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SummaryStructural detailsExperimental detailsFunctional detailsSequence NeighborHistoryDownloads

3JB9

Cryo-EM structure of the yeast spliceosome at 3.6 angstrom resolution

Entity
Entity IDChain IDDescriptionTypeChain lengthFormula weightNumber of moleculesDB Name (Accession)Biological sourceDescriptive keywords
1APre-mRNA-splicing factor spp42polymer2363274917.81UniProt (O14187)
Pfam (PF08082)
Pfam (PF08083)
Pfam (PF10598)
Pfam (PF10597)
Pfam (PF10596)
Pfam (PF12134)
Pfam (PF01398)
Pfam (PF08084)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Complexed with cdc5 protein 6
2BPre-mRNA-splicing factor cwf10polymer984111445.31UniProt (O94316)
Pfam (PF00009)
Pfam (PF03144)
Pfam (PF03764)
Pfam (PF00679)
Pfam (PF16004)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)114 kDa U5 small nuclear ribonucleoprotein component homolog, Complexed with cdc5 protein 10
3CU5 snRNApolymer12038191.41Schizosaccharomyces pombe (Fission yeast)
4D, ZSmall nuclear ribonucleoprotein Sm D3polymer9711050.92UniProt (Q9UUC6)
Pfam (PF01423)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Sm-D3, snRNP core protein D3
5E, bSmall nuclear ribonucleoprotein-associated protein Bpolymer14715493.02UniProt (Q10163)
Pfam (PF01423)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)snRNP-B, Sm protein B, Sm-B, SmB
6F, fSmall nuclear ribonucleoprotein Sm D1polymer11713115.42UniProt (O42661)
Pfam (PF01423)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Sm-D1, snRNP core protein D1
7G, lSmall nuclear ribonucleoprotein Sm D2polymer11513119.32UniProt (O14036)
Pfam (PF01423)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Sm-D2, Complexed with cdc5 protein 9, snRNP core protein D2
8H, mSmall nuclear ribonucleoprotein Epolymer849702.42UniProt (Q9USZ3)
Pfam (PF01423)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)snRNP-E, Sm protein E, Sm-E, SmE
9I, nSmall nuclear ribonucleoprotein Fpolymer788667.12UniProt (O59734)
Pfam (PF01423)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)snRNP-F, Sm protein F, Sm-F, SmF
10J, oSmall nuclear ribonucleoprotein Gpolymer778616.02UniProt (O74966)
Pfam (PF01423)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)snRNP-G, Sm protein G, Sm-G, SmG
11KPre-mRNA-splicing factor prp5polymer47348909.71UniProt (O13615)
Pfam (PF00400)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Complexed with cdc5 protein 1, Pre-mRNA-processing protein 5
12LPre-mRNA-splicing factor cwf17polymer34037477.21UniProt (O94620)
Pfam (PF00400)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Complexed with cdc5 protein 17
13MPre-mRNA-processing protein 45polymer55762798.21UniProt (Q09882)
Pfam (PF02731)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Complexed with cdc5 protein 13, Transcriptional coregulator snw1
14NU6 snRNApolymer9931864.01Schizosaccharomyces pombe (Fission yeast)
15ORNA (5'-R(P*GP*UP*AP*UP*GP*UP*AP*U)-3')polymer82528.51Schizosaccharomyces pombe (Fission yeast)
16QRNA (5'-R(P*UP*UP*UP*AP*UP*AP*CP*UP*AP*AP*CP*AP*C)-3')polymer134047.41Schizosaccharomyces pombe (Fission yeast)
17PU2 snRNApolymer18659207.51Schizosaccharomyces pombe (Fission yeast)
18S, T, U, VPre-mRNA-processing factor 19polymer48854244.04UniProt (O14011)
Pfam (PF08606)
Pfam (PF00400)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Complexed with cdc5 protein 8
19WPre-mRNA-splicing factor cdc5polymer75775128.11UniProt (P39964)
Pfam (PF00249)
