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COMPASS component SWD2 (Complex proteins associated with SET1 protein SWD2) (Set1C component SWD2)

 SWD2_YEAST              Reviewed;         329 AA.
P36104; D6VXR8;
01-JUN-1994, integrated into UniProtKB/Swiss-Prot.
01-JUN-1994, sequence version 1.
05-DEC-2018, entry version 168.
RecName: Full=COMPASS component SWD2;
AltName: Full=Complex proteins associated with SET1 protein SWD2;
AltName: Full=Set1C component SWD2;
Name=SWD2; Synonyms=CPS35, SAF37; OrderedLocusNames=YKL018W;
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast).
Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina;
Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces.
NCBI_TaxID=559292;
[1]
NUCLEOTIDE SEQUENCE [GENOMIC DNA].
PubMed=8154185; DOI=10.1002/yea.320091208;
Wiemann S., Voss H., Schwager C., Rupp T., Stegemann J.,
Zimmermann J., Grothues D., Sensen C., Erfle H., Hewitt N.,
Banrevi A., Ansorge W.;
"Sequencing and analysis of 51.6 kilobases on the left arm of
chromosome XI from Saccharomyces cerevisiae reveals 23 open reading
frames including the FAS1 gene.";
Yeast 9:1343-1348(1993).
[2]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=ATCC 204508 / S288c;
PubMed=8196765; DOI=10.1038/369371a0;
Dujon B., Alexandraki D., Andre B., Ansorge W., Baladron V.,
Ballesta J.P.G., Banrevi A., Bolle P.-A., Bolotin-Fukuhara M.,
Bossier P., Bou G., Boyer J., Buitrago M.J., Cheret G., Colleaux L.,
Daignan-Fornier B., del Rey F., Dion C., Domdey H., Duesterhoeft A.,
Duesterhus S., Entian K.-D., Erfle H., Esteban P.F., Feldmann H.,
Fernandes L., Fobo G.M., Fritz C., Fukuhara H., Gabel C., Gaillon L.,
Garcia-Cantalejo J.M., Garcia-Ramirez J.J., Gent M.E., Ghazvini M.,
Goffeau A., Gonzalez A., Grothues D., Guerreiro P., Hegemann J.H.,
Hewitt N., Hilger F., Hollenberg C.P., Horaitis O., Indge K.J.,
Jacquier A., James C.M., Jauniaux J.-C., Jimenez A., Keuchel H.,
Kirchrath L., Kleine K., Koetter P., Legrain P., Liebl S., Louis E.J.,
Maia e Silva A., Marck C., Monnier A.-L., Moestl D., Mueller S.,
Obermaier B., Oliver S.G., Pallier C., Pascolo S., Pfeiffer F.,
Philippsen P., Planta R.J., Pohl F.M., Pohl T.M., Poehlmann R.,
Portetelle D., Purnelle B., Puzos V., Ramezani Rad M., Rasmussen S.W.,
Remacha M.A., Revuelta J.L., Richard G.-F., Rieger M.,
Rodrigues-Pousada C., Rose M., Rupp T., Santos M.A., Schwager C.,
Sensen C., Skala J., Soares H., Sor F., Stegemann J., Tettelin H.,
Thierry A., Tzermia M., Urrestarazu L.A., van Dyck L.,
van Vliet-Reedijk J.C., Valens M., Vandenbol M., Vilela C.,
Vissers S., von Wettstein D., Voss H., Wiemann S., Xu G.,
Zimmermann J., Haasemann M., Becker I., Mewes H.-W.;
"Complete DNA sequence of yeast chromosome XI.";
Nature 369:371-378(1994).
[3]
GENOME REANNOTATION.
STRAIN=ATCC 204508 / S288c;
PubMed=24374639; DOI=10.1534/g3.113.008995;
Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R.,
Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S.,
Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M.,
Cherry J.M.;
"The reference genome sequence of Saccharomyces cerevisiae: Then and
now.";
G3 (Bethesda) 4:389-398(2014).
[4]
NUCLEOTIDE SEQUENCE [GENOMIC DNA].
STRAIN=ATCC 204508 / S288c;
PubMed=17322287; DOI=10.1101/gr.6037607;
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., Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G.,
Kolodner R.D., LaBaer J.;
"Approaching a complete repository of sequence-verified protein-
encoding clones for Saccharomyces cerevisiae.";
Genome Res. 17:536-543(2007).
[5]
FUNCTION, AND SUBUNIT.
PubMed=11742990; DOI=10.1093/emboj/20.24.7137;
Roguev A., Schaft D., Shevchenko A., Pijnappel W.W.M.P., Wilm M.,
Aasland R., Stewart A.F.;
"The Saccharomyces cerevisiae Set1 complex includes an Ash2 homologue
and methylates histone 3 lysine 4.";
EMBO J. 20:7137-7148(2001).
[6]
SUBUNIT.
PubMed=11687631; DOI=10.1073/pnas.231473398;
Miller T., Krogan N.J., Dover J., Erdjument-Bromage H., Tempst P.,
Johnston M., Greenblatt J.F., Shilatifard A.;
"COMPASS: a complex of proteins associated with a trithorax-related
SET domain protein.";
Proc. Natl. Acad. Sci. U.S.A. 98:12902-12907(2001).
[7]
FUNCTION.
PubMed=11805083; DOI=10.1074/jbc.C200023200;
Krogan N.J., Dover J., Khorrami S., Greenblatt J.F., Schneider J.,
Johnston M., Shilatifard A.;
"COMPASS, a histone H3 (Lysine 4) methyltransferase required for
telomeric silencing of gene expression.";
J. Biol. Chem. 277:10753-10755(2002).
[8]
IDENTIFICATION IN THE CPF COMPLEX, COMPOSITION OF THE APT COMPLEX,
SUBCELLULAR LOCATION, AND IDENTIFICATION BY MASS SPECTROMETRY.
PubMed=12819204; DOI=10.1074/jbc.M304454200;
Nedea E., He X., Kim M., Pootoolal J., Zhong G., Canadien V.,
Hughes T., Buratowski S., Moore C.L., Greenblatt J.;
"Organization and function of APT, a subcomplex of the yeast cleavage
and polyadenylation factor involved in the formation of mRNA and small
nucleolar RNA 3'-ends.";
J. Biol. Chem. 278:33000-33010(2003).
[9]
LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
PubMed=14562106; DOI=10.1038/nature02046;
Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A.,
Dephoure N., O'Shea E.K., Weissman J.S.;
"Global analysis of protein expression in yeast.";
Nature 425:737-741(2003).
[10]
FUNCTION.
PubMed=15024081; DOI=10.1128/MCB.24.7.2932-2943.2004;
Cheng H., He X., Moore C.;
"The essential WD repeat protein Swd2 has dual functions in RNA
polymerase II transcription termination and lysine 4 methylation of
histone H3.";
Mol. Cell. Biol. 24:2932-2943(2004).
-!- FUNCTION: The COMPASS (Set1C) complex specifically mono-, di- and
trimethylates histone H3 to form H3K4me1/2/3, which subsequently
plays a role in telomere length maintenance and transcription
elongation regulation.
-!- FUNCTION: Involved in mediating RNA polymerase II termination.
Component of the cleavage and polyadenylation factor (CPF)
complex, which plays a key role in polyadenylation-dependent pre-
mRNA 3'-end formation and cooperates with cleavage factors
including the CFIA complex and NAB4/CFIB. Component of the APT
complex, which may be involved in polyadenylation-independent
transcript 3'-end formation.
-!- SUBUNIT: Component of the COMPASS (Set1C) complex which consists
of SET1(2), BRE2(2), SPP1(2), SDC1(1), SHG1(1), SWD1(1), SWD2(1),
and SWD3(1). Component of the cleavage and polyadenylation factor
(CPF) complex, which is composed of PTI1, SYC1, SSU72, GLC7, MPE1,
REF2, PFS2, PTA1, YSH1/BRR5, SWD2, CFT2/YDH1, YTH1, CFT1/YHH1,
FIP1 and PAP1. Component of the APT complex, which is a subcomplex
of CPF, and is composed of PTI1, SYC1, SSU72, GLC7, REF2, PTA1 and
SWD2. {ECO:0000269|PubMed:11687631, ECO:0000269|PubMed:11742990,
ECO:0000269|PubMed:12819204}.
-!- INTERACTION:
P32598:GLC7; NbExp=5; IntAct=EBI-26608, EBI-13715;
P38827:SET1; NbExp=6; IntAct=EBI-26608, EBI-16977;
-!- SUBCELLULAR LOCATION: Nucleus {ECO:0000269|PubMed:12819204}.
Chromosome, telomere {ECO:0000269|PubMed:12819204}.
-!- MISCELLANEOUS: Present with 704 molecules/cell in log phase SD
medium. {ECO:0000269|PubMed:14562106}.
-!- SIMILARITY: Belongs to the WD repeat SWD2 family. {ECO:0000305}.
-----------------------------------------------------------------------
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EMBL; X74152; -; NOT_ANNOTATED_CDS; Genomic_DNA.
EMBL; Z28018; CAA81853.1; -; Genomic_DNA.
