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Q04048 (SYF1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified December 14, 2011. Version 89. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Pre-mRNA-splicing factor SYF1
Alternative name(s):
PRP19-associated complex protein 90
Synthetic lethal with CDC40 protein 1
Gene names
Name:SYF1
Synonyms:NTC90
Ordered Locus Names:YDR416W
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifier559292 [NCBI]
Taxonomic lineageEukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length859 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Involved in pre-mRNA splicing and cell cycle control. As a component of the NTC complex (or PRP19-associated complex), associates to the spliceosome to mediate conformational rearrangement or to stabilize the structure of the spliceosome after U4 snRNA dissociation, which leads to spliceosome maturation. Ref.4 Ref.5

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 CEF1, CLF1, ISY1, NTC20, PRP22, PRP46 and SYF2. Ref.4 Ref.7

Subcellular location

Nucleus Ref.8.

Miscellaneous

Present with 2170 molecules/cell in log phase SD medium. Ref.9

Sequence similarities

Belongs to the crooked-neck family.

Contains 14 HAT repeats.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 859859Pre-mRNA-splicing factor SYF1
PRO_0000205737

Regions

Repeat17 – 4933HAT 1
Repeat52 – 8433HAT 2
Repeat88 – 10821HAT 3
Repeat123 – 15735HAT 4
Repeat177 – 21943HAT 5
Repeat238 – 27134HAT 6
Repeat427 – 45933HAT 7
Repeat461 – 48222HAT 8
Repeat520 – 55435HAT 9
Repeat599 – 63335HAT 10
Repeat639 – 67537HAT 11
Repeat685 – 71834HAT 12
Repeat720 – 75435HAT 13
Repeat756 – 79035HAT 14

Sequences

Sequence LengthMass (Da)Tools
Q04048 [UniParc].

Last modified November 1, 1996. Version 1.
Checksum: ED4368A624A40E7C

FASTA859100,229
        10         20         30         40         50         60 
MSAYIAMKGV ITNVDENIRN DEDVAFEYEI QKTPQNILTW KRYIEYWKEE GRTDKQIRWL 

        70         80         90        100        110        120 
YERFCSQFVT DTSIWEDYIR WESTKEVVET SRIFWLFQRC LKSCVRDCDR ICLSYLELAI 

       130        140        150        160        170        180 
EQYDLAMIRH ALASSLMKME REMHRKVWDP VIKFVEEKVL PLTQLDSTQE DEEESTDEAE 

       190        200        210        220        230        240 
LINVLLVKGF TKGGFISEEI SENGSRGDIW SSHILERYLK VAPQQKRNES LATLALTRDN 

       250        260        270        280        290        300 
ITIKSVYEKY LPQDENSGKY LPSSELPFEL NFNYLASLEK LGLDNQYEEF MRQMNGIYPD 

       310        320        330        340        350        360 
KWLFLILSLA KYYISRGRLD SCGDLLKKSL QQTLRYSDFD RIYNFYLLFE QECSQFILGK 

       370        380        390        400        410        420 
LKENDSKFFN QKDWTEKLQA HMATFESLIN LYDIYLNDVA LRQDSNLVET WMKRVSLQKS 

       430        440        450        460        470        480 
AAEKCNVYSE AILKIDPRKV GTPGSFGRLW CSYGDLYWRS NAISTARELW TQSLKVPYPY 

       490        500        510        520        530        540 
IEDLEEIYLN WADRELDKEG VERAFSILED ALHVPTNPEI LLEKYKNGHR KIPAQTVLFN 

       550        560        570        580        590        600 
SLRIWSKYID YLEAYCPKDA NSSDKIFNKT KMAYNTVIDL RLITPAMAEN FALFLQNHYE 

       610        620        630        640        650        660 
VMESFQVYEK TIPLFPPEIQ YELWIEYLEV ATSHQLSSLS PEHIRFLFEK ALKNLCSNGI 

       670        680        690        700        710        720 
DCKTIFIAYS VFEERISGLI SKSIEILRRG AVIGTVSVST HLESRLQLWR MCISKAESTL 

       730        740        750        760        770        780 
GPSVTRELYQ ECIQILPNSK AVEFVIKFSD FESSIGETIR AREILAYGAK LLPPSRNTEL 

       790        800        810        820        830        840 
WDSFEIFELK HGDKETYKDM LKMKKVLESN MLIDSASVSH EEGNINFVAA ATSHAPNSHT 

