PRP39_YEAST
ID PRP39_YEAST Reviewed; 629 AA.
AC P39682; D6VZC9; E9P8Z1;
DT 01-FEB-1995, integrated into UniProtKB/Swiss-Prot.
DT 01-FEB-1995, sequence version 1.
DT 03-AUG-2022, entry version 163.
DE RecName: Full=Pre-mRNA-processing factor 39;
GN Name=PRP39; OrderedLocusNames=YML046W; ORFNames=YM9827.06;
OS Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast).
OC Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes;
OC Saccharomycetales; Saccharomycetaceae; Saccharomyces.
OX NCBI_TaxID=559292;
RN [1]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC STRAIN=S288c / GRF88;
RX PubMed=8196608; DOI=10.1128/mcb.14.6.3623-3633.1994;
RA Lockhart S.R., Rymond B.C.;
RT "Commitment of yeast pre-mRNA to the splicing pathway requires a novel U1
RT small nuclear ribonucleoprotein polypeptide, Prp39p.";
RL Mol. Cell. Biol. 14:3623-3633(1994).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=ATCC 204508 / S288c;
RX PubMed=9169872;
RA Bowman S., Churcher C.M., Badcock K., Brown D., Chillingworth T.,
RA Connor R., Dedman K., Devlin K., Gentles S., Hamlin N., Hunt S., Jagels K.,
RA Lye G., Moule S., Odell C., Pearson D., Rajandream M.A., Rice P.,
RA Skelton J., Walsh S.V., Whitehead S., Barrell B.G.;
RT "The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII.";
RL Nature 387:90-93(1997).
RN [3]
RP GENOME REANNOTATION.
RC STRAIN=ATCC 204508 / S288c;
RX PubMed=24374639; DOI=10.1534/g3.113.008995;
RA Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R.,
RA Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S.,
RA Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M., Cherry J.M.;
RT "The reference genome sequence of Saccharomyces cerevisiae: Then and now.";
RL G3 (Bethesda) 4:389-398(2014).
RN [4]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC STRAIN=ATCC 204508 / S288c;
RX PubMed=17322287; DOI=10.1101/gr.6037607;
RA Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F.,
RA Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J.,
RA Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J.,
RA Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G., Kolodner R.D.,
RA LaBaer J.;
RT "Approaching a complete repository of sequence-verified protein-encoding
RT clones for Saccharomyces cerevisiae.";
RL Genome Res. 17:536-543(2007).
RN [5]
RP PARTIAL PROTEIN SEQUENCE.
RX PubMed=9012791; DOI=10.1073/pnas.94.2.385;
RA Neubauer G., Gottschalk A., Fabrizio P., Seraphin B., Luehrmann R.,
RA Mann M.;
RT "Identification of the proteins of the yeast U1 small nuclear
RT ribonucleoprotein complex by mass spectrometry.";
RL Proc. Natl. Acad. Sci. U.S.A. 94:385-390(1997).
RN [6]
RP LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
RX PubMed=14562106; DOI=10.1038/nature02046;
RA Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N.,
RA O'Shea E.K., Weissman J.S.;
RT "Global analysis of protein expression in yeast.";
RL Nature 425:737-741(2003).
CC -!- FUNCTION: Function prior to stable branch point recognition by the U1
CC snRNP particle to facilitate or stabilize the U1 snRNP/5'-splice site
CC interaction. Has a direct role in the assembly or function of a
CC catalytically active spliceosome.
CC -!- SUBCELLULAR LOCATION: Nucleus.
CC -!- MISCELLANEOUS: Present with 4460 molecules/cell in log phase SD medium.
CC {ECO:0000269|PubMed:14562106}.
CC -!- SIMILARITY: Belongs to the PRP39 family. {ECO:0000305}.
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DR EMBL; L29224; AAA20131.1; -; Genomic_DNA.
DR EMBL; Z47816; CAA87828.1; -; Genomic_DNA.
DR EMBL; AY692912; AAT92931.1; -; Genomic_DNA.
DR EMBL; BK006946; DAA09853.1; -; Genomic_DNA.
DR PIR; S47920; S47920.
DR RefSeq; NP_013667.1; NM_001182403.1.
DR PDB; 5ZWN; EM; 3.30 A; U=1-629.
DR PDB; 6G90; EM; 4.00 A; D=1-629.
DR PDB; 6N7P; EM; 3.60 A; E=1-629.
DR PDB; 6N7R; EM; 3.20 A; E=1-629.
DR PDB; 6N7X; EM; 3.60 A; E=1-629.
DR PDB; 7OQC; EM; 4.10 A; D=1-629.
DR PDB; 7OQE; EM; 5.90 A; D=1-629.
DR PDBsum; 5ZWN; -.
DR PDBsum; 6G90; -.
DR PDBsum; 6N7P; -.
DR PDBsum; 6N7R; -.
DR PDBsum; 6N7X; -.
DR PDBsum; 7OQC; -.
DR PDBsum; 7OQE; -.
DR AlphaFoldDB; P39682; -.
DR SMR; P39682; -.
DR BioGRID; 35122; 137.
DR ComplexPortal; CPX-23; U1 small nuclear ribonucleoprotein complex.
DR DIP; DIP-812N; -.
DR IntAct; P39682; 17.
DR MINT; P39682; -.
DR STRING; 4932.YML046W; -.
DR MaxQB; P39682; -.
DR PaxDb; P39682; -.
DR PRIDE; P39682; -.
DR EnsemblFungi; YML046W_mRNA; YML046W; YML046W.
DR GeneID; 854960; -.
DR KEGG; sce:YML046W; -.
DR SGD; S000004509; PRP39.
DR VEuPathDB; FungiDB:YML046W; -.
DR eggNOG; KOG1258; Eukaryota.