Pfam (PF11831)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Cell division control protein 5
20YPre-mRNA-splicing factor cwf2polymer38841838.91UniProt (P87126)
Pfam (PF16131)
Pfam (PF00076)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Complexed with cdc5 protein 2, Pre-mRNA-processing protein 3
21aPre-mRNA-splicing factor cwf5polymer35437133.51UniProt (O59800)
Pfam (PF21369)
Pfam (PF00076)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Complexed with cdc5 protein 5
22cPre-mRNA-splicing factor cwf19polymer63974547.51UniProt (Q09909)
Pfam (PF04677)
Pfam (PF04676)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Complexed with cdc5 protein 19
23dPeptidyl-prolyl cis-trans isomerase ppi1polymer15516884.21UniProt (P87051)
Pfam (PF00160)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)PPIase ppi1, Cyclophilin ppi1, Rotamase ppi1
24ePre-mRNA-splicing factor cwf14polymer14617122.81UniProt (O74772)
Pfam (PF01125)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Complexed with cdc5 protein 14
25gPre-mRNA-processing factor 17polymer55863211.31UniProt (O43071)
Pfam (PF00400)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)
26hPre-mRNA-splicing factor cwf15polymer26530479.01UniProt (P78794)
Pfam (PF04889)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Complexed with cdc5 protein 15
27iPre-mRNA-splicing factor cwf7polymer18721348.21UniProt (Q9USV3)
Pfam (PF05700)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Complexed with cdc5 protein 7, Splicing factor 27
28RPre-mRNA-splicing factor cwf4polymer67467082.71UniProt (P87312)
Pfam (PF14559)
Pfam (PF02184)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Complexed with cdc5 protein 4
29rPre-mRNA-splicing factor cwf3polymer79072172.11UniProt (Q9P7R9)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Complexed with cdc5 protein 3
30XPre-mRNA-splicing factor cwf11polymer1284148532.91UniProt (O94508)
Pfam (PF16399)
Pfam (PF13087)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)Complexed with cdc5 protein 11
31jU2 small nuclear ribonucleoprotein A'polymer23927260.41UniProt (Q9USX8)
Pfam (PF12799)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)U2 snRNP A'
32kProbable U2 small nuclear ribonucleoprotein B''polymer11112685.71UniProt (Q7LL14)
Pfam (PF00076)
In PDB		Schizosaccharomyces pombe 972h- (Fission yeast)U2 snRNP B''
33xunknown chainpolymer41235081.21Schizosaccharomyces pombe 972h- (Fission yeast)
34BGUANOSINE-5'-DIPHOSPHATEnon-polymer443.21Chemie (GDP)
35NMAGNESIUM IONnon-polymer24.34Chemie (MG)
36e, Y, a, cZINC IONnon-polymer65.47Chemie (ZN)
37XADENOSINE-5'-DIPHOSPHATEnon-polymer427.21Chemie (ADP)
Sequence modifications
K: 1 - 148 (PDB: 3JB9)
K: 149 - 473 (UniProt: O13615)
W: 1 - 236 (UniProt: P39964)
W: 237 - 651 (PDB: 3JB9)
W: 652 - 757 (UniProt: P39964)
Y: 1 - 289 (UniProt: P87126)
Y: 290 - 388 (PDB: 3JB9)
a: 1 - 151 (UniProt: O59800)
a: 152 - 177 (PDB: 3JB9)
a: 178 - 285 (UniProt: O59800)
a: 286 - 354 (PDB: 3JB9)
R: 1 - 40 (PDB: 3JB9)
R: 41 - 290 (UniProt: P87312)
R: 291 - 674 (PDB: 3JB9)
r: 1 - 497 (PDB: 3JB9)
r: 498 - 653 (UniProt: Q9P7R9)
r: 654 - 790 (PDB: 3JB9)
Sequence viewer
Contents of the asymmetric unit
PolymersNumber of chains43
Total formula weight1788399.6
Non-Polymers*Number of molecules13
Total formula weight1425.5
All*Total formula weight1789825.1
*Water molecules are not included.

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PDB entries from 2024-04-24

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