       850 
LTQSTSSYSI NPDEIELDI

« Hide

References

« Hide 'large scale' references
[1]"The nucleotide sequence of Saccharomyces cerevisiae chromosome IV."
Jacq C., Alt-Moerbe J., Andre B., Arnold W., Bahr A., Ballesta J.P.G., Bargues M., Baron L., Becker A., Biteau N., Bloecker H., Blugeon C., Boskovic J., Brandt P., Brueckner M., Buitrago M.J., Coster F., Delaveau T. expand/collapse author list , del Rey F., Dujon B., Eide L.G., Garcia-Cantalejo J.M., Goffeau A., Gomez-Peris A., Granotier C., Hanemann V., Hankeln T., Hoheisel J.D., Jaeger W., Jimenez A., Jonniaux J.-L., Kraemer C., Kuester H., Laamanen P., Legros Y., Louis E.J., Moeller-Rieker S., Monnet A., Moro M., Mueller-Auer S., Nussbaumer B., Paricio N., Paulin L., Perea J., Perez-Alonso M., Perez-Ortin J.E., Pohl T.M., Prydz H., Purnelle B., Rasmussen S.W., Remacha M.A., Revuelta J.L., Rieger M., Salom D., Saluz H.P., Saiz J.E., Saren A.-M., Schaefer M., Scharfe M., Schmidt E.R., Schneider C., Scholler P., Schwarz S., Soler-Mira A., Urrestarazu L.A., Verhasselt P., Vissers S., Voet M., Volckaert G., Wagner G., Wambutt R., Wedler E., Wedler H., Woelfl S., Harris D.E., Bowman S., Brown D., Churcher C.M., Connor R., Dedman K., Gentles S., Hamlin N., Hunt S., Jones L., McDonald S., Murphy L.D., Niblett D., Odell C., Oliver K., Rajandream M.A., Richards C., Shore L., Walsh S.V., Barrell B.G., Dietrich F.S., Mulligan J.T., Allen E., Araujo R., Aviles E., Berno A., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Hunicke-Smith S., Hyman R.W., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Oefner P., Oh C., Petel F.X., Roberts D., Schramm S., Schroeder M., Shogren T., Shroff N., Winant A., Yelton M.A., Botstein D., Davis R.W., Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Du Z., Favello A., Fulton L., Gattung S., Greco T., Hallsworth K., Hawkins J., Hillier L.W., Jier M., Johnson D., Johnston L., Kirsten J., Kucaba T., Langston Y., Latreille P., Le T., Mardis E., Menezes S., Miller N., Nhan M., Pauley A., Peluso D., Rifkin L., Riles L., Taich A., Trevaskis E., Vignati D., Wilcox L., Wohldman P., Vaudin M., Wilson R., Waterston R., Albermann K., Hani J., Heumann K., Kleine K., Mewes H.-W., Zollner A., Zaccaria P.
Nature 387:75-78(1997) [PubMed: 9169867] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 204508 / S288c.
[2]Saccharomyces Genome Database
Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases
Cited for: GENOME REANNOTATION.
Strain: ATCC 204508 / S288c.
[3]"Functional and physical interactions between components of the Prp19p-associated complex."
Chen C.-H., Yu W.-C., Tsao T.Y., Wang L.-Y., Chen H.-R., Lin J.-Y., Tsai W.-Y., Cheng S.-C.
Nucleic Acids Res. 30:1029-1037(2002) [PubMed: 11842115] [Abstract]
Cited for: PROTEIN SEQUENCE OF 6-23, IDENTIFICATION IN THE PRP19-ASSOCIATED COMPLEX.
[4]"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: FUNCTION, INTERACTION WITH CEF1; ISY1; NTC20; PRP22 AND SYF2.
[5]"Functional analyses of interacting factors involved in both pre-mRNA splicing and cell cycle progression in Saccharomyces cerevisiae."
Russell C.S., Ben-Yehuda S., Dix I., Kupiec M., Beggs J.D.
RNA 6:1565-1572(2000) [PubMed: 11105756] [Abstract]
Cited for: FUNCTION, IDENTIFICATION IN THE SPLICEOSOME.
[6]"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.
[7]"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 CEF1; CLF1; ISY1; NTC20 AND PRP46.
[8]"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].
[9]"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		U33007 Genomic DNA. Translation: AAB64862.1.
BK006938 Genomic DNA. Translation: DAA12257.1.
PIRS69700.
RefSeqNP_010704.1. NM_001180724.1.

3D structure databases

ProteinModelPortalQ04048.
SMRQ04048. Positions 26-157, 304-331, 448-476, 744-770.
ModBaseSearch...

Protein-protein interaction databases

DIPDIP-1681N.
IntActQ04048. 30 interactions.
MINTMINT-385933.
STRINGQ04048.

Proteomic databases

PeptideAtlasQ04048.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblFungiYDR416W; YDR416W; YDR416W.
GeneID852025.
KEGGsce:YDR416W.
NMPDRfig|4932.3.peg.1477.

Organism-specific databases

CYGDYDR416w.
SGDS000002824. SYF1.

Phylogenomic databases

eggNOGfuNOG06537.
GeneTreeEFGT00050000002825.
HOGENOMHBG203289.
OMAYADLMET.
OrthoDBEOG4DBXP7.

Gene expression databases

ArrayExpressQ04048.
GenevestigatorQ04048.
GermOnlineYDR416W. Saccharomyces cerevisiae.

Family and domain databases

InterProIPR003107. HAT.
IPR011990. TPR-like_helical.
[Graphical view]
Gene3DG3DSA:1.25.40.10. TPR-like_helical. 2 hits.
KOK12867.
SMARTSM00386. HAT. 8 hits.
[Graphical view]
ProtoNetSearch...

Other

NextBio970249.

Entry information

Entry nameSYF1_YEAST
AccessionPrimary (citable) accession number: Q04048
Secondary accession number(s): D6VT47
Entry history
Integrated into UniProtKB/Swiss-Prot: August 30, 2005
Last sequence update: November 1, 1996
Last modified: December 14, 2011
This is version 89 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Relevant documents

Yeast

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

SIMILARITY comments

Index of protein domains and families

to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents