TRF42_DROME
ID TRF42_DROME Reviewed; 407 AA.
AC Q9VC07;
DT 30-NOV-2016, integrated into UniProtKB/Swiss-Prot.
DT 01-MAY-2000, sequence version 1.
DT 03-AUG-2022, entry version 153.
DE RecName: Full=Inactive non-canonical poly(A) RNA polymerase protein Trf4-2 {ECO:0000305};
DE AltName: Full=Topoisomerase 1-related protein 4-2 {ECO:0000303|PubMed:18765642};
GN Name=Trf4-2 {ECO:0000303|PubMed:18765642};
GN ORFNames=CG17462 {ECO:0000312|FlyBase:FBgn0039251};
OS Drosophila melanogaster (Fruit fly).
OC Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota;
OC Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea;
OC Drosophilidae; Drosophila; Sophophora.
OX NCBI_TaxID=7227 {ECO:0000312|Proteomes:UP000000803};
RN [1] {ECO:0000312|Proteomes:UP000000803}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Berkeley {ECO:0000312|Proteomes:UP000000803};
RX PubMed=10731132; DOI=10.1126/science.287.5461.2185;
RA Adams M.D., Celniker S.E., Holt R.A., Evans C.A., Gocayne J.D.,
RA Amanatides P.G., Scherer S.E., Li P.W., Hoskins R.A., Galle R.F.,
RA George R.A., Lewis S.E., Richards S., Ashburner M., Henderson S.N.,
RA Sutton G.G., Wortman J.R., Yandell M.D., Zhang Q., Chen L.X., Brandon R.C.,
RA Rogers Y.-H.C., Blazej R.G., Champe M., Pfeiffer B.D., Wan K.H., Doyle C.,
RA Baxter E.G., Helt G., Nelson C.R., Miklos G.L.G., Abril J.F., Agbayani A.,
RA An H.-J., Andrews-Pfannkoch C., Baldwin D., Ballew R.M., Basu A.,
RA Baxendale J., Bayraktaroglu L., Beasley E.M., Beeson K.Y., Benos P.V.,
RA Berman B.P., Bhandari D., Bolshakov S., Borkova D., Botchan M.R., Bouck J.,
RA Brokstein P., Brottier P., Burtis K.C., Busam D.A., Butler H., Cadieu E.,
RA Center A., Chandra I., Cherry J.M., Cawley S., Dahlke C., Davenport L.B.,
RA Davies P., de Pablos B., Delcher A., Deng Z., Mays A.D., Dew I.,
RA Dietz S.M., Dodson K., Doup L.E., Downes M., Dugan-Rocha S., Dunkov B.C.,
RA Dunn P., Durbin K.J., Evangelista C.C., Ferraz C., Ferriera S.,
RA Fleischmann W., Fosler C., Gabrielian A.E., Garg N.S., Gelbart W.M.,
RA Glasser K., Glodek A., Gong F., Gorrell J.H., Gu Z., Guan P., Harris M.,
RA Harris N.L., Harvey D.A., Heiman T.J., Hernandez J.R., Houck J., Hostin D.,
RA Houston K.A., Howland T.J., Wei M.-H., Ibegwam C., Jalali M., Kalush F.,
RA Karpen G.H., Ke Z., Kennison J.A., Ketchum K.A., Kimmel B.E., Kodira C.D.,
RA Kraft C.L., Kravitz S., Kulp D., Lai Z., Lasko P., Lei Y., Levitsky A.A.,
RA Li J.H., Li Z., Liang Y., Lin X., Liu X., Mattei B., McIntosh T.C.,
RA McLeod M.P., McPherson D., Merkulov G., Milshina N.V., Mobarry C.,
RA Morris J., Moshrefi A., Mount S.M., Moy M., Murphy B., Murphy L.,
RA Muzny D.M., Nelson D.L., Nelson D.R., Nelson K.A., Nixon K., Nusskern D.R.,
RA Pacleb J.M., Palazzolo M., Pittman G.S., Pan S., Pollard J., Puri V.,
RA Reese M.G., Reinert K., Remington K., Saunders R.D.C., Scheeler F.,
RA Shen H., Shue B.C., Siden-Kiamos I., Simpson M., Skupski M.P., Smith T.J.,
RA Spier E., Spradling A.C., Stapleton M., Strong R., Sun E., Svirskas R.,
RA Tector C., Turner R., Venter E., Wang A.H., Wang X., Wang Z.-Y.,
RA Wassarman D.A., Weinstock G.M., Weissenbach J., Williams S.M., Woodage T.,
RA Worley K.C., Wu D., Yang S., Yao Q.A., Ye J., Yeh R.-F., Zaveri J.S.,
RA Zhan M., Zhang G., Zhao Q., Zheng L., Zheng X.H., Zhong F.N., Zhong W.,
RA Zhou X., Zhu S.C., Zhu X., Smith H.O., Gibbs R.A., Myers E.W., Rubin G.M.,
RA Venter J.C.;
RT "The genome sequence of Drosophila melanogaster.";
RL Science 287:2185-2195(2000).
