Loading
PDBj
MenuPDBj@FacebookPDBj@X(formerly Twitter)PDBj@BlueSkyPDBj@YouTubewwPDB FoundationwwPDBDonate
RCSB PDBPDBeBMRBAdv. SearchSearch help

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
1A, D
(CA, CB)
rRNA 2'-O-methyltransferase fibrillarinpolymer32734525.42UniProt (P15646)
Pfam (PF01269)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Histone-glutamine methyltransferase,U3 small nucleolar RNA-associated protein NOP1,U3 snoRNA-associated protein NOP1
2B
(DA)
40S ribosomal protein S1-Apolymer25528798.51UniProt (P33442)
Pfam (PF01015)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP10A,Small ribosomal subunit protein eS1-A
3C
(UA)
Periodic tryptophan protein 2polymer923104097.01UniProt (P25635)
Pfam (PF00400)
Pfam (PF04003)
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
4E
(UB)
Nucleolar complex protein 14polymer81094463.21UniProt (Q99207)
Pfam (PF04147)
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
5F
(UC)
Something about silencing protein 10polymer61070364.41UniProt (Q12136)
Pfam (PF04000)
Pfam (PF09368)
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
6G
(UD)
U3 small nucleolar RNA-associated protein 4polymer77687909.21UniProt (Q06679)
Pfam (PF00400)
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
7H
(UE)
U3 small nucleolar RNA-associated protein 5polymer64372079.41UniProt (Q04177)
Pfam (PF04003)
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
8I
(UF)
U3 small nucleolar RNA-associated protein 6polymer44052495.31UniProt (Q02354)
Pfam (PF08640)
Pfam (PF23240)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 6,U three protein 6
9J
(UG)
U3 small nucleolar RNA-associated protein 7polymer55462418.61UniProt (P40055)
Pfam (PF00400)
Pfam (PF08149)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 7,U three protein 7
10K
(UH)
U3 small nucleolar RNA-associated protein 8polymer71380269.61UniProt (P53276)
Pfam (PF10395)
Pfam (PF22542)
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
11L
(UI)
U3 small nucleolar RNA-associated protein 9polymer57565347.31UniProt (P38882)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
12M
(UJ)
U3 small nucleolar RNA-associated protein 10polymer1769200299.01UniProt (P42945)
Pfam (PF12397)
Pfam (PF23243)
Pfam (PF08146)
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
13N
(UK)
U3 small nucleolar RNA-associated protein 11polymer25029806.31UniProt (P34247)
Pfam (PF03998)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 11,U three protein 11
14O
(UL)
U3 small nucleolar RNA-associated protein 12polymer943106481.11UniProt (Q12220)
Pfam (PF00400)
Pfam (PF04003)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 12,DOM34-interacting protein 2,U three protein 12
15P
(UM)
U3 small nucleolar RNA-associated protein 13polymer81791132.61UniProt (Q05946)
Pfam (PF00400)
Pfam (PF08625)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 13,U three protein 13
16Q
(UN)
U3 small nucleolar RNA-associated protein 14polymer899103189.81UniProt (Q04500)
Pfam (PF04615)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 14,U three protein 14
17R
(UO)
U3 small nucleolar RNA-associated protein 15polymer51357765.31UniProt (Q04305)
Pfam (PF00400)
Pfam (PF09384)
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
18S
(UP)
Bud site selection protein 21polymer21424431.01UniProt (Q08492)
Pfam (PF08297)
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
19T
(UQ)
NET1-associated nuclear protein 1polymer896101341.71UniProt (Q02931)
Pfam (PF00400)
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
20U
(UR)
U3 small nucleolar RNA-associated protein 18polymer59466494.31UniProt (P40362)
Pfam (PF00400)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 18,U three protein 18
21V
(US)
Nucleolar complex protein 4polymer55263707.81UniProt (Q06512)
Pfam (PF03914)
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
22W
(UT)
U3 small nucleolar RNA-associated protein 20polymer2493287915.51UniProt (P35194)
Pfam (PF07539)
Pfam (PF20416)
Pfam (PF23099)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 20,U three protein 20
23X
(UU)
U3 small nucleolar RNA-associated protein 21polymer939104927.81UniProt (Q06078)
Pfam (PF00400)
Pfam (PF04192)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 21,U three protein 21
24Y
(UV)
U3 small nucleolar RNA-associated protein 22polymer1237140660.11UniProt (P53254)
Pfam (PF03813)
Pfam (PF17403)
Pfam (PF17404)
Pfam (PF17405)
Pfam (PF17406)
Pfam (PF17407)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein 22,U three protein 22
25Z
(UX)
rRNA-processing protein FCF1polymer18921650.71UniProt (Q05498)
Pfam (PF04900)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)FAF1-copurifying factor 1
26AA
(CD)
Nucleolar protein 56polymer50456961.21UniProt (Q12460)
