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P39081

- PCF11_YEAST

UniProt

P39081 - PCF11_YEAST

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Protein

Protein PCF11

Gene

PCF11

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

Component of the cleavage factor IA (CFIA) complex, which is involved in the endonucleolytic cleavage during polyadenylation-dependent pre-mRNA 3'-end formation and cooperates with cleavage factor NAB4/CFIB and the cleavage and polyadenylation factor (CPF) complex. Independently involved in RNA polymerase II transcript termination. Binds RNA. Seems to bridge RNA polymerase II and the native transcript and may be involved in dismantling the RNA polymerase II elongation complex.2 Publications

GO - Molecular functioni

  1. mRNA binding Source: SGD
  2. RNA polymerase II core binding Source: SGD

GO - Biological processi

  1. mRNA cleavage Source: SGD
  2. mRNA polyadenylation Source: SGD
  3. regulation of transcription, DNA-templated Source: UniProtKB-KW
  4. termination of RNA polymerase II transcription Source: SGD
Complete GO annotation...

Keywords - Biological processi

mRNA processing, Transcription, Transcription regulation, Transcription termination

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-29807-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Protein PCF11
Alternative name(s):
protein 1 of CF I
Gene namesi
Name:PCF11
Ordered Locus Names:YDR228C
ORF Names:YD9934.13C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome IV

Organism-specific databases

CYGDiYDR228c.
SGDiS000002636. PCF11.

Subcellular locationi

Nucleus Curated

GO - Cellular componenti

  1. cytosol Source: SGD
  2. mRNA cleavage factor complex Source: SGD
  3. nucleus Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi66 – 661A → D: Loss of interaction with RBP1 CTD. 1 Publication
Mutagenesisi68 – 703DSI → AAA: Loss of interaction with RBP1 CTD. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 626626Protein PCF11PRO_0000058247Add
BLAST

Proteomic databases

MaxQBiP39081.
PaxDbiP39081.
PeptideAtlasiP39081.

Expressioni

Gene expression databases

GenevestigatoriP39081.

Interactioni

Subunit structurei

Component of the CFIA complex, which is composed of RNA14, RNA15, PCF11 and CLP1. Interacts with RNA14, RNA15 and RTT103. Interacts directly with the phosphorylated CTD domain of RPB1/RNA polymerase II.4 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
CLP1Q0868513EBI-12980,EBI-29732
RNA14P2529812EBI-12980,EBI-15632
RNA15P252999EBI-12980,EBI-15640
SHO1P400732EBI-12980,EBI-18140

Protein-protein interaction databases

BioGridi32280. 86 interactions.
DIPiDIP-944N.
IntActiP39081. 78 interactions.
MINTiMINT-389878.
STRINGi4932.YDR228C.

Structurei

Secondary structure

1
626
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi3 – 1614
Helixi24 – 3613
Helixi38 – 403
Helixi41 – 5414
Helixi57 – 7317
Helixi78 – 836
Helixi86 – 9510
Helixi99 – 11214
Helixi115 – 1173
Helixi125 – 13713
Helixi486 – 4905
Helixi495 – 4984

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1SZ9X-ray2.10A/B/C1-140[»]
1SZAX-ray2.20A/B/C1-140[»]
2BF0X-ray2.30X1-138[»]
2NPIX-ray2.95C/D454-563[»]
4C0BX-ray2.77C/D454-563[»]
4C0HX-ray2.70C/D454-563[»]
4OI4X-ray2.40B/D/U454-563[»]
ProteinModelPortaliP39081.
SMRiP39081. Positions 2-140, 473-499.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP39081.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini4 – 139136CIDPROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 130130Interaction with RBP1 CTD (CID)Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi234 – 25320Poly-GlnAdd
BLAST
Compositional biasi470 – 4734Poly-Thr

Sequence similaritiesi

Contains 1 CID domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiNOG268273.
GeneTreeiENSGT00440000034259.
HOGENOMiHOG000115468.
InParanoidiP39081.
KOiK14400.
OMAiHADENDE.
OrthoDBiEOG76QFSS.