DR GeneTree; ENSGT00940000168631; -.
DR HOGENOM; CLU_024449_0_0_1; -.
DR InParanoid; P39682; -.
DR OMA; SLELWCD; -.
DR BioCyc; YEAST:G3O-32643-MON; -.
DR PRO; PR:P39682; -.
DR Proteomes; UP000002311; Chromosome XIII.
DR RNAct; P39682; protein.
DR GO; GO:0000243; C:commitment complex; IGI:SGD.
DR GO; GO:0005634; C:nucleus; IC:ComplexPortal.
DR GO; GO:0005681; C:spliceosomal complex; IC:ComplexPortal.
DR GO; GO:0005685; C:U1 snRNP; IDA:SGD.
DR GO; GO:0071004; C:U2-type prespliceosome; IDA:SGD.
DR GO; GO:0000395; P:mRNA 5'-splice site recognition; IGI:SGD.
DR GO; GO:0000398; P:mRNA splicing, via spliceosome; IC:ComplexPortal.
DR Gene3D; 1.25.40.10; -; 1.
DR InterPro; IPR003107; HAT.
DR InterPro; IPR011990; TPR-like_helical_dom_sf.
DR SMART; SM00386; HAT; 4.
DR SUPFAM; SSF48452; SSF48452; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Direct protein sequencing; mRNA processing; mRNA splicing;
KW Nucleus; Reference proteome; Repeat.
FT CHAIN 1..629
FT /note="Pre-mRNA-processing factor 39"
FT /id="PRO_0000205758"
FT REPEAT 68..100
FT /note="HAT 1"
FT REPEAT 102..134
FT /note="HAT 2"
FT REPEAT 138..173
FT /note="HAT 3"
FT REPEAT 175..208
FT /note="HAT 4"
FT REPEAT 233..265
FT /note="HAT 5"
FT REPEAT 270..302
FT /note="HAT 6"
FT REPEAT 446..480
FT /note="HAT 7"
FT CONFLICT 615
FT /note="K -> E (in Ref. 4; AAT92931)"
FT /evidence="ECO:0000305"
FT HELIX 20..36
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 42..58
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 63..75
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 79..91
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 97..108
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 114..128
FT /evidence="ECO:0007829|PDB:6N7R"
FT TURN 129..131
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 136..148
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 152..163
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 170..180
FT /evidence="ECO:0007829|PDB:6N7R"
FT TURN 182..188
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 189..214
FT /evidence="ECO:0007829|PDB:6N7R"
FT STRAND 220..222
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 223..226
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 228..239
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 245..258
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 290..303
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 307..320
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 328..343
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 346..361
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 367..379
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 389..411
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 420..424
FT /evidence="ECO:0007829|PDB:6N7R"
FT TURN 427..429
FT /evidence="ECO:0007829|PDB:5ZWN"
FT HELIX 430..443
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 448..458
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 462..465
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 468..480
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 485..496
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 502..519
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 522..528
FT /evidence="ECO:0007829|PDB:6N7R"
FT TURN 531..533
FT /evidence="ECO:0007829|PDB:6N7R"
FT TURN 537..539
FT /evidence="ECO:0007829|PDB:6N7R"
FT HELIX 540..543
FT /evidence="ECO:0007829|PDB:6N7R"
FT STRAND 544..546
FT /evidence="ECO:0007829|PDB:5ZWN"
FT TURN 557..560
FT /evidence="ECO:0007829|PDB:5ZWN"
FT HELIX 566..569
FT /evidence="ECO:0007829|PDB:6N7R"
FT STRAND 571..573
FT /evidence="ECO:0007829|PDB:6N7R"
FT STRAND 582..585
FT /evidence="ECO:0007829|PDB:5ZWN"
FT HELIX 592..595
FT /evidence="ECO:0007829|PDB:6N7R"
FT STRAND 596..598
FT /evidence="ECO:0007829|PDB:5ZWN"
FT STRAND 605..607
FT /evidence="ECO:0007829|PDB:5ZWN"
FT HELIX 619..623
FT /evidence="ECO:0007829|PDB:6N7R"
SQ SEQUENCE 629 AA; 74748 MW; 67480ED01347B6AB CRC64;
MPDETNFTIE DIEPRPDALR GLDTQFLQDN TALVQAYRGL DWSDISSLTQ MVDVIEQTVV
KYGNPNDSIK LALETILWQI LRKYPLLFGF WKRFATIEYQ LFGLKKSIAV LATSVKWFPT
SLELWCDYLN VLCVNNPNET DFIRNNFEIA KDLIGKQFLS HPFWDKFIEF EVGQKNWHNV
QRIYEYIIEV PLHQYARFFT SYKKFLNEKN LKTTRNIDIV LRKTQTTVNE IWQFESKIKQ
PFFNLGQVLN DDLENWSRYL KFVTDPSKSL DKEFVMSVFD RCLIPCLYHE NTWMMYIKWL
TKKNISDEVV VDIYQKANTF LPLDFKTLRY DFLRFLKRKY RSNNTLFNNI FNETVSRYLK
IWPNDILLMT EYLCMLKRHS FKNSLDQSPK EILEKQTSFT KILETSITNY INNQIDAKVH
LQTLINDKNL SIVVVELIKT TWLVLKNNMQ TRKYFNLYQK NILIKNSVPF WLTYYKFEKS
NVNFTKLNKF IRELGVEIYL PTTVMNDILT DYKTFYLTHS NIVTYESSII DSNTFDPILY
PELKMSNPKY DPVLNTTANV DWHKKTEWKE AGHIGITTER PQISNSIIEC NSGTLIQKPI
SLPNFRNLEK INQVKINDLY TEEFLKEGK