RN [2] {ECO:0000312|Proteomes:UP000000803}
RP GENOME REANNOTATION.
RC STRAIN=Berkeley {ECO:0000312|Proteomes:UP000000803};
RX PubMed=12537572; DOI=10.1186/gb-2002-3-12-research0083;
RA Misra S., Crosby M.A., Mungall C.J., Matthews B.B., Campbell K.S.,
RA Hradecky P., Huang Y., Kaminker J.S., Millburn G.H., Prochnik S.E.,
RA Smith C.D., Tupy J.L., Whitfield E.J., Bayraktaroglu L., Berman B.P.,
RA Bettencourt B.R., Celniker S.E., de Grey A.D.N.J., Drysdale R.A.,
RA Harris N.L., Richter J., Russo S., Schroeder A.J., Shu S.Q., Stapleton M.,
RA Yamada C., Ashburner M., Gelbart W.M., Rubin G.M., Lewis S.E.;
RT "Annotation of the Drosophila melanogaster euchromatic genome: a systematic
RT review.";
RL Genome Biol. 3:RESEARCH0083.1-RESEARCH0083.22(2002).
RN [3] {ECO:0000312|EMBL:AAM50912.1}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=Berkeley {ECO:0000312|EMBL:AAM50912.1};
RX PubMed=12537569; DOI=10.1186/gb-2002-3-12-research0080;
RA Stapleton M., Carlson J.W., Brokstein P., Yu C., Champe M., George R.A.,
RA Guarin H., Kronmiller B., Pacleb J.M., Park S., Wan K.H., Rubin G.M.,
RA Celniker S.E.;
RT "A Drosophila full-length cDNA resource.";
RL Genome Biol. 3:RESEARCH0080.1-RESEARCH0080.8(2002).
RN [4] {ECO:0000305}
RP LACK OF RNA POLYMERASE ACTIVITY, DEVELOPMENTAL STAGE, AND DISRUPTION
RP PHENOTYPE.
RX PubMed=18765642; DOI=10.1128/mcb.00448-08;
RA Nakamura R., Takeuchi R., Takata K., Shimanouchi K., Abe Y., Kanai Y.,
RA Ruike T., Ihara A., Sakaguchi K.;
RT "TRF4 is involved in polyadenylation of snRNAs in Drosophila
RT melanogaster.";
RL Mol. Cell. Biol. 28:6620-6631(2008).
CC -!- DEVELOPMENTAL STAGE: Expressed in unfertilized eggs and in early
CC embryos from 0 to 4 hours. {ECO:0000269|PubMed:18765642}.
CC -!- DISRUPTION PHENOTYPE: No visible phenotype. Flies are viable and
CC fertile. {ECO:0000269|PubMed:18765642}.
CC -!- SIMILARITY: Belongs to the DNA polymerase type-B-like family.
CC {ECO:0000305}.
CC -!- CAUTION: Contains the conserved metal-binding sites characteristic of
CC RNA polymerases but has been shown to lack RNA polymerase activity when
CC expressed in E.coli. {ECO:0000269|PubMed:18765642}.
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DR EMBL; AE014297; AAF56369.1; -; Genomic_DNA.
DR EMBL; AE014297; AGB96321.1; -; Genomic_DNA.
DR EMBL; AY119052; AAM50912.1; -; mRNA.
DR RefSeq; NP_001262941.1; NM_001276012.1.
DR RefSeq; NP_651313.1; NM_143056.3.
DR AlphaFoldDB; Q9VC07; -.
DR SMR; Q9VC07; -.
DR STRING; 7227.FBpp0084094; -.
DR PaxDb; Q9VC07; -.
DR DNASU; 42983; -.
DR EnsemblMetazoa; FBtr0084718; FBpp0084094; FBgn0039251.
DR EnsemblMetazoa; FBtr0337011; FBpp0307940; FBgn0039251.
DR GeneID; 42983; -.
DR KEGG; dme:Dmel_CG17462; -.
DR UCSC; CG17462-RA; d. melanogaster.
DR CTD; 42983; -.
DR FlyBase; FBgn0039251; Trf4-2.
DR VEuPathDB; VectorBase:FBgn0039251; -.
DR eggNOG; KOG1906; Eukaryota.
DR GeneTree; ENSGT00940000169468; -.
DR HOGENOM; CLU_013572_0_0_1; -.
DR InParanoid; Q9VC07; -.
DR OMA; TLMCISF; -.
DR OrthoDB; 1016712at2759; -.
DR PhylomeDB; Q9VC07; -.
DR SignaLink; Q9VC07; -.
DR BioGRID-ORCS; 42983; 0 hits in 3 CRISPR screens.
DR GenomeRNAi; 42983; -.
DR PRO; PR:Q9VC07; -.
DR Proteomes; UP000000803; Chromosome 3R.
DR Bgee; FBgn0039251; Expressed in adult abdomen and 12 other tissues.
DR GO; GO:0005730; C:nucleolus; ISS:FlyBase.
DR GO; GO:0031499; C:TRAMP complex; IBA:GO_Central.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0004652; F:polynucleotide adenylyltransferase activity; ISS:FlyBase.
DR GO; GO:0071046; P:nuclear polyadenylation-dependent ncRNA catabolic process; ISS:FlyBase.
DR GO; GO:0031123; P:RNA 3'-end processing; IBA:GO_Central.
DR GO; GO:0043631; P:RNA polyadenylation; IEA:InterPro.
DR Gene3D; 3.30.460.10; -; 1.
DR InterPro; IPR043519; NT_sf.
DR InterPro; IPR002058; PAP_assoc.
DR InterPro; IPR002934; Polymerase_NTP_transf_dom.
DR InterPro; IPR045862; Trf4-like.
DR PANTHER; PTHR23092; PTHR23092; 1.
DR Pfam; PF01909; NTP_transf_2; 1.
DR Pfam; PF03828; PAP_assoc; 1.
DR SUPFAM; SSF81301; SSF81301; 1.
DR PROSITE; PS00216; SUGAR_TRANSPORT_1; 1.
PE 2: Evidence at transcript level;
KW Magnesium; Metal-binding; Reference proteome.
FT CHAIN 1..407
FT /note="Inactive non-canonical poly(A) RNA polymerase
FT protein Trf4-2"
FT /id="PRO_0000438420"
FT DOMAIN 221..280
FT /note="PAP-associated"
FT /evidence="ECO:0000255"
FT REGION 354..390
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 355..375
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT BINDING 85
FT /ligand="Mg(2+)"
FT /ligand_id="ChEBI:CHEBI:18420"
FT /evidence="ECO:0000250|UniProtKB:O13833"
FT BINDING 87
FT /ligand="Mg(2+)"
FT /ligand_id="ChEBI:CHEBI:18420"
FT /evidence="ECO:0000250|UniProtKB:O13833"
SQ SEQUENCE 407 AA; 44997 MW; 2EF2562042E9696D CRC64;
MCDEANPAKP WQLPDVVYGN GIPALCLLHQ EIEQFYNYIR STPTEFCLRA GAVRRIEDVV
LSIWPSASVD LFGSFRTGLN LPDSDIDLVV YYKFWNPRLL HELQNELVSQ GVTDPDTVTV
LDKASVPVVK FTDLISRIRF DVTFNSVASG VQAADLIKDF IRHFPELPKL VMVLKQFLSL
HGFNEVYNSG GVSSYALTLM VISFLQQHAR SNRRLSEHSK LALLLIQFLD YYGRKFDFFK
YGISVLGQGG CVEKARLRST LGENNWQSVL CIEDPVTPTN DIGRSSYGVL GVMQGFGAAF
VKLSKLVDSD SSKIVGPILA NIVEVPQSII NYRAWVHYNF QHLLTPELPC ADSLVQPSPT
GSTSPSASAS ASEDERSGGP ATIGFGRCDD PPQNIDIVAD LANLKMN