Pfam (PF08156)
Pfam (PF01798)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Ribosome biosynthesis protein SIK1,Suppressor of I kappa b protein 1
27BA
(CE)
Nucleolar protein 58polymer51157060.31UniProt (Q12499)
Pfam (PF08156)
Pfam (PF01798)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Nucleolar protein 5
28CA, DA
(CF, CG)
13 kDa ribonucleoprotein-associated proteinpolymer12613582.92UniProt (P39990)
Pfam (PF01248)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Small nuclear ribonucleoprotein-associated protein 1
29EA
(CH)
Ribosomal RNA-processing protein 9polymer57365147.01UniProt (Q06506)
Pfam (PF00400)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
30FA
(CI)
U3 small nucleolar ribonucleoprotein protein IMP3polymer18321928.51UniProt (P32899)
Pfam (PF01479)
Pfam (PF00163)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNP protein IMP3,Interacting with MPP10 protein 3
31GA
(CJ)
U3 small nucleolar ribonucleoprotein protein IMP4polymer29033536.21UniProt (P53941)
Pfam (PF04427)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNP protein IMP4,Interacting with MPP10 protein 4
32HA
(CK)
U3 small nucleolar RNA-associated protein MPP10polymer59367042.51UniProt (P47083)
Pfam (PF04006)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 snoRNA-associated protein MPP10,M phase phosphoprotein 10
33IA
(CL)
Ribosome biogenesis protein BMS1polymer1183135792.31UniProt (Q08965)
Pfam (PF00004)
Pfam (PF08142)
Pfam (PF04950)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
34JA
(CM)
RNA 3'-terminal phosphate cyclase-like proteinpolymer36740220.61UniProt (Q08096)
Pfam (PF01137)
Pfam (PF05189)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
35KA
(CN)
Ribosomal RNA-processing protein 7polymer29734526.41UniProt (P25368)
Pfam (PF17799)
Pfam (PF12923)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
36LA
(JD)
Probable ATP-dependent RNA helicase DHR1polymer1267145171.41UniProt (Q04217)
Pfam (PF00270)
Pfam (PF00271)
Pfam (PF04408)
Pfam (PF21010)
Pfam (PF07717)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)DEAH box RNA helicase DHR1,Extracellular mutant protein 16
37MA, NA
(JF, JG)
Ribosomal RNA small subunit methyltransferase NEP1polymer25227936.52UniProt (Q06287)
Pfam (PF03587)
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
38OA
(JH)
Essential nuclear protein 1polymer48355207.41UniProt (P38333)
Pfam (PF05291)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
39PA
(JI)
rRNA biogenesis protein RRP5polymer1729193411.41UniProt (Q05022)
Pfam (PF00575)
Pfam (PF23240)
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
40QA
(JL)
Dimethyladenosine transferasepolymer31836003.81UniProt (P41819)
Pfam (PF00398)
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
41RA
(JM)
rRNA-processing protein FCF2polymer21725689.21UniProt (Q12035)
Pfam (PF08698)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)FAF1 copurifying factor 2
42SA
(JP)
Protein SOF1polymer48956888.91UniProt (P33750)
Pfam (PF00400)
Pfam (PF04158)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)U3 small nucleolar RNA-associated protein SOF1,U3 snoRNA-associated protein SOF1
43TA
(Db)
40S ribosomal protein S27-Apolymer828893.41UniProt (P35997)
Pfam (PF01667)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP61,Small ribosomal subunit protein eS27-A,YS20
44UA
(JJ)
Pre-rRNA-processing protein PNO1polymer27430380.61UniProt (Q99216)
Pfam (PF17903)
Pfam (PF22891)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Partner of NOB1,Ribosomal RNA-processing protein 20
45VA
(DE)
40S ribosomal protein S4-Apolymer26129469.31UniProt (P0CX35)
Pfam (PF08071)
Pfam (PF01479)
Pfam (PF00900)
Pfam (PF00467)
Pfam (PF16121)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP5,S7,Small ribosomal subunit protein eS4-A,YS6
46WA
(DF)
40S ribosomal protein S5polymer22525072.61UniProt (P26783)
Pfam (PF00177)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP14,S2,Small ribosomal subunit protein uS7,YS8
47XA
(DG)
40S ribosomal protein S6-Apolymer23627054.51UniProt (P0CX37)
Pfam (PF01092)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP9,S10,Small ribosomal subunit protein eS6-A,YS4
48YA
(DH)
40S ribosomal protein S7-Apolymer19021658.21UniProt (P26786)
Pfam (PF01251)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP30,RP40,Small ribosomal subunit protein eS7-A
49ZA
(DI)
40S ribosomal protein S8-Apolymer20022537.81UniProt (P0CX39)
Pfam (PF01201)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP19,S14,Small ribosomal subunit protein eS8-A,YS9
50AB
(DJ)
40S ribosomal protein S9-Apolymer19722487.91UniProt (O13516)
Pfam (PF00163)
Pfam (PF01479)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP21,S13,Small ribosomal subunit protein uS4-A,YP28,YS11
