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_010934912.1

Organism

Elaeis guineensis

Taxonomic ID

51953

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Arecales; Arecaceae; Arecoideae; Cocoseae; Elaeidinae; Elaeis

Family

MYB_related

Protein Properties

Length: 797aa MW: 87235.8 Da PI: 6.4021

Description

MYB_related family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_010934912.1	genome	OG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Myb_DNA-binding	50.5	4.9e-16	71	115	1	47
TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS Myb_DNA-binding 1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 r rWT+eE+ ++++a k++G W +I +++g ++t+ q++s+ qk+ XP_010934912.1 71 RERWTEEEHNRFLEALKLYGRA-WQRIEEHIG-TKTAVQIRSHAQKF 115 78****************88.*****.**********98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	8.97E-17	65	121	IPR009057	Homeodomain-like
PROSITE profile	PS51294	20.173	66	120	IPR017930	Myb domain
TIGRFAMs	TIGR01557	7.4E-17	69	118	IPR006447	Myb domain, plants
SMART	SM00717	1.1E-12	70	118	IPR001005	SANT/Myb domain
Pfam	PF00249	3.3E-13	71	114	IPR001005	SANT/Myb domain
Gene3D	G3DSA:1.10.10.60	2.2E-8	71	111	IPR009057	Homeodomain-like
CDD	cd00167	1.57E-9	73	116	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: 797 aa Download sequence Send to blast
MRYYFRQMER LVGDMEGGSL LFVDDLNSKX DLWLFSSVCS AEIWSLEMEE DSFGEELVVK 60 TRKPYTITKQ RERWTEEEHN RFLEALKLYG RAWQRIEEHI GTKTAVQIRS HAQKFFTKLE 120 KEAVMKGIPP GQTHDIDIPP PRPKRKPSSP YPRKTSVVSI SLTGDAIDNK SSKSVSLVGT 180 SKQILEQGSD APQKKPAATI TSQRKEISVD GSCSEVLNFF QDAPSASIFS VKSSSNPNPC 240 TYTEFVPKMK EIKETATDKS SVSIEVNKDL NINGISYRDQ ENEGLKGLHI DSQTNLGHGE 300 DADASKQQEN LGSLLSDDMQ ANQSNSKHIP VHFSQRSSAE GNQTIDSDGH NFMAVTGQVG 360 ADENSKSFID PMIYAAPKLH NSCAIPCVHQ PFPAFPPFTQ FHSDHDAYRS FLNISSTFSS 420 LIVYTLLQNP AVHAAANLAA SFWPSANMNS STDSTPEILA GGSPVRHMNP YPSLASIAAA 480 TVAAASAWWA TQGLLPICSP HIGFTFNPAP ATTIPTMATA QGPEDKTDGK EDGFQNLVPG 540 DPVVNPDQSL ALNTQGPSPK SSSSEADESD ESRSGERSHC TDVKASRINM LKPLAATGLH 600 DSDKTKSKKK PDRSSCGSNT PSSSEVETDA ILDRHEKVND EAKQAYFSNP SAGETNGRRS 660 RNGGSINESW KAVSEEGRLA FQALFSREVL PQSFSPPQTE EAMANKEAIT LPVDLNRKAY 720 ATACFNHLQS FTKEMSSRCT DNIGKSPLTS EIGQGKLKSH RTGFKPYKRC SMEAKESRTA 780 GEETGNKRIR LEGEAST

Sequence ? help Back to Top

Protein Sequence Length: 797 aa Download sequence Send to blast

MRYYFRQMER LVGDMEGGSL LFVDDLNSKX DLWLFSSVCS AEIWSLEMEE DSFGEELVVK  60
TRKPYTITKQ RERWTEEEHN RFLEALKLYG RAWQRIEEHI GTKTAVQIRS HAQKFFTKLE  120
KEAVMKGIPP GQTHDIDIPP PRPKRKPSSP YPRKTSVVSI SLTGDAIDNK SSKSVSLVGT  180
SKQILEQGSD APQKKPAATI TSQRKEISVD GSCSEVLNFF QDAPSASIFS VKSSSNPNPC  240
TYTEFVPKMK EIKETATDKS SVSIEVNKDL NINGISYRDQ ENEGLKGLHI DSQTNLGHGE  300
DADASKQQEN LGSLLSDDMQ ANQSNSKHIP VHFSQRSSAE GNQTIDSDGH NFMAVTGQVG  360
ADENSKSFID PMIYAAPKLH NSCAIPCVHQ PFPAFPPFTQ FHSDHDAYRS FLNISSTFSS  420
LIVYTLLQNP AVHAAANLAA SFWPSANMNS STDSTPEILA GGSPVRHMNP YPSLASIAAA  480
TVAAASAWWA TQGLLPICSP HIGFTFNPAP ATTIPTMATA QGPEDKTDGK EDGFQNLVPG  540
DPVVNPDQSL ALNTQGPSPK SSSSEADESD ESRSGERSHC TDVKASRINM LKPLAATGLH  600
DSDKTKSKKK PDRSSCGSNT PSSSEVETDA ILDRHEKVND EAKQAYFSNP SAGETNGRRS  660
RNGGSINESW KAVSEEGRLA FQALFSREVL PQSFSPPQTE EAMANKEAIT LPVDLNRKAY  720
ATACFNHLQS FTKEMSSRCT DNIGKSPLTS EIGQGKLKSH RTGFKPYKRC SMEAKESRTA  780
GEETGNKRIR LEGEAST

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}.

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_010934912.2	0.0	protein LHY isoform X1
Swissprot	Q6R0H1	2e-50	LHY_ARATH; Protein LHY
TrEMBL	A0A2H3XUF9	0.0	A0A2H3XUF9_PHODC; protein LHY-like isoform X1
STRING	XP_008788724.1	0.0	(Phoenix dactylifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP6031	34	47

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G46830.1	2e-43	circadian clock associated 1

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]