniProt (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
57RNNucleolar complex protein 14polymer81094463.21UniProt (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
58RONucleolar complex protein 4polymer55263707.81UniProt (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
59RPU3 small nucleolar RNA-associated protein 20polymer2493287915.51UniProt (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
60RQU3 small nucleolar RNA-associated protein 14polymer899103189.81UniProt (Q04500)
Pfam (PF04615)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 14,U three protein 14
61RSEssential nuclear protein 1polymer48355207.41UniProt (P38333)
Pfam (PF05291)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
62RTPno1polymer32636356.51Saccharomyces cerevisiae S288C (Baker's yeast)
63RYProtein BFR2polymer53461285.01UniProt (Q06631)
Pfam (PF13339)
Pfam (PF08164)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Brefeldin A resistance protein 2
64X1Unassigned helicespolymer34729549.31Saccharomyces cerevisiae S288C (Baker's yeast)
65Sc, 5KZINC IONnon-polymer65.42Chemie (ZN)
66RJGUANOSINE-5'-TRIPHOSPHATEnon-polymer523.21Chemie (GTP)
67RJMAGNESIUM IONnon-polymer24.31Chemie (MG)
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains68
Total formula weight4793394.9
Non-Polymers*Number of molecules4
Total formula weight678.3
All*Total formula weight4794073.2
*Water molecules are not included.

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PDB entries from 2024-04-17

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