51BB
(DL)
40S ribosomal protein S11-Apolymer15617785.91UniProt (P0CX47)
Pfam (PF16205)
Pfam (PF00366)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP41,S18,Small ribosomal subunit protein uS17-A,YS12
52CB
(DN)
40S ribosomal protein S13polymer15117059.91UniProt (P05756)
Pfam (PF08069)
Pfam (PF00312)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)S27a,Small ribosomal subunit protein uS15,YS15
53DB
(DO)
40S ribosomal protein S14-Apolymer13714562.71UniProt (P06367)
Pfam (PF00411)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP59A,Small ribosomal subunit protein uS11-A
54EB
(DQ)
40S ribosomal protein S16-Apolymer14315877.51UniProt (P0CX51)
Pfam (PF00380)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP61R,Small ribosomal subunit protein uS9-A
55FB
(DS)
40S ribosomal protein S18-Apolymer14617071.61UniProt (P0CX55)
Pfam (PF00416)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Small ribosomal subunit protein uS13-A
56GB
(DT)
40S ribosomal protein S19-Apolymer14415942.11UniProt (P07280)
Pfam (PF01090)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP55A,S16a,Small ribosomal subunit protein eS19-A,YP45,YS16A
57HB
(DW)
40S ribosomal protein S22-Apolymer13014650.11UniProt (P0C0W1)
Pfam (PF00410)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP50,S24,Small ribosomal subunit protein uS8-A,YP58,YS22
58IB
(DX)
40S ribosomal protein S23-Apolymer14516073.91UniProt (P0CX29)
Pfam (PF00164)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP37,S28,Small ribosomal subunit protein uS12-A,YS14
59JB
(DY)
40S ribosomal protein S24-Apolymer13515362.81UniProt (P0CX31)
Pfam (PF01282)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)RP50,Small ribosomal subunit protein eS24-A
60KB
(Dc)
40S ribosomal protein S28-Apolymer677605.81UniProt (Q3E7X9)
Pfam (PF01200)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)S33,Small ribosomal subunit protein eS28-A,YS27
61LB
(D2)
5'ETS RNApolymer8126247.61Saccharomyces cerevisiae S288C
62MB
(D3)
18S rRNApolymer1802580420.41Saccharomyces cerevisiae S288C
63NB
(D4)
U3 snoRNApolymer333106503.31Saccharomyces cerevisiae S288C
64OB
(EA)
RNApolymer226852.01Saccharomyces cerevisiae S288C
65PB
(EB)
Exosome complex component RRP45polymer30534001.91UniProt (Q05636)
Pfam (PF01138)
Pfam (PF03725)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Ribosomal RNA-processing protein 45
66QB
(EC)
Exosome complex component SKI6polymer24627599.71UniProt (P46948)
Pfam (PF01138)
Pfam (PF03725)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Extracellular mutant protein 20,Ribosomal RNA-processing protein 41,Superkiller protein 6
67RB
(ED)
Exosome complex component RRP43polymer39444060.91UniProt (P25359)
Pfam (PF01138)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Ribosomal RNA-processing protein 43
68SB
(EE)
Exosome complex component RRP46polymer22324430.21UniProt (P53256)
Pfam (PF01138)
Pfam (PF03725)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Ribosomal RNA-processing protein 46
69TB
(EF)
Exosome complex component RRP42polymer26529085.21UniProt (Q12277)Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Ribosomal RNA-processing protein 42
70UB
(EG)
Exosome complex component MTR3polymer25027604.01UniProt (P48240)
Pfam (PF01138)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)mRNA transport regulator 3
71VB
(EH)
Exosome complex component RRP40polymer24026583.41UniProt (Q08285)
Pfam (PF18311)
Pfam (PF21262)
Pfam (PF15985)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Ribosomal RNA-processing protein 40
72WB
(EI)
Exosome complex component RRP4polymer35939470.21UniProt (P38792)
Pfam (PF14382)
Pfam (PF21266)
Pfam (PF15985)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Ribosomal RNA-processing protein 4
73XB
(EJ)
Exosome complex component CSL4polymer29231619.31UniProt (P53859)
Pfam (PF21551)
Pfam (PF10447)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)CEP1 synthetic lethal protein 4
74YB
(EK)
Exosome complex exonuclease DIS3polymer1001113857.71UniProt (Q08162)
Pfam (PF13638)
Pfam (PF17216)
Pfam (PF17849)
Pfam (PF00773)
Pfam (PF17215)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)Chromosome disjunction protein 3,Ribosomal RNA-processing protein 44
75ZB
(EN)
ATP-dependent RNA helicase DOB1polymer1073122228.01UniProt (P47047)
Pfam (PF00270)
Pfam (PF00271)
Pfam (PF21408)
Pfam (PF13234)
Pfam (PF08148)
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)mRNA transport regulator MTR4
76AC, DC, FC
(UX, Db, EK)
ZINC IONnon-polymer65.43Chemie (ZN)
77BC
(CL)
GUANOSINE-5'-TRIPHOSPHATEnon-polymer523.21Chemie (GTP)
78CC, EC
(CL, EK)
MAGNESIUM 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.

248636

PDB entries from 2026-02-04

PDB statisticsPDBj update infoContact PDBjnumon