Family and domain databases

Gene3Di1.25.40.90. 1 hit.
InterProiIPR021605. CFIA_Pcf11.
IPR006569. CID_dom.
IPR008942. ENTH_VHS.
[Graphical view]
PfamiPF11526. CFIA_Pcf11. 1 hit.
[Graphical view]
SMARTiSM00582. RPR. 1 hit.
[Graphical view]
SUPFAMiSSF48464. SSF48464. 1 hit.
PROSITEiPS51391. CID. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P39081-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MDHDTEVIVK DFNSILEELT FNSRPIITTL TKLAEENISC AQYFVDAIES
60 70 80 90 100
RIEKCMPKQK LYAFYALDSI CKNVGSPYTI YFSRNLFNLY KRTYLLVDNT
110 120 130 140 150
TRTKLINMFK LWLNPNDTGL PLFEGSALEK IEQFLIKASA LHQKNLQAML
160 170 180 190 200
PTPTVPLLLR DIDKLTCLTS ERLKNQPNDE KLKMKLLVLS QLKQELKREK
210 220 230 240 250
LTLNALKQVQ MQLRQVFSQD QQVLQERMRY HELQQQQQQQ QQQQQQQQQQ
260 270 280 290 300
QQQYHETKDM VGSYTQNSNS AIPLFGNNSD TTNQQNSLSS SLFGNISGVE
310 320 330 340 350
SFQEIEKKKS LNKINNLYAS LKAEGLIYTP PKESIVTLYK KLNGHSNYSL
360 370 380 390 400
DSHEKQLMKN LPKIPLLNDI LSDCKAYFAT VNIDVLNNPS LQLSEQTLLQ
410 420 430 440 450
ENPIVQNNLI HLLYRSKPNK CSVCGKRFGN SESEKLLQNE HLDWHFRINT
460 470 480 490 500
RIKGSQNTAN TGISNSNLNT TTTRKNIQSR NWYLSDSQWA AFKDDEITST
510 520 530 540 550
KHKNDYTDPH ANKNIDKSAL NIHADENDEG SVDNTLGSDR SNELEIRGKY
560 570 580 590 600
VVVPETSQDM AFKCPICKET VTGVYDEESG EWVWKNTIEV NGKYFHSTCY
610 620
HETSQNSSKS NSGKVGLDDL KKLVTK
Length:626
Mass (Da):71,898
Last modified:July 15, 1998 - v2
Checksum:i66F91BA9577E82F1
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti286 – 2883NSL → ILS in AAC33145. (PubMed:7885847)Curated
Sequence conflicti515 – 5151I → V in AAC33145. (PubMed:7885847)Curated

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Z48612 Genomic DNA. Translation: CAA88508.1.
U13239 Genomic DNA. Translation: AAC33145.1.
BK006938 Genomic DNA. Translation: DAA12070.1.
PIRiS59435.
RefSeqiNP_010514.3. NM_001180536.3.

Genome annotation databases

EnsemblFungiiYDR228C; YDR228C; YDR228C.
GeneIDi851814.
KEGGisce:YDR228C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
Z48612 Genomic DNA. Translation: CAA88508.1 .
U13239 Genomic DNA. Translation: AAC33145.1 .
BK006938 Genomic DNA. Translation: DAA12070.1 .
PIRi S59435.
RefSeqi NP_010514.3. NM_001180536.3.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1SZ9 X-ray 2.10 A/B/C 1-140 [» ]
1SZA X-ray 2.20 A/B/C 1-140 [» ]
2BF0 X-ray 2.30 X 1-138 [» ]
2NPI X-ray 2.95 C/D 454-563 [» ]
4C0B X-ray 2.77 C/D 454-563 [» ]
4C0H X-ray 2.70 C/D 454-563 [» ]
4OI4 X-ray 2.40 B/D/U 454-563 [» ]
ProteinModelPortali P39081.
SMRi P39081. Positions 2-140, 473-499.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 32280. 86 interactions.
DIPi DIP-944N.
IntActi P39081. 78 interactions.
MINTi MINT-389878.
STRINGi 4932.YDR228C.

Proteomic databases

MaxQBi P39081.
PaxDbi P39081.
PeptideAtlasi P39081.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblFungii YDR228C ; YDR228C ; YDR228C .
GeneIDi 851814.
KEGGi sce:YDR228C.

Organism-specific databases

CYGDi YDR228c.
SGDi S000002636. PCF11.

Phylogenomic databases

eggNOGi NOG268273.
GeneTreei ENSGT00440000034259.
HOGENOMi HOG000115468.
InParanoidi P39081.
KOi K14400.
OMAi HADENDE.
OrthoDBi EOG76QFSS.

Enzyme and pathway databases

BioCyci YEAST:G3O-29807-MONOMER.

Miscellaneous databases

EvolutionaryTracei P39081.
NextBioi 969674.
PROi P39081.

Gene expression databases

Genevestigatori P39081.

Family and domain databases

Gene3Di 1.25.40.90. 1 hit.
InterProi IPR021605. CFIA_Pcf11.
IPR006569. CID_dom.
IPR008942. ENTH_VHS.
[Graphical view ]
Pfami PF11526. CFIA_Pcf11. 1 hit.
[Graphical view ]
SMARTi SM00582. RPR. 1 hit.
[Graphical view ]
SUPFAMi SSF48464. SSF48464. 1 hit.
PROSITEi PS51391. CID. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  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.
    , 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] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. "Insertion site specificity of the transposon Tn3."
    Davies C.J., Hutchison C.A. III
    Nucleic Acids Res. 23:507-514(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 286-626.
  4. "PCF11 encodes a third protein component of yeast cleavage and polyadenylation factor I."
    Amrani N., Minet M., Wyers F., Dufour M.-E., Aggerbeck L.P., Lacroute F.
    Mol. Cell. Biol. 17:1102-1109(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION IN THE CFIA COMPLEX, INTERACTION WITH RNA14 AND RNA15.
  5. "Five subunits are required for reconstitution of the cleavage and polyadenylation activities of Saccharomyces cerevisiae cleavage factor I."
    Gross S., Moore C.
    Proc. Natl. Acad. Sci. U.S.A. 98:6080-6085(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION OF THE CFIA COMPLEX.
  6. "Cleavage/polyadenylation factor IA associates with the carboxyl-terminal domain of RNA polymerase II in Saccharomyces cerevisiae."
    Barilla D., Lee B.A., Proudfoot N.J.
    Proc. Natl. Acad. Sci. U.S.A. 98:445-450(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH RBP1.
  7. "Independent functions of yeast Pcf11p in pre-mRNA 3' end processing and in transcription termination."
    Sadowski M., Dichtl B., Huebner W., Keller W.
    EMBO J. 22:2167-2177(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH RBP1, MUTAGENESIS OF ALA-66 AND 68-ASP--ILE-70.
  8. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  9. "The yeast Rat1 exonuclease promotes transcription termination by RNA polymerase II."
    Kim M., Krogan N.J., Vasiljeva L., Rando O.J., Nedea E., Greenblatt J.F., Buratowski S.
    Nature 432:517-522(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH RTT103.
  10. "CTD-dependent dismantling of the RNA polymerase II elongation complex by the pre-mRNA 3'-end processing factor, Pcf11."
    Zhang Z., Fu J., Gilmour D.S.
    Genes Dev. 19:1572-1580(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, RNA-BINDING.
  11. "Recognition of RNA polymerase II carboxy-terminal domain by 3'-RNA-processing factors."
    Meinhart A., Cramer P.
    Nature 430:223-226(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.1 ANGSTROMS) OF 1-140.
  12. Cited for: X-RAY CRYSTALLOGRAPHY (2.3 ANGSTROMS) OF 1-138.

Entry informationi

Entry nameiPCF11_YEAST
AccessioniPrimary (citable) accession number: P39081
Secondary accession number(s): D6VSL0, Q04932
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: July 15, 1998
Last modified: October 29, 2014
This is version 122 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 2800 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome IV
    Yeast (Saccharomyces cerevisiae) chromosome IV: entries and gene names

External Data

Dasty 3