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7AJU

Cryo-EM structure of the 90S-exosome super-complex (state Post-A1-exosome)

This is a non-PDB format compatible entry.
Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1CA, CBrRNA 2'-O-methyltransferase fibrillarinpolymer32734525.42UniProt (P15646)
Pfam (PF01269)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Histone-glutamine methyltransferase,U3 small nucleolar RNA-associated protein NOP1,U3 snoRNA-associated protein NOP1
2DA40S 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
3UAPeriodic 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
4UBNucleolar 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
5UCSomething 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
6UDU3 small nucleolar RNA-associated protein 4polymer77687909.21UniProt (Q06679)
Pfam (PF00400)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 4,U three protein 4,U3 protein 4 required for transcription,t-UTP4
7UEU3 small nucleolar RNA-associated protein 5polymer64372079.41UniProt (Q04177)
Pfam (PF04003)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 5,U three protein 5,U3 protein 5 required for transcription,t-UTP5
8UFU3 small nucleolar RNA-associated protein 6polymer44052495.31UniProt (Q02354)
Pfam (PF08640)
Pfam (PF05843)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 6,U three protein 6
9UGU3 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
10UHU3 small nucleolar RNA-associated protein 8polymer71380269.61UniProt (P53276)
Pfam (PF10395)
Pfam (PF22542)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 8,U three protein 8,U3 protein 8 required for transcription,t-UTP8
11UIU3 small nucleolar RNA-associated protein 9polymer57565347.31UniProt (P38882)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 9,U three protein 9,U3 protein 9 required for transcription,t-UTP9
12UJU3 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
13UKU3 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
14ULU3 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
15UMU3 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
16UNU3 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
17UOU3 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
18UPBud 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
19UQNET1-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
20URU3 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
21USNucleolar 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
22UTU3 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
23UUU3 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
24UVU3 small nucleolar RNA-associated protein 22polymer1237140660.11UniProt (P53254)
Pfam (PF17405)
Pfam (PF17406)
Pfam (PF17407)
Pfam (PF03813)
Pfam (PF17403)
Pfam (PF17404)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 22,U three protein 22
25UXrRNA-processing protein FCF1polymer18921650.71UniProt (Q05498)
Pfam (PF04900)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)FAF1-copurifying factor 1
26CDNucleolar protein 56polymer50456961.21UniProt (Q12460)
Pfam (PF08156)
Pfam (PF01798)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Ribosome biosynthesis protein SIK1,Suppressor of I kappa b protein 1
27CENucleolar protein 58polymer51157060.31UniProt (Q12499)
Pfam (PF01798)
Pfam (PF08156)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Nucleolar protein 5
28CF, CG13 kDa ribonucleoprotein-associated proteinpolymer12613582.92UniProt (P39990)
Pfam (PF01248)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Small nuclear ribonucleoprotein-associated protein 1
29CHRibosomal RNA-processing protein 9polymer57365147.01UniProt (Q06506)
Pfam (PF00400)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
30CIU3 small nucleolar ribonucleoprotein protein IMP3polymer18321928.51UniProt (P32899)
Pfam (PF01479)
Pfam (PF00163)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNP protein IMP3,Interacting with MPP10 protein 3
31CJU3 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
32CKU3 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
33CLRibosome biogenesis protein BMS1polymer1183135792.31UniProt (Q08965)
Pfam (PF00004)
Pfam (PF08142)
Pfam (PF04950)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
34CMRNA 3'-terminal phosphate cyclase-like proteinpolymer36740220.61UniProt (Q08096)
Pfam (PF01137)
Pfam (PF05189)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
35CNRibosomal RNA-processing protein 7polymer29734526.41UniProt (P25368)
Pfam (PF17799)
Pfam (PF12923)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
36JDProbable ATP-dependent RNA helicase DHR1polymer1267145171.41UniProt (Q04217)
Pfam (PF04408)
Pfam (PF00270)
Pfam (PF00271)
Pfam (PF21010)
Pfam (PF07717)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)DEAH box RNA helicase DHR1,Extracellular mutant protein 16
37JF, 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
38JHEssential nuclear protein 1polymer48355207.41UniProt (P38333)
Pfam (PF05291)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
39JIrRNA biogenesis protein RRP5polymer1729193411.41UniProt (Q05022)
Pfam (PF00575)
Pfam (PF05843)
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
40JLDimethyladenosine 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
41JMrRNA-processing protein FCF2polymer21725689.21UniProt (Q12035)
Pfam (PF08698)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)FAF1 copurifying factor 2
42JPProtein 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
43Db40S 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
44JJPre-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
45DE40S 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
46DF40S ribosomal protein S5polymer22525072.61UniProt (P26783)
Pfam (PF00177)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP14,S2,Small ribosomal subunit protein uS7,YS8
47DG40S 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
48DH40S 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
49DI40S 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
50DJ40S 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
51DL40S 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
52DN40S 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
53DO40S 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
54DQ40S 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
55DS40S 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
56DT40S 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
57DW40S 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
58DX40S 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
59DY40S 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
60Dc40S 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
61D25'ETS RNApolymer8126247.61Saccharomyces cerevisiae S288C
62D318S rRNApolymer1802580420.41Saccharomyces cerevisiae S288C
63D4U3 snoRNApolymer333106503.31Saccharomyces cerevisiae S288C
64EARNApolymer226852.01Saccharomyces cerevisiae S288C
65EBExosome complex component RRP45polymer30534001.91UniProt (Q05636)
Pfam (PF01138)
Pfam (PF03725)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Ribosomal RNA-processing protein 45
66ECExosome complex component SKI6polymer24627599.71UniProt (P46948)
Pfam (PF01138)
Pfam (PF03725)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Extracellular mutant protein 20,Ribosomal RNA-processing protein 41,Superkiller protein 6
67EDExosome complex component RRP43polymer39444060.91UniProt (P25359)
Pfam (PF01138)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Ribosomal RNA-processing protein 43
68EEExosome complex component RRP46polymer22324430.21UniProt (P53256)
Pfam (PF01138)
Pfam (PF03725)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Ribosomal RNA-processing protein 46
69EFExosome complex component RRP42polymer26529085.21UniProt (Q12277)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Ribosomal RNA-processing protein 42
70EGExosome complex component MTR3polymer25027604.01UniProt (P48240)
Pfam (PF01138)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)mRNA transport regulator 3
71EHExosome complex component RRP40polymer24026583.41UniProt (Q08285)
Pfam (PF18311)
Pfam (PF21262)
Pfam (PF15985)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Ribosomal RNA-processing protein 40
72EIExosome complex component RRP4polymer35939470.21UniProt (P38792)
Pfam (PF14382)
Pfam (PF21266)
Pfam (PF15985)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Ribosomal RNA-processing protein 4
73EJExosome complex component CSL4polymer29231619.31UniProt (P53859)
Pfam (PF21551)
Pfam (PF10447)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)CEP1 synthetic lethal protein 4
74EKExosome complex exonuclease DIS3polymer1001113857.71UniProt (Q08162)
Pfam (PF13638)
Pfam (PF17216)
Pfam (PF17849)
Pfam (PF00773)
Pfam (PF17215)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Chromosome disjunction protein 3,Ribosomal RNA-processing protein 44
75ENATP-dependent RNA helicase DOB1polymer1073122228.01UniProt (P47047)
Pfam (PF00270)
Pfam (PF00271)
Pfam (PF21408)
Pfam (PF13234)
Pfam (PF08148)
In PDB
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)mRNA transport regulator MTR4
76UX, Db, EKZINC IONnon-polymer65.43Chemie (ZN)
77CLGUANOSINE-5'-TRIPHOSPHATEnon-polymer523.21Chemie (GTP)
78CL, EKMAGNESIUM IONnon-polymer24.32Chemie (MG)
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains78
Total formula weight4874832.8
Non-Polymers*Number of molecules6
Total formula weight768.0
All*Total formula weight4875600.8
*Water molecules are not included.

225681

PDB entries from 2024-10-02

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