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

XP_009101732.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

HB-other

Protein Properties

Length: 1640aa MW: 184051 Da PI: 5.0814

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009101732.1	genome	NCBI	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 XP_009101732.1 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	8.1E-17	9	79	IPR009057	Homeodomain-like
SuperFamily	SSF46689	2.05E-15	18	80	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.601	20	80	IPR001356	Homeobox domain
SMART	SM00389	2.9E-16	22	84	IPR001356	Homeobox domain
Pfam	PF00046	9.5E-16	23	79	IPR001356	Homeobox domain
CDD	cd00086	9.93E-14	23	81	No hit	No description
PROSITE profile	PS50827	16.574	528	587	IPR018501	DDT domain
SMART	SM00571	3.7E-23	528	587	IPR018501	DDT domain
Pfam	PF02791	1.5E-16	529	584	IPR018501	DDT domain
Pfam	PF05066	6.2E-15	710	777	IPR007759	HB1/Asxl, restriction endonuclease HTH domain
Pfam	PF15612	4.0E-7	903	941	IPR028942	WHIM1 domain
Pfam	PF15613	5.3E-12	1056	1128	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: 1640 aa Download sequence Send to blast
MEDGSEADKN ITPEGAAAAT ESKSKRKMKT AAQLQVLENT YKAEPYPSEA LRADLSVQLN 60 LSDRQLQMWF CHRRLKDRKS STPTKRQRKE STPSSAAESS KQAAAVNAAD LVAGNELNSF 120 DSRRTARGGG GGGVTVVRRF NEPSPTEVRA IGYVEAQLGE RLREDGPILG MEFDPLPPGA 180 FGTPIEMPTH RKAATRPAFE TNLYVRSDVK PVKESVRTIR EYQFLPEQPS SRTDHSERAS 240 PASHHYGVPL DASVVMRASS VSGGHRDDYN VSPPIPNLNL SAHHVKPGHV LGEYDSPYQK 300 SYVDPALHGN EDPFVKSERE LGNDDDEDDG DDDVLLQLER KRKSEEARIA REVEAHEKRI 360 RKELERQDML RRKREEQIRK EVERQDRERR KEEERLLRER QREEERYLKE QMKEMQRREK 420 FLKKETIRAE KMRQKEEMRR VKEVARLKAA NERAMARKIA KESMELIEDE RLELMEVAAL 480 SLGLPSMVAL DFETLQNLDA YRDKQVTFPP TSVNLKKPFA VKPWNGSDEN IANLLMVWRF 540 LINFADVLGL WPFTLDEFTQ AFHDHDPRLM GEIHIVLLKT IIKDIEGVAR TLSVGVGANQ 600 NAAANPGGGH PHLVEGAYAW GFDIRSWRKN LNVFTWPEIL RQLALSAGFG PELKKQDIKT 660 MSVHDENEAN NSENVIFNLR IGAAAENAFA KMQEKGLSNP RRSRHRLTPG TVKFAAFHVL 720 SIEGEKGLTI LDVAEKIQKS GLRDLTTSRT PEASVAAALS RDTKLFERVA PSTYCVRPSY 780 RKDAGDAETI FAEARERIRM FKSGVTDVED VDEAEREEDS ESDVGDEPEV DLNLKKEDPD 840 ALEEIGKLTG GVEPSLENGK LKTEPEANPL TPSLPEESTK DEKIDDILPD QEDGDCFDVS 900 KLGEQWVQGL VEGDYSSLSI EERLNALVAL IGIAIEGNTI RISLEERLEV ASALKKQMWS 960 EVQLDKRWKE ESLIRANYLS YPTPKTQESP SASQDPLSLP QIDVAAGPSL QLQENVSGME 1020 NLQYHHQQSY TADRERPRAE LKAYVGYKAE ELYVYRSLPL GLDRRRNRYW RFSASASRND 1080 PGCGRIFVEL QDGRWRLIDS EEGFDCLVKS LDVRGVRESH LHFMLLKMEA SFKEAVRRNV 1140 ETSTDLDTDT AEISSTFKIE LGDGGRSGVL QRFQSFERWM WDNMVHPGAL SAFKYGAKKS 1200 TPLFHICRSC AELHFAVDVC CPGCGQMMMS GGLDVSEMCF ADQVAQLGEI SRRDAGFILR 1260 GSNLSPLRIR LLKIQLALVE ASLPPEGLQT HWTESLRKTW GLKLLSSSSP EELHQVLAML 1320 EVALKKDFLS SNFETTCELL DLSEEALLRD VKVVPWIPKT TGGVALRLFE LDSSIAYTPD 1380 QNKDPQKDKE SEDFVGLETS FLRNVQETDV IEATPVQVAY AQEDTEPGSG RGRPPRGRGR 1440 PRSQRGKKPS PASGKPPRSA ANSNGEPMLR PRAQPRGGRK KGRRSSGTRT RPTKGTLGIS 1500 NEVGVGGGGR RGKEVNVNAK TALHDWVVET PDDDGEASSS GRSFQYDDDV MAPVDDFGES 1560 SKLVGRGEFS LHSDDEYEEE DMDTKMNVDD EDEDYINEED SDGGREQATE MISMDDAAAS 1620 QRRFPFEDPD LTSSSSSDFQ

Sequence ? help Back to Top

Protein Sequence Length: 1640 aa Download sequence Send to blast

MEDGSEADKN ITPEGAAAAT ESKSKRKMKT AAQLQVLENT YKAEPYPSEA LRADLSVQLN  60
LSDRQLQMWF CHRRLKDRKS STPTKRQRKE STPSSAAESS KQAAAVNAAD LVAGNELNSF  120
DSRRTARGGG GGGVTVVRRF NEPSPTEVRA IGYVEAQLGE RLREDGPILG MEFDPLPPGA  180
FGTPIEMPTH RKAATRPAFE TNLYVRSDVK PVKESVRTIR EYQFLPEQPS SRTDHSERAS  240
PASHHYGVPL DASVVMRASS VSGGHRDDYN VSPPIPNLNL SAHHVKPGHV LGEYDSPYQK  300
SYVDPALHGN EDPFVKSERE LGNDDDEDDG DDDVLLQLER KRKSEEARIA REVEAHEKRI  360
RKELERQDML RRKREEQIRK EVERQDRERR KEEERLLRER QREEERYLKE QMKEMQRREK  420
FLKKETIRAE KMRQKEEMRR VKEVARLKAA NERAMARKIA KESMELIEDE RLELMEVAAL  480
SLGLPSMVAL DFETLQNLDA YRDKQVTFPP TSVNLKKPFA VKPWNGSDEN IANLLMVWRF  540
LINFADVLGL WPFTLDEFTQ AFHDHDPRLM GEIHIVLLKT IIKDIEGVAR TLSVGVGANQ  600
NAAANPGGGH PHLVEGAYAW GFDIRSWRKN LNVFTWPEIL RQLALSAGFG PELKKQDIKT  660
MSVHDENEAN NSENVIFNLR IGAAAENAFA KMQEKGLSNP RRSRHRLTPG TVKFAAFHVL  720
SIEGEKGLTI LDVAEKIQKS GLRDLTTSRT PEASVAAALS RDTKLFERVA PSTYCVRPSY  780
RKDAGDAETI FAEARERIRM FKSGVTDVED VDEAEREEDS ESDVGDEPEV DLNLKKEDPD  840
ALEEIGKLTG GVEPSLENGK LKTEPEANPL TPSLPEESTK DEKIDDILPD QEDGDCFDVS  900
KLGEQWVQGL VEGDYSSLSI EERLNALVAL IGIAIEGNTI RISLEERLEV ASALKKQMWS  960
EVQLDKRWKE ESLIRANYLS YPTPKTQESP SASQDPLSLP QIDVAAGPSL QLQENVSGME  1020
NLQYHHQQSY TADRERPRAE LKAYVGYKAE ELYVYRSLPL GLDRRRNRYW RFSASASRND  1080
PGCGRIFVEL QDGRWRLIDS EEGFDCLVKS LDVRGVRESH LHFMLLKMEA SFKEAVRRNV  1140
ETSTDLDTDT AEISSTFKIE LGDGGRSGVL QRFQSFERWM WDNMVHPGAL SAFKYGAKKS  1200
TPLFHICRSC AELHFAVDVC CPGCGQMMMS GGLDVSEMCF ADQVAQLGEI SRRDAGFILR  1260
GSNLSPLRIR LLKIQLALVE ASLPPEGLQT HWTESLRKTW GLKLLSSSSP EELHQVLAML  1320
EVALKKDFLS SNFETTCELL DLSEEALLRD VKVVPWIPKT TGGVALRLFE LDSSIAYTPD  1380
QNKDPQKDKE SEDFVGLETS FLRNVQETDV IEATPVQVAY AQEDTEPGSG RGRPPRGRGR  1440
PRSQRGKKPS PASGKPPRSA ANSNGEPMLR PRAQPRGGRK KGRRSSGTRT RPTKGTLGIS  1500
NEVGVGGGGR RGKEVNVNAK TALHDWVVET PDDDGEASSS GRSFQYDDDV MAPVDDFGES  1560
SKLVGRGEFS LHSDDEYEEE DMDTKMNVDD EDEDYINEED SDGGREQATE MISMDDAAAS  1620
QRRFPFEDPD LTSSSSSDFQ

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Highly expressed in growing tissues such as inflorescence and flower meristems, young leaves and floral organs. Expressed in roots, rosette and cauline leaves, stems, flowers, inflorescences and siliques. {ECO:0000269\|PubMed:22694359}.

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009101732.1

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	7e-97	AB005239.1 Arabidopsis thaliana genomic DNA, chromosome 5, P1 clone:MLN1.
GenBank	CP002688	7e-97	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009101732.1	0.0	PREDICTED: homeobox-DDT domain protein RLT2
Refseq	XP_018508021.1	0.0	PREDICTED: homeobox-DDT domain protein RLT2
Swissprot	Q9FFH1	0.0	RLT2_ARATH; Homeobox-DDT domain protein RLT2
TrEMBL	M4EY35	0.0	M4EY35_BRARP; Uncharacterized protein
STRING	Bra033725.1-P	0.0	(Brassica rapa)

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