SPT42_ARATH
ID SPT42_ARATH Reviewed; 116 AA.
AC Q94C60; Q9FFP7;
DT 22-NOV-2005, integrated into UniProtKB/Swiss-Prot.
DT 01-DEC-2001, sequence version 1.
DT 03-AUG-2022, entry version 123.
DE RecName: Full=Transcription elongation factor SPT4 homolog 2;
GN OrderedLocusNames=At5g63670; ORFNames=MBK5.15;
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis.
OX NCBI_TaxID=3702;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=9330910; DOI=10.1093/dnares/4.3.215;
RA Sato S., Kotani H., Nakamura Y., Kaneko T., Asamizu E., Fukami M.,
RA Miyajima N., Tabata S.;
RT "Structural analysis of Arabidopsis thaliana chromosome 5. I. Sequence
RT features of the 1.6 Mb regions covered by twenty physically assigned P1
RT clones.";
RL DNA Res. 4:215-230(1997).
RN [2]
RP GENOME REANNOTATION.
RC STRAIN=cv. Columbia;
RX PubMed=27862469; DOI=10.1111/tpj.13415;
RA Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
RA Town C.D.;
RT "Araport11: a complete reannotation of the Arabidopsis thaliana reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Columbia;
RX PubMed=14593172; DOI=10.1126/science.1088305;
RA Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M.,
RA Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G.,
RA Liu S.X., Lam B., Sakano H., Wu T., Yu G., Miranda M., Quach H.L.,
RA Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C.,
RA Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J.,
RA Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A.,
RA Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C.,
RA Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X.,
RA Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M.,
RA Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K.,
RA Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A.,
RA Ecker J.R.;
RT "Empirical analysis of transcriptional activity in the Arabidopsis
RT genome.";
RL Science 302:842-846(2003).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RA Brover V.V., Troukhan M.E., Alexandrov N.A., Lu Y.-P., Flavell R.B.,
RA Feldmann K.A.;
RT "Full-length cDNA from Arabidopsis thaliana.";
RL Submitted (MAR-2002) to the EMBL/GenBank/DDBJ databases.
CC -!- FUNCTION: May regulate transcription elongation by RNA polymerase II.
CC May enhance transcriptional pausing at sites proximal to the promoter,
CC which may in turn facilitate the assembly of an elongation competent
CC RNA polymerase II complex (By similarity). {ECO:0000250}.
CC -!- INTERACTION:
CC Q94C60; Q9LF53: RGL3; NbExp=3; IntAct=EBI-25522213, EBI-15681313;
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=1;
CC Comment=A number of isoforms are produced. According to EST
CC sequences.;
CC Name=1;
CC IsoId=Q94C60-1; Sequence=Displayed;
CC -!- SIMILARITY: Belongs to the SPT4 family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAB10460.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AB005234; BAB10460.1; ALT_SEQ; Genomic_DNA.
DR EMBL; CP002688; AED97783.1; -; Genomic_DNA.
DR EMBL; AY035161; AAK59665.1; -; mRNA.
DR EMBL; AY063032; AAL34206.1; -; mRNA.
DR EMBL; AY084523; AAM61091.1; -; mRNA.
DR RefSeq; NP_568976.1; NM_125762.4. [Q94C60-1]
DR AlphaFoldDB; Q94C60; -.
DR SMR; Q94C60; -.
DR BioGRID; 21729; 4.
DR IntAct; Q94C60; 1.
DR STRING; 3702.AT5G63670.1; -.
DR PaxDb; Q94C60; -.
DR PRIDE; Q94C60; -.
DR ProteomicsDB; 234099; -. [Q94C60-1]
DR EnsemblPlants; AT5G63670.1; AT5G63670.1; AT5G63670. [Q94C60-1]
DR GeneID; 836487; -.
DR Gramene; AT5G63670.1; AT5G63670.1; AT5G63670. [Q94C60-1]
DR KEGG; ath:AT5G63670; -.
DR Araport; AT5G63670; -.
DR TAIR; locus:2160579; AT5G63670.
DR eggNOG; KOG3490; Eukaryota.
DR HOGENOM; CLU_138052_0_0_1; -.
DR InParanoid; Q94C60; -.
DR OMA; FDGMIAV; -.
DR PhylomeDB; Q94C60; -.
DR PRO; PR:Q94C60; -.
DR Proteomes; UP000006548; Chromosome 5.
DR ExpressionAtlas; Q94C60; baseline and differential.
DR Genevisible; Q94C60; AT.
DR GO; GO:0032044; C:DSIF complex; IBA:GO_Central.
DR GO; GO:0000993; F:RNA polymerase II complex binding; IBA:GO_Central.
DR GO; GO:0008270; F:zinc ion binding; IEA:InterPro.
DR GO; GO:0006325; P:chromatin organization; IBA:GO_Central.
DR GO; GO:0006397; P:mRNA processing; IBA:GO_Central.
DR GO; GO:0032786; P:positive regulation of DNA-templated transcription, elongation; IEA:InterPro.
DR GO; GO:0034243; P:regulation of transcription elongation from RNA polymerase II promoter; IBA:GO_Central.
DR CDD; cd07973; Spt4; 1.
DR Gene3D; 3.30.40.210; -; 1.
DR InterPro; IPR029040; RPABC4/Spt4.
DR InterPro; IPR009287; Spt4.
DR InterPro; IPR022800; Spt4/RpoE2_Znf.
DR InterPro; IPR038510; Spt4_sf.
DR PANTHER; PTHR12882; PTHR12882; 1.
DR Pfam; PF06093; Spt4; 1.
DR PIRSF; PIRSF025023; Spt4; 1.
DR SMART; SM01389; Spt4; 1.
DR SUPFAM; SSF63393; SSF63393; 1.
PE 1: Evidence at protein level;
KW Activator; Alternative splicing; Metal-binding; Nucleus;
KW Reference proteome; Repressor; Transcription; Transcription regulation;
KW Zinc; Zinc-finger.
FT CHAIN 1..116
FT /note="Transcription elongation factor SPT4 homolog 2"
FT /id="PRO_0000210336"
FT ZN_FING 19..39
FT /note="C4-type"
FT /evidence="ECO:0000255"
SQ SEQUENCE 116 AA; 13365 MW; F5FAB55399C84700 CRC64;
MGSAPAQIPT SFGHELRACL RCRLVKTYDQ FRDAGCENCP FFKMEEDHER IVEVTTPNFN
GIISVMDPSR SWAARWLRIG KFAPGCYTLA VSEPLPEEMQ HLCQEERVQY VLPKRM
