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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

6ZQF

Cryo-EM structure of the 90S pre-ribosome from Saccharomyces cerevisiae, state Dis-B (Poly-Ala)

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1UAPeriodic 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
2UBNucleolar 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
3UCSomething 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
4ULU3 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
5UMU3 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
6USNucleolar 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
7UUU3 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
8UVU3 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
9CIU3 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
10CJU3 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
11CKU3 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
12CLRibosome biogenesis protein BMS1polymer1183135792.31UniProt (Q08965)
Pfam (PF00004)
Pfam (PF08142)
Pfam (PF04950)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
13CMRNA 3'-terminal phosphate cyclase-like proteinpolymer36740220.61UniProt (Q08096)
Pfam (PF01137)
Pfam (PF05189)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
14CNRibosomal RNA-processing protein 7polymer29734526.41UniProt (P25368)
Pfam (PF17799)
Pfam (PF12923)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
15JDProbable ATP-dependent RNA helicase DHR1polymer1267145171.41UniProt (Q04217)
Pfam (PF00270)
Pfam (PF00271)
Pfam (PF04408)
Pfam (PF21010)
Pfam (PF07717)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)DEAH box RNA helicase DHR1,Extracellular mutant protein 16
16JF, JGRibosomal 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
17JHEssential nuclear protein 1polymer48355207.41UniProt (P38333)
Pfam (PF05291)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
18JLDimethyladenosine transferasepolymer31836003.81UniProt (P41819)
Pfam (PF00398)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)18S rRNA (adenine(1779)-N(6)/adenine(1780)-N(6))-dimethyltransferase,18S rRNA dimethylase,S-adenosylmethionine-6-N',N'-adenosyl(rRNA) dimethyltransferase
19JJPre-rRNA-processing protein PNO1polymer27430380.61UniProt (Q99216)
Pfam (PF17903)
Pfam (PF22891)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Partner of NOB1,Ribosomal RNA-processing protein 20
20DFRps5ppolymer22525072.61UniProt (P26783)
Pfam (PF00177)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
21DQ40S ribosomal protein S16-Apolymer14315877.51UniProt (P0CX51)
Pfam (PF00380)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP61R,Small ribosomal subunit protein uS9-A
22DS40S ribosomal protein S18-Apolymer14617071.61UniProt (P0CX55)
Pfam (PF00416)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Small ribosomal subunit protein uS13-A
23DT40S ribosomal protein S19-Apolymer14415942.11UniProt (P07280)
Pfam (PF01090)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP55A,S16a,Small ribosomal subunit protein eS19-A,YP45,YS16A
24Dc40S ribosomal protein S28-Apolymer677605.81UniProt (Q3E7X9)
Pfam (PF01200)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)S33,Small ribosomal subunit protein eS28-A,YS27
25D25ETS RNApolymer206441.81Saccharomyces cerevisiae S288C
26D318S rRNApolymer1758566062.21Saccharomyces cerevisiae S288C
27DA40S ribosomal protein S1-Apolymer25528798.51UniProt (P33442)
Pfam (PF01015)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP10A,Small ribosomal subunit protein eS1-A
28DE40S 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)RP5,S7,Small ribosomal subunit protein eS4-A,YS6
29DG40S ribosomal protein S6-Apolymer23627054.51UniProt (P0CX37)
Pfam (PF01092)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP9,S10,Small ribosomal subunit protein eS6-A,YS4
30DH40S ribosomal protein S7-Apolymer19021658.21UniProt (P26786)
Pfam (PF01251)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP30,RP40,Small ribosomal subunit protein eS7-A
31DI40S ribosomal protein S8-Apolymer20022537.81UniProt (P0CX39)
Pfam (PF01201)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP19,S14,Small ribosomal subunit protein eS8-A,YS9
32DJ40S ribosomal protein S9-Apolymer19722487.91UniProt (O13516)
Pfam (PF00163)
Pfam (PF01479)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP21,S13,Small ribosomal subunit protein uS4-A,YP28,YS11
33DL40S ribosomal protein S11-Apolymer15617785.91UniProt (P0CX47)
Pfam (PF16205)
Pfam (PF00366)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP41,S18,Small ribosomal subunit protein uS17-A,YS12
34DN40S ribosomal protein S13polymer15117059.91UniProt (P05756)
Pfam (PF08069)
Pfam (PF00312)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)S27a,Small ribosomal subunit protein uS15,YS15
35DO40S ribosomal protein S14-Apolymer13714562.71UniProt (P06367)
Pfam (PF00411)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP59A,Small ribosomal subunit protein uS11-A
36DZ40S ribosomal protein S25-Apolymer10812067.31UniProt (Q3E792)
Pfam (PF03297)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP45,S31,Small ribosomal subunit protein eS25-A,YS23
37DW40S ribosomal protein S22-Apolymer13014650.11UniProt (P0C0W1)
Pfam (PF00410)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP50,S24,Small ribosomal subunit protein uS8-A,YP58,YS22
38DX40S ribosomal protein S23-Apolymer14516073.91UniProt (P0CX29)
Pfam (PF00164)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP37,S28,Small ribosomal subunit protein uS12-A,YS14
39DY40S ribosomal protein S24-Apolymer13515362.81UniProt (P0CX31)
Pfam (PF01282)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP50,Small ribosomal subunit protein eS24-A
40Db40S ribosomal protein S27-Apolymer828893.41UniProt (P35997)
Pfam (PF01667)
In PDB		Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP61,Small ribosomal subunit protein eS27-A,YS20
41D4U3 snoRNApolymer3511187.71Saccharomyces cerevisiae S288C
42DbZINC IONnon-polymer65.41Chemie (ZN)
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains42
Total formula weight2365240.5
Non-Polymers*Number of molecules1
Total formula weight65.4
All*Total formula weight2365305.9
*Water molecules are not included.

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PDB entries from 2024-10-09

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