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_009107944.1

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

Trihelix

Protein Properties

Length: 630aa MW: 70287.6 Da PI: 6.4752

Description

Trihelix family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009107944.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	trihelix	91.9	6.5e-29	56	140	1	87
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqlea 87 rW+++e+laL+++r+em++++r++ lk+plWe+vs+k+ e g++r++k+Ckek+en++k++k++ke++++r++++ t+++f+qlea XP_009107944.1 56 RWPREETLALLRIRSEMDSTFRDATLKAPLWEHVSRKLLELGYKRNAKKCKEKFENVQKYHKRTKETRGGRHEGK--TYKFFSQLEA 140 8******************************************************************985555..6*****85 PP
2	trihelix	104.2	9.6e-33	404	488	1	86
trihelix 1 rWtkqevlaLiearremeerlrrgklkkplWeevskkmrergferspkqCkekwenlnkrykkikegekkrtsessstcpyfdqle 86 rW+k+e+laLi++r+ me r++++ k+ lWee+s+ m++ g++r++k+Ckekwen+nk+ykk+ke++kkr +++ +tcpy+++l+ XP_009107944.1 404 RWPKEEILALINLRSGMEPRYQDNVPKGLLWEEISSSMKRMGYNRNAKRCKEKWENINKYYKKVKESNKKR-PQDAKTCPYYHRLD 488 8*******************************************************************8.99999*****97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50090	6.934	49	113	IPR017877	Myb-like domain
SMART	SM00717	0.017	53	115	IPR001005	SANT/Myb domain
CDD	cd12203	4.82E-25	55	120	No hit	No description
Pfam	PF13837	3.7E-19	55	141	No hit	No description
SMART	SM00717	4.3E-4	401	463	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	5.7E-4	403	460	IPR009057	Homeodomain-like
Pfam	PF13837	6.2E-22	403	488	No hit	No description
PROSITE profile	PS50090	7.189	403	461	IPR017877	Myb-like domain
CDD	cd12203	1.04E-29	404	468	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 630 aa Download sequence Send to blast
MEQGGGGGGG NEVVEEASPI SSRPPANMEE LMRFSAAADD GGGLGGGSSS SSSGNRWPRE 60 ETLALLRIRS EMDSTFRDAT LKAPLWEHVS RKLLELGYKR NAKKCKEKFE NVQKYHKRTK 120 ETRGGRHEGK TYKFFSQLEA LNTITSAPPS SLDVTPLSVA NPVQQPSSQF PVFSLTQTPP 180 PSQPLPPHTV SFTPNPPPPP SVDPPFPGGT FSSHSSSTAS GMGSDDDDDD MDVDHAGPSS 240 HKRKRENRGG KMMELFQGLV RQVMQKQAAM QRSFLEALEK REQERLAREE AWKRQEMSRL 300 AREHEIMTQE RAASASRDAA IISLIQKITG HTIQLPPSLS SQPSPPPPAA KRPSSQAVEP 360 PHSQPIMAIP QQQVLPPPPH QPPPQQQQQE MIMSSDQSLP SSSRWPKEEI LALINLRSGM 420 EPRYQDNVPK GLLWEEISSS MKRMGYNRNA KRCKEKWENI NKYYKKVKES NKKRPQDAKT 480 CPYYHRLDLL YRSKVLGSGA GSSTSALPQD QISTVQKQSP VPAMKPSQEG DVNVHQGEEP 540 REETPQGAEK PEDLVMRELM QQKQQQQEED SMIGEYEKIE ASHKYNMEEE EMDEELDEDE 600 KSAAYEIAFQ SPANRGGNGH SEPPFLTMVQ

