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

676745746

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

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

Family

HD-ZIP

Protein Properties

Length: 746aa MW: 83085.8 Da PI: 4.9482

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676745746	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	15.4	3.2e-05	21	41	36	56
HCTS-HHHHHHHHHHHHHHHH CS Homeobox 36 klgLterqVkvWFqNrRakek 56 +l+L+++qV+ WFq +R++ k 676745746 21 ELNLETSQVSCWFQDQRIQAK 41 79***************9988 PP
2	START	128.1	1.1e-40	283	498	5	205
HHHHHHHHHHHHC-TT-EEEE....EXCCTTEEEEEEESSS.....SCEEEEEEEECCSCHHHHHHHHHCCCGGCT-TT-S....EEEEEEEECTT.... CS START 5 eaaqelvkkalaeepgWvkss....esengdevlqkfeeskv....dsgealrasgvvdmvlallveellddkeqWdetla....kaetlevissg.... 88 +a++el ++ + ++p+W+k+s e +++ e+++ f + v + +ea+r++g+v m++ lv+++ k W + + +a+t+ i +g 676745746 283 TAMDELTLLGQMNSPLWKKDSsstrETLDYGEYRSYFNNGLVkhpgYVIEASRETGLVLMDSLALVKTFTTNK--WINVFSpivtAASTHRIIPTGcggp 380 799*********************************777779*****************9999988777..8888888888*********** PP ..EEEEEEEEXXTTXX-SSX.EEEEEEEEEEE.TTS-EEEEEEEEE-TTS--.-TTSEE-EESSEEEEEEEECTCEEEEEEEE-EE--SSXXHHHHHHHH CS START 89 ..galqlmvaelqalsplvp.RdfvfvRyirqlgagdwvivdvSvdseqkppesssvvRaellpSgiliepksnghskvtwvehvdlkgrlphwllrslv 185 g l l+ a++q++splvp R++ f+Ry++ ++g wv+vd +++q++ + ss +++lpSg++ie+ +nghskvtw+e+++++++ +++ ++ l+ 676745746 381 rsGSLRLIEAKFQVISPLVPkRKVKFLRYCEMIRDGLWVVVD--FTPRQENLNLSSDDGSNRLPSGLIIEDFANGHSKVTWIEQTEYDESRIPQEYQLLI 478 **************************************..999999988666667789********************************** PP HHHHHHHHHHHHHHTXXXXX CS START 186 ksglaegaktwvatlqrqce 205 +sgl gak+w+ tlqr+c 676745746 479 SSGLGLGAKRWLTTLQRYCR 498 ***************995 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	3.1E-4	21	51	IPR009057	Homeodomain-like
PROSITE profile	PS50848	32.224	270	502	IPR002913	START domain
SuperFamily	SSF55961	3.08E-16	274	500	No hit	No description
CDD	cd08875	2.61E-81	277	497	No hit	No description
SMART	SM00234	6.3E-30	279	499	IPR002913	START domain
Pfam	PF01852	4.4E-36	283	498	IPR002913	START domain
SuperFamily	SSF55961	1.98E-10	522	735	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding
GO:0008289	Molecular Function	lipid binding

Sequence ? help Back to Top
Protein Sequence Length: 746 aa Download sequence Send to blast
MNEQEGDVNG YINANRFMGG ELNLETSQVS CWFQDQRIQA KPNEKRHEDI TLKQQNELMR 60 VELEQHKQSL ARSSYIPSDG PSYFGLVQQL RDENAKLKQE IDRANSLVRT PMQLPVSPCA 120 QPSSPLVIPD LETAATPTIL SLLDDILASP SEMQPCSPSL TIPNPGIYAP IDVDSLQNDV 180 LVTPSAAQPS SSVMISNPGE ETLLDIDSFL LNTSATAQPS PSAMISHHGR DLPTELDSMM 240 NERSTFLVRP SNTQPGRDAS VEPNSGGESS MINRKSLLEL GTTAMDELTL LGQMNSPLWK 300 KDSSSTRETL DYGEYRSYFN NGLVKHPGYV IEASRETGLV LMDSLALVKT FTTNKWINVF 360 SPIVTAASTH RIIPTGCGGP RSGSLRLIEA KFQVISPLVP KRKVKFLRYC EMIRDGLWVV 420 VDFTPRQENL NLSSDDGSNR LPSGLIIEDF ANGHSKVTWI EQTEYDESRI PQEYQLLISS 480 GLGLGAKRWL TTLQRYCRNL STLSTINLSE VYQGLSSQAA TQIVKLAHRM SLNYYSGIND 540 SPTRKWKIPY AESERQNMRF LTRKNLNLRG EHTGVVLSAA TSVWFPVSTK TMFDFLNNPS 600 FRQQWDLLAA DVTFIEEKFK IQKSITHENY VSFLQMGHGF SVLQETWNDA SGALLVYTPL 660 EKDSTEKIMR GEDSDNVQIL PSGFSIMADG REPDPDSTTG VGCLLTIGYQ FLVNANITAD 720 VDQNFVKQVE ELMDHTVDKI KSALSA

Sequence ? help Back to Top

Protein Sequence Length: 746 aa Download sequence Send to blast

MNEQEGDVNG YINANRFMGG ELNLETSQVS CWFQDQRIQA KPNEKRHEDI TLKQQNELMR  60
VELEQHKQSL ARSSYIPSDG PSYFGLVQQL RDENAKLKQE IDRANSLVRT PMQLPVSPCA  120
QPSSPLVIPD LETAATPTIL SLLDDILASP SEMQPCSPSL TIPNPGIYAP IDVDSLQNDV  180
LVTPSAAQPS SSVMISNPGE ETLLDIDSFL LNTSATAQPS PSAMISHHGR DLPTELDSMM  240
NERSTFLVRP SNTQPGRDAS VEPNSGGESS MINRKSLLEL GTTAMDELTL LGQMNSPLWK  300
KDSSSTRETL DYGEYRSYFN NGLVKHPGYV IEASRETGLV LMDSLALVKT FTTNKWINVF  360
SPIVTAASTH RIIPTGCGGP RSGSLRLIEA KFQVISPLVP KRKVKFLRYC EMIRDGLWVV  420
VDFTPRQENL NLSSDDGSNR LPSGLIIEDF ANGHSKVTWI EQTEYDESRI PQEYQLLISS  480
GLGLGAKRWL TTLQRYCRNL STLSTINLSE VYQGLSSQAA TQIVKLAHRM SLNYYSGIND  540
SPTRKWKIPY AESERQNMRF LTRKNLNLRG EHTGVVLSAA TSVWFPVSTK TMFDFLNNPS  600
FRQQWDLLAA DVTFIEEKFK IQKSITHENY VSFLQMGHGF SVLQETWNDA SGALLVYTPL  660
EKDSTEKIMR GEDSDNVQIL PSGFSIMADG REPDPDSTTG VGCLLTIGYQ FLVNANITAD  720
VDQNFVKQVE ELMDHTVDKI KSALSA

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor involved in the regulation of time of flowering through the photoperiod flowering pathway. May repress FT. {ECO:0000269\|PubMed:17189287}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	676745746

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_013589242.1	0.0	PREDICTED: LOW QUALITY PROTEIN: homeobox-leucine zipper protein HDG6
Swissprot	Q9FVI6	1e-169	FWA_ARATH; Homeobox-leucine zipper protein HDG6
TrEMBL	A0A3P6EWD6	0.0	A0A3P6EWD6_BRAOL; Uncharacterized protein
STRING	Bra013898.1-P	0.0	(Brassica rapa)
STRING	XP_006413300.1	0.0	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM18728	3	3

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G25530.1	1e-171	FLOWERING WAGENINGEN

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Rea M, et al. Determination of DNA methylation of imprinted genes in Arabidopsis endosperm. J Vis Exp, 2011. [PMID:21307831] Nakamura M, et al. The role of Arabidopsis thaliana NAR1, a cytosolic iron-sulfur cluster assembly component, in gametophytic gene expression and oxidative stress responses in vegetative tissue. New Phytol., 2013. 199(4): p. 925-35 [PMID:23734982] Xu Y,Gan ES,He Y,Ito T Flowering and genome integrity control by a nuclear matrix protein in Arabidopsis. Nucleus, 2013 Jul-Aug. 4(4): p. 274-6 [PMID:23836195] Jones AL,Sung S Mechanisms underlying epigenetic regulation in Arabidopsis thaliana. Integr. Comp. Biol., 2014. 54(1): p. 61-7 [PMID:24808013] Buzas DM,Nakamura M,Kinoshita T Epigenetic role for the conserved Fe-S cluster biogenesis protein AtDRE2 in Arabidopsis thaliana. Proc. Natl. Acad. Sci. U.S.A., 2014. 111(37): p. 13565-70 [PMID:25197096] Bond DM,Baulcombe DC Epigenetic transitions leading to heritable, RNA-mediated de novo silencing in Arabidopsis thaliana. Proc. Natl. Acad. Sci. U.S.A., 2015. 112(3): p. 917-22 [PMID:25561534] Li Y, et al. An AP endonuclease functions in active DNA demethylation and gene imprinting in Arabidopsis [corrected]. PLoS Genet., 2015. 11(1): p. e1004905 [PMID:25569774] Sornay E,Forzani C,Forero-Vargas M,Dewitte W,Murray JA Activation of CYCD7;1 in the central cell and early endosperm overcomes cell-cycle arrest in the Arabidopsis female gametophyte, and promotes early endosperm and embryo development. Plant J., 2015. 84(1): p. 41-55 [PMID:26261067] Wang L, et al. Tetrahydrofolate Modulates Floral Transition through Epigenetic Silencing. Plant Physiol., 2017. 174(2): p. 1274-1284 [PMID:28450424] Gallego-Bartolomé J, et al. Targeted DNA demethylation of the Arabidopsis genome using the human TET1 catalytic domain. Proc. Natl. Acad. Sci. U.S.A., 2018. 115(9): p. E2125-E2134 [PMID:29444862]