PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

RrC2224_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

HB-other

Protein Properties

Length: 1642aa MW: 184475 Da PI: 5.0796

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC2224_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	56.7	4.1e-18	23	79	1	57
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 ++kR t+ ql++Le+ ++ ++yps++ r++L+ +l+L++rq ++WF+ rR k++k RrC2224_p1 23 KSKRKMKTAAQLQVLENTYKAEPYPSEALRADLSVQLNLSDRQLQMWFCHRRLKDRK 79 679****************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	2.9E-17	6	79	IPR009057	Homeodomain-like
SuperFamily	SSF46689	1.58E-15	16	80	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.601	20	80	IPR001356	Homeobox domain
SMART	SM00389	2.1E-16	22	84	IPR001356	Homeobox domain
Pfam	PF00046	9.6E-16	23	79	IPR001356	Homeobox domain
CDD	cd00086	7.83E-14	23	81	No hit	No description
PROSITE profile	PS50827	16.574	536	595	IPR018501	DDT domain
SMART	SM00571	3.7E-23	536	595	IPR018501	DDT domain
Pfam	PF02791	1.5E-16	537	592	IPR018501	DDT domain
Pfam	PF05066	1.7E-15	718	785	IPR007759	HB1/Asxl, restriction endonuclease HTH domain
Pfam	PF15612	4.9E-7	907	945	IPR028942	WHIM1 domain
Pfam	PF15613	7.7E-13	1054	1127	IPR028941	WHIM2 domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010228	Biological Process	vegetative to reproductive phase transition of meristem
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1642 aa Download sequence Send to blast
MEDLSEADKN KTPEGGGAAT ESKSKRKMKT AAQLQVLENT YKAEPYPSEA LRADLSVQLN 60 LSDRQLQMWF CHRRLKDRKS STPAKRQRKD STTPSAAESS KQATAVAATV NAADLVAGNE 120 HNSFPPHELD SRRTGGGGVT VVRRFNEPSP SEVRAIGYVE AQLGERLRDD GPILGMEFDP 180 LPPGAFGTPI EMPSHHRKAA TRPAYETNLY DSVRTIREYQ FLPEQPSSRT DHSERASPAS 240 HHYGVPLDAS SVVMRASSVS GGHHRDDYKS PPQMIPNLNL SAHQVKPGHV SSHHLGEYDS 300 TYQKSYVDPA LHGNEDPFVK SERELGNDND EEDDDGDDGD DVLLQLERKR KSEEARISRE 360 VEAHEKKIRK ELERQDMLRR KREEQIRKEM ERQDRERRKE EERLLRERQR EEERYHKEQM 420 KEMQRREKFL KKETLRAEKM RQKEEMRRVK EVARLKAANE RAMARKIAKE SMELIEDERL 480 ELMEVAALAQ GLPSMLALDF ETLQNLDAYR DKQVTFPPTS VNLKKPFAVK PWNGSDENIA 540 NLLMVWRFLI NFADVLGLWP FTLDEFTQAF HDHDPRLMGE IHIVLLKTII KDIEGVARTL 600 SVCVGANQNA AANPGGGHPH VVEGAYAWGF DIRSWRKNLN VFTWPEILRQ LALSAGLGPE 660 LKKQDIKTMS VHEENEANNS ENVIFNLRVG AAAENAFAKM QERGLSNPRR SRHRLTPGTV 720 KFAAFHVLSI EGEKGLTILE VAEKIQKSGL RDLTTSRTPE ASVAAALSRD TKLFERVAPS 780 TYCVRPSYRK DAGDAETIFA EARERIRMFK SGVTDVDEEA EREEDSESDV GDDPEVDLNL 840 KKEDPDALEI GTLTGGVEPS LENGKLETEP TTSLPEDTKD DIIPDQSLED AVANDGDSAG 900 FDVSKLGEQW VQGLVEGDYS NLSIEERLNA LVALIGIAIE GNTIRISLEE RLEVASALKK 960 QMWSEVQLDK RWKEESLIRA NYLSYPTPKL GIQESPSADV TPISSQDPLQ LQENVSGTET 1020 LQYQQQSYTA DRERLRAELK AYVGYKAEEL YVYRSLPLGQ DRRRNRYWRF SASASRNDPG 1080 CGRIFVELQD GRWRLIDSEE GFDCLVKSLD VRGVRESHLH FMLLKIKASF KEAVRKNVDT 1140 ELCSISTGVD LDSDTAEISS TFKIELGDGD GSGVLQRFQS FERWMWDNML HPGALSAFKH 1200 GAKKSIPLFH ICRSCAELHF AGDVCCPGCG QMMPGGLDVS ELCFADQVAQ LGEILRRDAG 1260 FILRGSNLSP LRIRLLKIQL ALVEASLPPE GLQTHWTESL RKTWGLKLLS SSSPEELHQV 1320 LTMLEVAVKR DFLSSNFETT CELLDLSEEA VVRDVKVLPW IPKTTGGVAL RLFELDSSIA 1380 YTPDQNKDPQ KDKESEDFVG LETNFVRNVQ EEQDVIEATP VQVAYAQEDT EPGLVRGRPQ 1440 RGRGRPRSQR GKKPSQASGG RPPRGASNSN GEPMLRPRAQ PRGGRKKGRR SSGTRTRPTK 1500 GTLGISNEVV VVGRRGKEVA KTALHDWVET PEDEGEASSS GRSFHYDDDD VMAPVDDFGE 1560 TSKLVGRGEF SLHSDDEYEE EEEDMDTKMN VDDEDEDYIN EDSDGGREQP AEMISMDAAA 1620 AARRRFPFED PDLTSSSSSD FQ

Sequence ? help Back to Top

Protein Sequence Length: 1642 aa Download sequence Send to blast

MEDLSEADKN KTPEGGGAAT ESKSKRKMKT AAQLQVLENT YKAEPYPSEA LRADLSVQLN  60
LSDRQLQMWF CHRRLKDRKS STPAKRQRKD STTPSAAESS KQATAVAATV NAADLVAGNE  120
HNSFPPHELD SRRTGGGGVT VVRRFNEPSP SEVRAIGYVE AQLGERLRDD GPILGMEFDP  180
LPPGAFGTPI EMPSHHRKAA TRPAYETNLY DSVRTIREYQ FLPEQPSSRT DHSERASPAS  240
HHYGVPLDAS SVVMRASSVS GGHHRDDYKS PPQMIPNLNL SAHQVKPGHV SSHHLGEYDS  300
TYQKSYVDPA LHGNEDPFVK SERELGNDND EEDDDGDDGD DVLLQLERKR KSEEARISRE  360
VEAHEKKIRK ELERQDMLRR KREEQIRKEM ERQDRERRKE EERLLRERQR EEERYHKEQM  420
KEMQRREKFL KKETLRAEKM RQKEEMRRVK EVARLKAANE RAMARKIAKE SMELIEDERL  480
ELMEVAALAQ GLPSMLALDF ETLQNLDAYR DKQVTFPPTS VNLKKPFAVK PWNGSDENIA  540
NLLMVWRFLI NFADVLGLWP FTLDEFTQAF HDHDPRLMGE IHIVLLKTII KDIEGVARTL  600
SVCVGANQNA AANPGGGHPH VVEGAYAWGF DIRSWRKNLN VFTWPEILRQ LALSAGLGPE  660
LKKQDIKTMS VHEENEANNS ENVIFNLRVG AAAENAFAKM QERGLSNPRR SRHRLTPGTV  720
KFAAFHVLSI EGEKGLTILE VAEKIQKSGL RDLTTSRTPE ASVAAALSRD TKLFERVAPS  780
TYCVRPSYRK DAGDAETIFA EARERIRMFK SGVTDVDEEA EREEDSESDV GDDPEVDLNL  840
KKEDPDALEI GTLTGGVEPS LENGKLETEP TTSLPEDTKD DIIPDQSLED AVANDGDSAG  900
FDVSKLGEQW VQGLVEGDYS NLSIEERLNA LVALIGIAIE GNTIRISLEE RLEVASALKK  960
QMWSEVQLDK RWKEESLIRA NYLSYPTPKL GIQESPSADV TPISSQDPLQ LQENVSGTET  1020
LQYQQQSYTA DRERLRAELK AYVGYKAEEL YVYRSLPLGQ DRRRNRYWRF SASASRNDPG  1080
CGRIFVELQD GRWRLIDSEE GFDCLVKSLD VRGVRESHLH FMLLKIKASF KEAVRKNVDT  1140
ELCSISTGVD LDSDTAEISS TFKIELGDGD GSGVLQRFQS FERWMWDNML HPGALSAFKH  1200
GAKKSIPLFH ICRSCAELHF AGDVCCPGCG QMMPGGLDVS ELCFADQVAQ LGEILRRDAG  1260
FILRGSNLSP LRIRLLKIQL ALVEASLPPE GLQTHWTESL RKTWGLKLLS SSSPEELHQV  1320
LTMLEVAVKR DFLSSNFETT CELLDLSEEA VVRDVKVLPW IPKTTGGVAL RLFELDSSIA  1380
YTPDQNKDPQ KDKESEDFVG LETNFVRNVQ EEQDVIEATP VQVAYAQEDT EPGLVRGRPQ  1440
RGRGRPRSQR GKKPSQASGG RPPRGASNSN GEPMLRPRAQ PRGGRKKGRR SSGTRTRPTK  1500
GTLGISNEVV VVGRRGKEVA KTALHDWVET PEDEGEASSS GRSFHYDDDD VMAPVDDFGE  1560
TSKLVGRGEF SLHSDDEYEE EEEDMDTKMN VDDEDEDYIN EDSDGGREQP AEMISMDAAA  1620
AARRRFPFED PDLTSSSSSD FQ

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional regulator required for the maintenance of the plant vegetative phase. In association with CHR11 or CHR17 may prevent the early activation of the vegetative-to-reproductive transition by regulating key genes that contribute to flower timing, such as FT, SEP1, SEP3, AGL8/FUL, SOC1 and FLC (PubMed:22694359). Involved in the transcriptional regulation of seed-specific gene expression (PubMed:23872538). {ECO:0000269\|PubMed:22694359, ECO:0000269\|PubMed:23872538}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB005239	6e-76	AB005239.1 Arabidopsis thaliana genomic DNA, chromosome 5, P1 clone:MLN1.
GenBank	CP002688	6e-76	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018483497.1	0.0	PREDICTED: homeobox-DDT domain protein RLT2 isoform X2
Swissprot	Q9FFH1	0.0	RLT2_ARATH; Homeobox-DDT domain protein RLT2
TrEMBL	A0A3N6QC36	0.0	A0A3N6QC36_BRACR; Uncharacterized protein
STRING	Bo7g067190.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM9601	25	30

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G44180.1	0.0	Homeodomain-like transcriptional regulator