Sequence ? help Back to Top

Protein Sequence Length: 630 aa Download sequence Send to blast

MEQGGGGGGG NEVVEEASPI SSRPPANMEE LMRFSAAADD GGGLGGGSSS SSSGNRWPRE  60
ETLALLRIRS EMDSTFRDAT LKAPLWEHVS RKLLELGYKR NAKKCKEKFE NVQKYHKRTK  120
ETRGGRHEGK TYKFFSQLEA LNTITSAPPS SLDVTPLSVA NPVQQPSSQF PVFSLTQTPP  180
PSQPLPPHTV SFTPNPPPPP SVDPPFPGGT FSSHSSSTAS GMGSDDDDDD MDVDHAGPSS  240
HKRKRENRGG KMMELFQGLV RQVMQKQAAM QRSFLEALEK REQERLAREE AWKRQEMSRL  300
AREHEIMTQE RAASASRDAA IISLIQKITG HTIQLPPSLS SQPSPPPPAA KRPSSQAVEP  360
PHSQPIMAIP QQQVLPPPPH QPPPQQQQQE MIMSSDQSLP SSSRWPKEEI LALINLRSGM  420
EPRYQDNVPK GLLWEEISSS MKRMGYNRNA KRCKEKWENI NKYYKKVKES NKKRPQDAKT  480
CPYYHRLDLL YRSKVLGSGA GSSTSALPQD QISTVQKQSP VPAMKPSQEG DVNVHQGEEP  540
REETPQGAEK PEDLVMRELM QQKQQQQEED SMIGEYEKIE ASHKYNMEEE EMDEELDEDE  600
KSAAYEIAFQ SPANRGGNGH SEPPFLTMVQ

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	98	106	KRNAKKCKE

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Mostly expressed in siliques, and, to a lower extent, in growing root hairs, leaves, stems, and flowers. Present in abaxial epidermal cells, predominantly in guard cells, pavement cells, and meristemoids. {ECO:0000269\|PubMed:21169508, ECO:0000269\|PubMed:9501260}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription repressor that binds specific DNA sequence such as GT3 box 5'-GGTAAA-3' in the SDD1 promoter. Negative regulator of water use efficiency (WUE) via the promotion of stomatal density and distribution by the transcription repression of SDD1. Regulates the expression of several cell cycle genes and endoreduplication, especially in trichomes where it prevents ploidy-dependent plant cell growth. {ECO:0000269\|PubMed:19717615, ECO:0000269\|PubMed:21169508}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009107944.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by water stress. {ECO:0000269\|PubMed:21169508}.

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	AC021045	1e-140	AC021045.2 Arabidopsis thaliana chromosome I BAC T9L6 genomic sequence, complete sequence.
GenBank	AC027035	1e-140	AC027035.5 Arabidopsis thaliana chromosome 1 BAC T16O9 genomic sequence, complete sequence.
GenBank	AJ003215	1e-140	AJ003215.1 Arabidopsis thaliana GTL1 gene.
GenBank	AY140085	1e-140	AY140085.1 Arabidopsis thaliana DNA-binding factor, putative (At1g33240) mRNA, complete cds.
GenBank	BT008824	1e-140	BT008824.1 Arabidopsis thaliana At1g33240 mRNA, complete cds.
GenBank	CP002684	1e-140	CP002684.1 Arabidopsis thaliana chromosome 1 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009107944.1	0.0	PREDICTED: trihelix transcription factor GTL1-like isoform X1
Swissprot	Q9C882	0.0	GTL1_ARATH; Trihelix transcription factor GTL1
TrEMBL	A0A397YAF1	0.0	A0A397YAF1_BRACM; Uncharacterized protein
TrEMBL	M4F6M1	0.0	M4F6M1_BRARP; Uncharacterized protein
STRING	Bra036731.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6226	27	46

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G33240.1	1e-133	GT-2-like 1

Publications ? help Back to Top
Caro E,Desvoyes B,Gutierrez C GTL1 keeps cell growth and nuclear ploidy under control. EMBO J., 2012. 31(24): p. 4483-5 [PMID:23188085] Zheng X, et al. The Wheat GT Factor TaGT2L1D Negatively Regulates Drought Tolerance and Plant Development. Sci Rep, 2016. 6: p. 27042 [PMID:27245096] Shibata M, et al. GTL1 and DF1 regulate root hair growth through transcriptional repression of ROOT HAIR DEFECTIVE 6-LIKE 4 in Arabidopsis. Development, 2018. [PMID:29439132]