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_009109719.1

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: 1563aa MW: 176095 Da PI: 4.9915

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009109719.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	59.9	4.1e-19	39	95	1	57
TT--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 1 rrkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 ++kR+ t+ ql++Lee+++++ yps+++r+eL++kl+L++rq ++WF+ rR k+kk XP_009109719.1 39 KSKRQMKTPFQLQTLEEVYAEETYPSEATRAELSEKLDLSDRQLQMWFCHRRLKDKK 95 689****************************************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	5.13E-16	35	95	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.309	36	96	IPR001356	Homeobox domain
SMART	SM00389	1.7E-18	38	100	IPR001356	Homeobox domain
CDD	cd00086	8.57E-15	39	95	No hit	No description
Pfam	PF00046	9.3E-17	39	95	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	6.2E-17	41	95	IPR009057	Homeodomain-like
PROSITE profile	PS50827	17.54	494	553	IPR018501	DDT domain
SMART	SM00571	6.0E-24	494	553	IPR018501	DDT domain
Pfam	PF02791	1.5E-17	495	550	IPR018501	DDT domain
Pfam	PF05066	3.6E-13	676	743	IPR007759	HB1/Asxl, restriction endonuclease HTH domain
Pfam	PF15612	1.4E-6	851	893	IPR028942	WHIM1 domain
Pfam	PF15613	9.5E-12	985	1057	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:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 1563 aa Download sequence Send to blast
MEMGSDEEDQ IKNVNVGDVN KNKKKKIDTF NNKDSLSSKS KRQMKTPFQL QTLEEVYAEE 60 TYPSEATRAE LSEKLDLSDR QLQMWFCHRR LKDKKDGQAK KPVQPAATPA LSSVNELPAA 120 DDRSGSGSGS GCSPYSESRR NFESGSGSSG ADLGEYEKGG YEPPRLSVMV RRAVVCVEAQ 180 LGEPLREDGP VLGMEFDQLP PGAFGTPIAM QTHQGHLYES KMYEPHDVRP PRQSLDDPSS 240 YTPEINGRYS ESHARGMDYE TSRSKSSSFM HGNGPVPRPY GTHGNASLNG STSQQDMSSP 300 IVPSAHGDSF LLERKVNDGR VGRGSGQKDP EKLEIQRKKY QERMRKEMER HERERRKEEE 360 RLMRERIKEE EKLQREQRRE MERREKFLQR ENERAEKQKQ KDEIRRERDA IRRKIAIEKA 420 TARRIARESM DLIEDEQLEL MDLAAASKGL PSVLQLDHDT LQNLELYRDS LSAFPPKALQ 480 LKMPFTISPW KDSEENVGNL LMVWRFLISF SDVLDLWPFT LDEFIQAFHD YDSRLLGEIH 540 ITLLRSIIRD IEDVARTPYS GIGNNQYTTA NPEGGHPQIV EGAYAWGFDI RSWKNHLNPL 600 TWPEILRQLA LSSGFGPKLK NKSSHVTQTA HKDEAKGCED NISTIRSGSA AESAFASMLE 660 KGLLAPRKSR HRLTPGTVKF AALHVLSLEG SKGLTLIELA DKIQKSGLRD LSTSKTPEAS 720 ISVALTRDVK LFERIAPCTY CVRAPYVKDP ADGDAILAEA RKKIKAFENG LTGPEDLNDL 780 ERDEDFECDV DEDPEVDDLA TPARASNGLS GKGEDAMFSD VKSIVPQYHS KDSAVSSVDD 840 NNDVVEDSNQ GQSWIQGLTE GDYCHLSVEE RLEALVALVG IVNEGNSLRA SLEDRMEAAN 900 SLKKQMWAEA QLDNSCMRDV LKLGRDPSQR MDESKPMEAV SNDLHKSERG FINQEATQEN 960 CSSKRSRSQL KSYIGDKAEE VYPYRSLPLG QDRHRNRYWH FAASASKTDP CSGLIFVELH 1020 DGKWRLIDSE EAFDFLVASL DMRGIRESHL RIMLLKIEGS FKENAYKAKS VVNHSPADSV 1080 SPSSAIFGSN SDSMEASTSI RVELGRNDRE KESLSKRFHD FQRWMWTETY SSLPSCARKH 1140 GKKRCELLAT CEVCVASYLS EYTHCTSCHR RLSMFDSSER KILDSALTAS PLPFGARLLK 1200 ALLVFLEACV PDEALESFWT EDKRKDWGFR LNASSSPEEL LQVLISLESA IKKESLSSSF 1260 VSAKELSGVA DDSGSVDVFP WIPKTISAVA LRLLDLDASI IYVKPEKPEL ISEDDKEQIS 1320 IFPGKSLTKG KGAKEQEDQD EVIVSNSGKK SKKRRVRFGR VSNRNVKRKK VQESPDRFVA 1380 GRSDVSVDRN LGSVALNHHQ VPGRGKRTVR KRPERNDEDN YRLVSRMADI VRPNSEDVEE 1440 EEEDEQTFRD INEDWASETP REMEVMTPMQ VDDESDNSVG VESEDDDEGQ FVVYDQRNKW 1500 GLDWNSNPNE AMEDDEEVVG VEQVEREDVA EMSESSEDDD APANNAAANN YESGSEDYSS 1560 SDS