EMBL; AY558094; AAS56420.1; -; Genomic_DNA.
EMBL; BK006944; DAA09138.1; -; Genomic_DNA.
PIR; S37831; S37831.
RefSeq; NP_012907.3; NM_001179584.3.
ProteinModelPortal; P36104; -.
SMR; P36104; -.
BioGrid; 34114; 164.
ComplexPortal; CPX-1039; COMPASS complex.
ComplexPortal; CPX-1053; Cleavage and polyadenylation specificity factor complex.
DIP; DIP-6844N; -.
IntAct; P36104; 35.
MINT; P36104; -.
STRING; 4932.YKL018W; -.
iPTMnet; P36104; -.
MaxQB; P36104; -.
PaxDb; P36104; -.
PRIDE; P36104; -.
EnsemblFungi; YKL018W_mRNA; YKL018W_mRNA; YKL018W.
GeneID; 853851; -.
KEGG; sce:YKL018W; -.
SGD; S000001501; SWD2.
GeneTree; ENSGT00530000063965; -.
HOGENOM; HOG000176477; -.
InParanoid; P36104; -.
KO; K14962; -.
OMA; CVLNGDH; -.
OrthoDB; EOG092C3J3F; -.
BioCyc; YEAST:G3O-31827-MONOMER; -.
PRO; PR:P36104; -.
Proteomes; UP000002311; Chromosome XI.
GO; GO:0000781; C:chromosome, telomeric region; IEA:UniProtKB-SubCell.
GO; GO:0005847; C:mRNA cleavage and polyadenylation specificity factor complex; IDA:SGD.
GO; GO:0048188; C:Set1C/COMPASS complex; IPI:SGD.
GO; GO:0003682; F:chromatin binding; IBA:GO_Central.
GO; GO:0051568; P:histone H3-K4 methylation; IDA:SGD.
GO; GO:0080182; P:histone H3-K4 trimethylation; IBA:GO_Central.
GO; GO:0034729; P:histone H3-K79 methylation; IMP:SGD.
GO; GO:0031124; P:mRNA 3'-end processing; IMP:SGD.
GO; GO:0031126; P:snoRNA 3'-end processing; IMP:SGD.
GO; GO:0000723; P:telomere maintenance; IMP:SGD.
GO; GO:0030847; P:termination of RNA polymerase II transcription, exosome-dependent; IPI:SGD.
GO; GO:0030846; P:termination of RNA polymerase II transcription, poly(A)-coupled; IPI:SGD.
Gene3D; 2.130.10.10; -; 2.
InterPro; IPR037867; Swd2.
InterPro; IPR015943; WD40/YVTN_repeat-like_dom_sf.
InterPro; IPR001680; WD40_repeat.
InterPro; IPR017986; WD40_repeat_dom.
InterPro; IPR036322; WD40_repeat_dom_sf.
PANTHER; PTHR19861:SF0; PTHR19861:SF0; 1.
Pfam; PF00400; WD40; 2.
SMART; SM00320; WD40; 4.
SUPFAM; SSF50978; SSF50978; 1.
PROSITE; PS50082; WD_REPEATS_2; 1.
PROSITE; PS50294; WD_REPEATS_REGION; 1.
1: Evidence at protein level;
Chromosome; Complete proteome; mRNA processing; Nucleus;
Reference proteome; Repeat; Telomere; WD repeat.
CHAIN 1 329 COMPASS component SWD2.
/FTId=PRO_0000051253.
REPEAT 25 64 WD 1.
REPEAT 111 150 WD 2.
REPEAT 152 191 WD 3.
REPEAT 199 238 WD 4.
REPEAT 246 287 WD 5.
REPEAT 298 328 WD 6.
SEQUENCE 329 AA; 37122 MW; 5453C193A5C0AEEC CRC64;
MTTVSINKPN LLKFKHVKSF QPQEKDCGPV TSLNFDDNGQ FLLTSSSNDT MQLYSATNCK
FLDTIASKKY GCHSAIFTHA QNECIYSSTM KNFDIKYLNL ETNQYLRYFS GHGALVNDLK
MNPVNDTFLS SSYDESVRLW DLKISKPQVI IPSLVPNCIA YDPSGLVFAL GNPENFEIGL
YNLKKIQEGP FLIIKINDAT FSQWNKLEFS NNGKYLLVGS SIGKHLIFDA FTGQQLFELI
GTRAFPMREF LDSGSACFTP DGEFVLGTDY DGRIAIWNHS DSISNKVLRP QGFIPCVSHE
TCPRSIAFNP KYSMFVTADE TVDFYVYDE


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