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_010542803.1

Organism

Tarenaya hassleriana

Taxonomic ID

28532

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Cleomaceae; Tarenaya

Family

MYB_related

Protein Properties

Length: 747aa MW: 81776.4 Da PI: 6.607

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_010542803.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	47.9	3.2e-15	24	68	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 r rWT++E+ ++++a +++G W +I +++g ++t+ q++s+ qk+ XP_010542803.1 24 RERWTEDEHSRFLEALRLYGRA-WQRIEEHIG-TKTAVQIRSHAQKF 68 78****************88.*****.**********98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	2.39E-15	18	72	IPR009057	Homeodomain-like
PROSITE profile	PS51294	18.323	19	73	IPR017930	Myb domain
Gene3D	G3DSA:1.10.10.60	2.5E-7	21	70	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01557	5.1E-17	22	72	IPR006447	Myb domain, plants
SMART	SM00717	1.0E-11	23	71	IPR001005	SANT/Myb domain
Pfam	PF00249	1.8E-12	24	67	IPR001005	SANT/Myb domain
CDD	cd00167	1.54E-8	26	69	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: 747 aa Download sequence Send to blast
MEKNISGEEL VTKIRKPYTI TKQRERWTED EHSRFLEALR LYGRAWQRIE EHIGTKTAVQ 60 IRSHAQKFFT KQPYAWKAST WMRFAVDASI ELHKKLLEKE AQAKGIPICQ ALDIEIPPPR 120 PKRKPSNPYP RKTGNGESTS QVSSAKVVKL DSSASFSHCN QALDLEKKPF TEPNGVEKVP 180 NGNGNQDDNC SGVSARPTEA HCSSISSVNK YPFPNKAAPR NPSSFRESEP DLTKATADNG 240 TSKTSNADNS CYSQDNDANV LPHISISKED NGVNGLSPVG NMNGIQSYPW HFPVHVLNGN 300 VGTYPQNPPG MGFQDFMFRP VGEVHGHSGL FTIPSTSATS QHQDNVPRSS RQAFPAFHPA 360 FVPACHTQDD YRSFLQISST FSNLIMSALL QNPAAHAAAT FAASFWPYGN VGSSNDSSTS 420 TTIQTDGAFP PRQMSSPPPS MAAITAATVA AATAWWAAHG LLPICAPFTC LPMSAPIVPP 480 SVSAQTELPE TDKKDAATAN PQQPAMEQGE AQVLASPFES DDDLDENGRT EQDTGLKTED 540 HKEKVVEVQE QVQDSNTTQK KKQVDRSSCG SNTPSGSDVE TDALEKAAEK DKEEDVKETD 600 GNQTGTESST RRTSRSKDNS SDSWKEVSEE GRMAFDALFA RERLPQSFSL ALDVEKESPE 660 KGKGNREERE REMAHKSKIQ DSCSKETASR SEGNGGITIG IGEGKSLRAR RTGFKPYKRC 720 SMEAKESSSQ AEEKVSKRIR LDSKAST

Sequence ? help Back to Top

Protein Sequence Length: 747 aa Download sequence Send to blast

MEKNISGEEL VTKIRKPYTI TKQRERWTED EHSRFLEALR LYGRAWQRIE EHIGTKTAVQ  60
IRSHAQKFFT KQPYAWKAST WMRFAVDASI ELHKKLLEKE AQAKGIPICQ ALDIEIPPPR  120
PKRKPSNPYP RKTGNGESTS QVSSAKVVKL DSSASFSHCN QALDLEKKPF TEPNGVEKVP  180
NGNGNQDDNC SGVSARPTEA HCSSISSVNK YPFPNKAAPR NPSSFRESEP DLTKATADNG  240
TSKTSNADNS CYSQDNDANV LPHISISKED NGVNGLSPVG NMNGIQSYPW HFPVHVLNGN  300
VGTYPQNPPG MGFQDFMFRP VGEVHGHSGL FTIPSTSATS QHQDNVPRSS RQAFPAFHPA  360
FVPACHTQDD YRSFLQISST FSNLIMSALL QNPAAHAAAT FAASFWPYGN VGSSNDSSTS  420
TTIQTDGAFP PRQMSSPPPS MAAITAATVA AATAWWAAHG LLPICAPFTC LPMSAPIVPP  480
SVSAQTELPE TDKKDAATAN PQQPAMEQGE AQVLASPFES DDDLDENGRT EQDTGLKTED  540
HKEKVVEVQE QVQDSNTTQK KKQVDRSSCG SNTPSGSDVE TDALEKAAEK DKEEDVKETD  600
GNQTGTESST RRTSRSKDNS SDSWKEVSEE GRMAFDALFA RERLPQSFSL ALDVEKESPE  660
KGKGNREERE REMAHKSKIQ DSCSKETASR SEGNGGITIG IGEGKSLRAR RTGFKPYKRC  720
SMEAKESSSQ AEEKVSKRIR LDSKAST

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor involved in the circadian clock. Binds to the promoter region of APRR1/TOC1 and TCP21/CHE to repress their transcription. Represses both CCA1 and itself. {ECO:0000269\|PubMed:12015970, ECO:0000269\|PubMed:19095940, ECO:0000269\|PubMed:19218364, ECO:0000269\|PubMed:9657154}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00654	PBM	Transfer from LOC_Os08g06110	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_010542803.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Circadian-regulation with peak levels occurring around 1 hour after dawn. Up-regulated by APRR1/TOC1 and transiently by light treatment. Down-regulated by APRR5, APRR7 and APRR9. {ECO:0000269\|PubMed:12574129, ECO:0000269\|PubMed:19095940, ECO:0000269\|PubMed:19218364, ECO:0000269\|PubMed:19286557, ECO:0000269\|PubMed:20233950, ECO:0000269\|PubMed:9657154}.

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_010542803.1	0.0	PREDICTED: protein LHY-like isoform X2
Swissprot	Q6R0H1	0.0	LHY_ARATH; Protein LHY
TrEMBL	A0A061DT31	0.0	A0A061DT31_THECC; Homeodomain-like superfamily protein isoform 1
STRING	XP_010542800.1	0.0	(Tarenaya hassleriana)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G01060.4	1e-144	MYB_related family protein

Publications ? help Back to Top
Pokhilko A,Mas P,Millar AJ Modelling the widespread effects of TOC1 signalling on the plant circadian clock and its outputs. BMC Syst Biol, 2013. 7: p. 23 [PMID:23506153] Kim Y, et al. Balanced nucleocytosolic partitioning defines a spatial network to coordinate circadian physiology in plants. Dev. Cell, 2013. 26(1): p. 73-85 [PMID:23830866] Karayekov E,Sellaro R,Legris M,Yanovsky MJ,Casal JJ Heat shock-induced fluctuations in clock and light signaling enhance phytochrome B-mediated Arabidopsis deetiolation. Plant Cell, 2013. 25(8): p. 2892-906 [PMID:23933882] Higham CF,Husmeier D A Bayesian approach for parameter estimation in the extended clock gene circuit of Arabidopsis thaliana. BMC Bioinformatics, 2013. 14 Suppl 10: p. S3 [PMID:24267177] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Qian H, et al. The circadian clock gene regulatory module enantioselectively mediates imazethapyr-induced early flowering in Arabidopsis thaliana. J. Plant Physiol., 2014. 171(5): p. 92-8 [PMID:24484962] McClung CR Wheels within wheels: new transcriptional feedback loops in the Arabidopsis circadian clock. F1000Prime Rep, 2014. 6: p. 2 [PMID:24592314] Gulledge AA,Vora H,Patel K,Loraine AE A protocol for visual analysis of alternative splicing in RNA-Seq data using integrated genome browser. Methods Mol. Biol., 2014. 1158: p. 123-37 [PMID:24792048] Hsiao AS, et al. Gene expression in plant lipid metabolism in Arabidopsis seedlings. PLoS ONE, 2014. 9(9): p. e107372 [PMID:25264899] Xing H, et al. LNK1 and LNK2 recruitment to the evening element require morning expressed circadian related MYB-like transcription factors. Plant Signal Behav, 2015. 10(3): p. e1010888 [PMID:25848708] Litthauer S,Battle MW,Lawson T,Jones MA Phototropins maintain robust circadian oscillation of PSII operating efficiency under blue light. Plant J., 2015. 83(6): p. 1034-45 [PMID:26215041] Flis A, et al. Defining the robust behaviour of the plant clock gene circuit with absolute RNA timeseries and open infrastructure. Open Biol, 2016. [PMID:26468131] Adams S,Manfield I,Stockley P,Carré IA Revised Morning Loops of the Arabidopsis Circadian Clock Based on Analyses of Direct Regulatory Interactions. PLoS ONE, 2015. 10(12): p. e0143943 [PMID:26625126] Kamioka M, et al. Direct Repression of Evening Genes by CIRCADIAN CLOCK-ASSOCIATED1 in the Arabidopsis Circadian Clock. Plant Cell, 2016. 28(3): p. 696-711 [PMID:26941090] Baduel P,Arnold B,Weisman CM,Hunter B,Bomblies K Habitat-Associated Life History and Stress-Tolerance Variation in Arabidopsis arenosa. Plant Physiol., 2016. 171(1): p. 437-51 [PMID:26941193] Park MJ,Kwon YJ,Gil KE,Park CM LATE ELONGATED HYPOCOTYL regulates photoperiodic flowering via the circadian clock in Arabidopsis. BMC Plant Biol., 2016. 16(1): p. 114 [PMID:27207270] Nitschke S, et al. Circadian Stress Regimes Affect the Circadian Clock and Cause Jasmonic Acid-Dependent Cell Death in Cytokinin-Deficient Arabidopsis Plants. Plant Cell, 2016. 28(7): p. 1616-39 [PMID:27354555] Higashi T,Aoki K,Nagano AJ,Honjo MN,Fukuda H Circadian Oscillation of the Lettuce Transcriptome under Constant Light and Light-Dark Conditions. Front Plant Sci, 2016. 7: p. 1114 [PMID:27512400] Marshall CM,Tartaglio V,Duarte M,Harmon FG The Arabidopsis sickle Mutant Exhibits Altered Circadian Clock Responses to Cool Temperatures and Temperature-Dependent Alternative Splicing. Plant Cell, 2016. 28(10): p. 2560-2575 [PMID:27624757] Wu JF, et al. LWD-TCP complex activates the morning gene CCA1 in Arabidopsis. Nat Commun, 2016. 7: p. 13181 [PMID:27734958] Wendell M, et al. Thermoperiodic Control of Floral Induction Involves Modulation of the Diurnal FLOWERING LOCUS T Expression Pattern. Plant Cell Physiol., 2017. 58(3): p. 466-477 [PMID:28028164] Woloszynska M, et al. The Elongator complex regulates hypocotyl growth in darkness and during photomorphogenesis. J. Cell. Sci., 2019. [PMID:28720596] Li Z,Bonaldi K,Uribe F,Pruneda-Paz JL A Localized Pseudomonas syringae Infection Triggers Systemic Clock Responses in Arabidopsis. Curr. Biol., 2018. 28(4): p. 630-639.e4 [PMID:29398214] James AB,Sullivan S,Nimmo HG Global spatial analysis of Arabidopsis natural variants implicates 5'UTR splicing of LATE ELONGATED HYPOCOTYL in responses to temperature. Plant Cell Environ., 2018. 41(7): p. 1524-1538 [PMID:29520807] James AB, et al. How does temperature affect splicing events? Isoform switching of splicing factors regulates splicing of LATE ELONGATED HYPOCOTYL (LHY). Plant Cell Environ., 2018. 41(7): p. 1539-1550 [PMID:29532482]