Pre-mRNA-splicing factor CEF1 - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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Q03654 (CEF1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 107. History...

Clusters with 100%, 90%, 50% identity |

Documents (3) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Pre-mRNA-splicing factor CEF1

Alternative name(s):
PRP nineteen-associated complex protein 85
PRP19-associated complex protein 85

Gene names

Name:	CEF1
Synonyms:	NTC85
Ordered Locus Names:	YMR213W
ORF Names:	YM8261.07

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length	590 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Involved in pre-mRNA splicing and cell cycle control. Required for the binding of the NTC complex (or PRP19-associated complex) components to the spliceosome to mediate conformational rearrangement or to stabilize the structure of the spliceosome after U4 snRNA dissociation, which leads to spliceosome maturation. Its absence leads to an arrest of the cell cycle, possibly due to the inefficient splicing of TUB1. Ref.4 Ref.5 Ref.7 Ref.8
Subunit structure	Belongs to the NTC complex (or PRP19-associated complex), composed of at least CEF1, CLF1, ISY1, NTC20, SNT309, SYF1, SYF2, and PRP19. The NTC complex associates with the spliceosome after the release of the U1 and U4 snRNAs and forms the CWC spliceosome subcomplex reminiscent of a late-stage spliceosome composed also of the U2, U5 and U6 snRNAs and at least BUD13, BRR2, CDC40, CUS1, CWC2, CWC15, CWC21, CWC22, CWC23, CWC24, CWC25, CWC27, ECM2, HSH155, IST3, LEA1, MSL1, PRP8, PRP9, PRP11, PRP21, PRP22, PRP45, PRP46, SLU7, SMB1, SMD1, SMD2, SMD3, SMX2, SMX3, SNU114, SPP2, RSE1 and YJU2. Interacts with CLF1, ISY1, NTC20, PRP19, PRP46, SYF1 and SYF2. Ref.6 Ref.9 Ref.10 Ref.12
Subcellular location	Cytoplasm. Nucleus Ref.13.
Miscellaneous	Present with 784 molecules/cell in log phase SD medium. Ref.14
Sequence similarities	Belongs to the CEF1 family. Contains 2 HTH myb-type DNA-binding domains.

Ontologies

Keywords
Biological process	Cell cycle mRNA processing mRNA splicing
Cellular component	Cytoplasm Nucleus Spliceosome
Domain	Repeat
Ligand	DNA-binding
Technical term	Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological process	cell cycle Inferred from electronic annotation. Source: UniProtKB-KW nuclear mRNA splicing, via spliceosome Inferred from mutant phenotype Ref.4. Source: SGD regulation of transcription, DNA-dependent Inferred from electronic annotation. Source: InterPro
Cellular component	Prp19 complex Inferred from direct assay Ref.4. Source: SGD U2-type catalytic step 1 spliceosome Inferred from direct assay Ref.4. Source: SGD cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW protein binding Inferred from physical interaction Ref.11. Source: IntAct
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct
BUD31	P25337	5	EBI-476,EBI-547
CLF1	Q12309	9	EBI-476,EBI-484
CWC15	Q03772	3	EBI-476,EBI-36780
NTC20	P38302	2	EBI-476,EBI-20921
PRP19	P32523	9	EBI-476,EBI-493
SPP382	Q06411	3	EBI-476,EBI-576
SYF1	Q04048	5	EBI-476,EBI-540
SYF2	P53277	3	EBI-476,EBI-23308

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 590

590

Pre-mRNA-splicing factor CEF1

PRO_0000197107

Regions

Domain

1 – 60

HTH myb-type 1

Domain

63 – 110

HTH myb-type 2

DNA binding

33 – 56

H-T-H motif By similarity

DNA binding

84 – 106

H-T-H motif By similarity

Region

460 – 490

Interaction with PRP19 and self-interaction

Compositional bias

238 – 321

Lys-rich

Experimental info

Mutagenesis

W → G: No effect. Slower growth and thermosensitivity; when associated with G-84. Complete loss of function; when associated with G-52 and G-84. Complete loss of function; when associated with G-52; G-84 and G-102. Ref.7

Mutagenesis

W → G: No effect. Slower growth and thermosensitivity; when associated with G-84. Complete loss of function; when associated with G-33 and G-84. Complete loss of function; when associated with G-33; G-84 and G-102. Ref.5 Ref.7

Mutagenesis

W → G: No effect. Slower growth and thermosensitivity; when associated with G-33 or G-52. Complete loss of function; when associated with G-33 and G-52 or G-52 and Y-102. Complete loss of function; when associated with G-33; G-52 and G-102. Ref.5 Ref.7

Mutagenesis

102

Y → G: No effect. Slower growth and thermosensitivity; when associated with G-52 or G-84. Complete loss of function; when associated with G-33; G-52 and G-84. Ref.7

Sequence conflict

G → E AA sequence Ref.4

Sequence conflict

192

K → E in AAT93161. Ref.3

Sequences

Sequence

Length

Mass (Da)

Tools

Q03654 [UniParc].

Last modified November 1, 1997. Version 1.
Checksum: A4C417A8B330EA9C
Show »

FASTA

590

67,731

        10         20         30         40         50         60 
MPPVPIYVKG GVWTNVEDQI LKAAVQKYGT HQWSKVASLL QKKTARQSEL RWNEYLNPKL 

        70         80         90        100        110        120 
NFTEFSKEED AQLLDLAREL PNQWRTIADM MARPAQVCVE RYNRLLESED SGGAALSTGV 

       130        140        150        160        170        180 
TDLKAGDINP NAETQMARPD NGDLEDEEKE MLAEARARLL NTQGKKATRK IRERMLEESK 

       190        200        210        220        230        240 
RIAELQKRRE LKQAGINVAI KKPKKKYGTD IDYNEDIVYE QAPMPGIYDT STEDRQIKKK 

       250        260        270        280        290        300 
FEQFERKVNR KGLDGNKDKP SKKNKDKKRK HDENEHVEKA ALGESTTLTD EYKKPKLILS 

       310        320        330        340        350        360 
APGTKQGKVT YKKKLESKRQ KLIEAQATGT VLTPKELLPH DSGQEDNERS NIKSGKQLKS 

       370        380        390        400        410        420 
RIRKFLVQMF ASLPSPKNDF EIVLSEDEKE EDAEIAEYEK EFENERAMNE EDNFIEPPSQ 

       430        440        450        460        470        480 
NDAPRVSLVA VPLAYSTLPI PEFKNNPQSA IDNKYNLLVA NAINKEPHMV PEDTVDFLKE 

       490        500        510        520        530        540 
VESRMQHITQ GRTSMKIQFK TAMPPTEVLL ESIQSKVESI EQLQRKLQHV QPLEQQNNEM 