Sequence ? help Back to Top

Protein Sequence Length: 1563 aa Download sequence Send to blast

MEMGSDEEDQ IKNVNVGDVN KNKKKKIDTF NNKDSLSSKS KRQMKTPFQL QTLEEVYAEE  60
TYPSEATRAE LSEKLDLSDR QLQMWFCHRR LKDKKDGQAK KPVQPAATPA LSSVNELPAA  120
DDRSGSGSGS GCSPYSESRR NFESGSGSSG ADLGEYEKGG YEPPRLSVMV RRAVVCVEAQ  180
LGEPLREDGP VLGMEFDQLP PGAFGTPIAM QTHQGHLYES KMYEPHDVRP PRQSLDDPSS  240
YTPEINGRYS ESHARGMDYE TSRSKSSSFM HGNGPVPRPY GTHGNASLNG STSQQDMSSP  300
IVPSAHGDSF LLERKVNDGR VGRGSGQKDP EKLEIQRKKY QERMRKEMER HERERRKEEE  360
RLMRERIKEE EKLQREQRRE MERREKFLQR ENERAEKQKQ KDEIRRERDA IRRKIAIEKA  420
TARRIARESM DLIEDEQLEL MDLAAASKGL PSVLQLDHDT LQNLELYRDS LSAFPPKALQ  480
LKMPFTISPW KDSEENVGNL LMVWRFLISF SDVLDLWPFT LDEFIQAFHD YDSRLLGEIH  540
ITLLRSIIRD IEDVARTPYS GIGNNQYTTA NPEGGHPQIV EGAYAWGFDI RSWKNHLNPL  600
TWPEILRQLA LSSGFGPKLK NKSSHVTQTA HKDEAKGCED NISTIRSGSA AESAFASMLE  660
KGLLAPRKSR HRLTPGTVKF AALHVLSLEG SKGLTLIELA DKIQKSGLRD LSTSKTPEAS  720
ISVALTRDVK LFERIAPCTY CVRAPYVKDP ADGDAILAEA RKKIKAFENG LTGPEDLNDL  780
ERDEDFECDV DEDPEVDDLA TPARASNGLS GKGEDAMFSD VKSIVPQYHS KDSAVSSVDD  840
NNDVVEDSNQ GQSWIQGLTE GDYCHLSVEE RLEALVALVG IVNEGNSLRA SLEDRMEAAN  900
SLKKQMWAEA QLDNSCMRDV LKLGRDPSQR MDESKPMEAV SNDLHKSERG FINQEATQEN  960
CSSKRSRSQL KSYIGDKAEE VYPYRSLPLG QDRHRNRYWH FAASASKTDP CSGLIFVELH  1020
DGKWRLIDSE EAFDFLVASL DMRGIRESHL RIMLLKIEGS FKENAYKAKS VVNHSPADSV  1080
SPSSAIFGSN SDSMEASTSI RVELGRNDRE KESLSKRFHD FQRWMWTETY SSLPSCARKH  1140
GKKRCELLAT CEVCVASYLS EYTHCTSCHR RLSMFDSSER KILDSALTAS PLPFGARLLK  1200
ALLVFLEACV PDEALESFWT EDKRKDWGFR LNASSSPEEL LQVLISLESA IKKESLSSSF  1260
VSAKELSGVA DDSGSVDVFP WIPKTISAVA LRLLDLDASI IYVKPEKPEL ISEDDKEQIS  1320
IFPGKSLTKG KGAKEQEDQD EVIVSNSGKK SKKRRVRFGR VSNRNVKRKK VQESPDRFVA  1380
GRSDVSVDRN LGSVALNHHQ VPGRGKRTVR KRPERNDEDN YRLVSRMADI VRPNSEDVEE  1440
EEEDEQTFRD INEDWASETP REMEVMTPMQ VDDESDNSVG VESEDDDEGQ FVVYDQRNKW  1500
GLDWNSNPNE AMEDDEEVVG VEQVEREDVA EMSESSEDDD APANNAAANN YESGSEDYSS  1560
SDS

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	88	95	RRLKDKKD
2	1352	1369	KRRVRFGRVSNRNVKRKK

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. {ECO:0000269\|PubMed:22694359}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009109719.1

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009109719.1	0.0	PREDICTED: homeobox-DDT domain protein RLT1-like isoform X2
Swissprot	F4HY56	0.0	RLT1_ARATH; Homeobox-DDT domain protein RLT1
TrEMBL	M4D316	0.0	M4D316_BRARP; Uncharacterized protein
STRING	Bra010869.1-P	0.0	(Brassica rapa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G28420.1	0.0	homeobox-1