       550        560        570        580        590 
CSTLCHHSLP ALIEGQRKYY ADYYAYRQEI RSLEGRRKRL QAMLNSSSSI

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII." Bowman S., Churcher C.M., Badcock K., Brown D., Chillingworth T., Connor R., Dedman K., Devlin K., Gentles S., Hamlin N., Hunt S., Jagels K., Lye G., Moule S., Odell C., Pearson D., Rajandream M.A., Rice P. Barrell B.G. Nature 387:90-93(1997) [PubMed: 9169872] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[2]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[3]	"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae." Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. LaBaer J. Genome Res. 17:536-543(2007) [PubMed: 17322287] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[4]	"Cef1p is a component of the Prp19p-associated complex and essential for pre-mRNA splicing." Tsai W.-Y., Chow Y.-T., Chen H.-R., Huang K.-T., Hong R.-I., Jan S.-P., Kuo N.-Y., Tsao T.Y., Chen C.-H., Cheng S.-C. J. Biol. Chem. 274:9455-9462(1999) [PubMed: 10092627] [Abstract] Cited for: PROTEIN SEQUENCE OF 3-16, FUNCTION, DOMAIN, IDENTIFICATION IN THE PRP19-ASSOCIATED COMPLEX.
[5]	"Removal of a single alpha-tubulin gene intron suppresses cell cycle arrest phenotypes of splicing factor mutations in Saccharomyces cerevisiae." Burns C.G., Ohi R., Mehta S., O'Toole E.T., Winey M., Clark T.A., Sugnet C.W., Ares M. Jr., Gould K.L. Mol. Cell. Biol. 22:801-815(2002) [PubMed: 11784857] [Abstract] Cited for: FUNCTION, MUTAGENESIS OF TRP-52 AND TRP-84.
[6]	"Snt309p, a component of the Prp19p-associated complex that interacts with Prp19p and associates with the spliceosome simultaneously with or immediately after dissociation of U4 in the same manner as Prp19p." Chen H.-R., Jan S.-P., Tsao T.Y., Sheu Y.-J., Banroques J., Cheng S.-C. Mol. Cell. Biol. 18:2196-2204(1998) [PubMed: 9528791] [Abstract] Cited for: INTERACTION WITH PRP19, IDENTIFICATION IN THE PRP19-ASSOCIATED COMPLEX.
[7]	"Myb-related Schizosaccharomyces pombe cdc5p is structurally and functionally conserved in eukaryotes." Ohi R., Feoktistova A., McCann S., Valentine V., Look A.T., Lipsick J.S., Gould K.L. Mol. Cell. Biol. 18:4097-4108(1998) [PubMed: 9632794] [Abstract] Cited for: FUNCTION, MUTAGENESIS OF TRP-33; TRP-52; TRP-84 AND TYR-102.
[8]	"Evidence that Myb-related CDC5 proteins are required for pre-mRNA splicing." Burns C.G., Ohi R., Krainer A.R., Gould K.L. Proc. Natl. Acad. Sci. U.S.A. 96:13789-13794(1999) [PubMed: 10570151] [Abstract] Cited for: FUNCTION.
[9]	"Genetic and physical interactions between factors involved in both cell cycle progression and pre-mRNA splicing in Saccharomyces cerevisiae." Ben-Yehuda S., Dix I., Russell C.S., McGarvey M., Beggs J.D., Kupiec M. Genetics 156:1503-1517(2000) [PubMed: 11102353] [Abstract] Cited for: INTERACTION WITH CLF1; ISY1; NTC20; SYF1 AND SYF2.
[10]	"Identification and characterization of two novel components of the Prp19p-associated complex, Ntc30p and Ntc20p." Chen C.-H., Tsai W.-Y., Chen H.-R., Wang C.-H., Cheng S.-C. J. Biol. Chem. 276:488-494(2001) [PubMed: 11018040] [Abstract] Cited for: INTERACTION WITH ISY1; NTC20 AND PRP19.
[11]	"Proteomics analysis reveals stable multiprotein complexes in both fission and budding yeasts containing Myb-related Cdc5p/Cef1p, novel pre-mRNA splicing factors, and snRNAs." Ohi M.D., Link A.J., Ren L., Jennings J.L., McDonald W.H., Gould K.L. Mol. Cell. Biol. 22:2011-2024(2002) [PubMed: 11884590] [Abstract] Cited for: MASS SPECTROMETRY, IDENTIFICATION IN THE CWC COMPLEX.
[12]	"Characterization of interactions among the Cef1p-Prp19p-associated splicing complex." Ohi M.D., Gould K.L. RNA 8:798-815(2002) [PubMed: 12088152] [Abstract] Cited for: INTERACTION WITH PRP19; PRP46 AND SYF1.
[13]	"Global analysis of protein localization in budding yeast." Huh W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S., O'Shea E.K. Nature 425:686-691(2003) [PubMed: 14562095] [Abstract] Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[14]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed: 14562106] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	Z49809 Genomic DNA. Translation: CAA89928.1. AY693142 Genomic DNA. Translation: AAT93161.1. BK006946 Genomic DNA. Translation: DAA10112.1.
PIR	S55095.
RefSeq	NP_013940.1. NM_001182720.1.
3D structure databases
ProteinModelPortal	Q03654.
SMR	Q03654. Positions 7-115.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-1113N.
IntAct	Q03654. 53 interactions.
MINT	MINT-517325.
STRING	Q03654.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YMR213W; YMR213W; YMR213W.
GeneID	855253.
KEGG	sce:YMR213W.
NMPDR	fig\|4932.3.peg.4993.
Organism-specific databases
CYGD	YMR213w.
SGD	S000004826. CEF1.
Phylogenomic databases
eggNOG	fuNOG07708.
GeneTree	EFGT00050000002955.
HOGENOM	HBG203489.
OMA	WNEYLNP.
OrthoDB	EOG48WGB3.
Gene expression databases
ArrayExpress	Q03654.
Genevestigator	Q03654.
GermOnline	YMR213W. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR009057. Homeodomain-like. IPR012287. Homeodomain-rel. IPR014778. Myb_DNA-bd. IPR015495. Myb_trans_fac. IPR001005. SANT_DNA-bd. IPR017930. Tscrpt_reg_HTH_Myb-type. [Graphical view]
Gene3D	G3DSA:1.10.10.60. Homeodomain-rel. 2 hits.
KO	K12860.
PANTHER	PTHR10641. Myb_transfac. 1 hit.
Pfam	PF00249. Myb_DNA-binding. 2 hits. [Graphical view]
SMART	SM00717. SANT. 2 hits. [Graphical view]
SUPFAM	SSF46689. Homeodomain_like. 2 hits.
PROSITE	PS51294. HTH_MYB. 2 hits. [Graphical view]
ProtoNet	Search...
Other
NextBio	978831.

Entry information

Entry name

CEF1_YEAST

Accession

Primary (citable) accession number: Q03654
Secondary accession number(s): D6W038, Q6B1D8

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	November 1, 1997
Last modified:	January 25, 2012
This is version 107 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program

Relevant documents

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

Yeast chromosome XIII

Yeast (Saccharomyces cerevisiae) chromosome XIII: entries and gene names

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Regions

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents