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

52653

Common Name

MICPUCDRAFT_52653

Organism

Micromonas pusilla CCMP1545

Taxonomic ID

564608

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Chlorophyta; prasinophytes; Mamiellophyceae; Mamiellales; Mamiellaceae; Micromonas; Micromonas pusilla

Family

ARR-B

Protein Properties

Length: 545aa MW: 55135.4 Da PI: 6.5698

Description

ARR-B family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
52653	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	G2-like	92.6	3.3e-29	242	295	1	55
G2-like 1 kprlrWtpeLHerFveaveqLGGsekAtPktilelmkvkgLtlehvkSHLQkYRl 55 kpr++W+peLH++Fv av+qL G++kA+Pk+il+lm+v+gLt+e+v+SHLQkYRl 52653 242 KPRVVWSPELHQQFVTAVNQL-GIDKAVPKRILDLMGVQGLTRENVASHLQKYRL 295 79*****************.******************************8 PP
2	Response_reg	87.6	3.5e-29	17	125	1	109
EEEESSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHHH..ESEEEEESSCTTSEHHHHHHHHHHHTTTSEEEEEESTTTHHHHHHHHHTTES CS Response_reg 1 vlivdDeplvrellrqalekegyeevaeaddgeealellkekd..pDlillDiempgmdGlellkeireeepklpiivvtahgeeedalealkaGak 95 vl+vdD+pl +++++++l++ +y ev++++ g eale+l++++ +D++l D+ mp+mdG++ll++i+ e ++p+++++a+ + + +l+ + Ga 52653 17 VLVVDDDPLCLRIVEKMLKRCQY-EVTTFSRGAEALETLRARRddFDIVLSDVHMPDMDGFKLLEHIALEL-DVPVMMMSANCATDVVLRGIIHGAV 111 89*******************.***********877777******************8765.8******************** PP EEEESS--HHHHHH CS Response_reg 96 dflsKpfdpeelvk 109 d+l Kp+ eel++ 52653 112 DYLLKPVRLEELRN 125 **********97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF52172	2.7E-37	14	137	IPR011006	CheY-like superfamily
Gene3D	G3DSA:3.40.50.2300	4.7E-42	14	160	No hit	No description
SMART	SM00448	5.9E-33	15	127	IPR001789	Signal transduction response regulator, receiver domain
PROSITE profile	PS50110	42.7	16	131	IPR001789	Signal transduction response regulator, receiver domain
Pfam	PF00072	7.5E-26	17	126	IPR001789	Signal transduction response regulator, receiver domain
CDD	cd00156	1.71E-30	18	130	No hit	No description
PROSITE profile	PS51294	11.844	239	298	IPR017930	Myb domain
SuperFamily	SSF46689	4.66E-20	240	299	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	1.2E-30	241	300	IPR009057	Homeodomain-like
TIGRFAMs	TIGR01557	4.6E-25	242	295	IPR006447	Myb domain, plants
Pfam	PF00249	2.1E-8	244	294	IPR001005	SANT/Myb domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0000160	Biological Process	phosphorelay signal transduction system
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009414	Biological Process	response to water deprivation
GO:0010082	Biological Process	regulation of root meristem growth
GO:0010380	Biological Process	regulation of chlorophyll biosynthetic process
GO:0031537	Biological Process	regulation of anthocyanin metabolic process
GO:0048367	Biological Process	shoot system development
GO:0080022	Biological Process	primary root development
GO:0080036	Biological Process	regulation of cytokinin-activated signaling pathway
GO:0080113	Biological Process	regulation of seed growth
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 545 aa Download sequence Send to blast
MTAEKKELKV FPAGLRVLVV DDDPLCLRIV EKMLKRCQYE VTTFSRGAEA LETLRARRDD 60 FDIVLSDVHM PDMDGFKLLE HIALELDVPV MMMSANCATD VVLRGIIHGA VDYLLKPVRL 120 EELRNIWQHV VRRQREPSKD GAAGKGGGAS GAPEVSGDTH ANTDDKQDGN ATDSKGSGSQ 180 KRKSGKSGDD GGKDGGGSGG KDGDASNKGN NNKRKKGKSN DATETAGGAG VEDNDDTSGL 240 KKPRVVWSPE LHQQFVTAVN QLGIDKAVPK RILDLMGVQG LTRENVASHL QKYRLYLKRL 300 QGVNNNGTVP SGAAGFMTGL AIDGVGGVMG PPTTGSPAMN GPGGPGGGLV MGPGHMGGPH 360 MDGSGMMHMG PGGPMAGMTV VYGGGMPGGM PGGADSKNGA SGQPPPGGYV VMGGPHGGGP 420 GGAPMMMQHG GMVPGPGPGL VPGPGGSLMM PAGMMPDGGG GMVGVHVGPG VVMGQHQLGG 480 KHSSGGAGMA GGSAAGKGAQ RGGVGGAFDV PPTNGSLDAD EIGDDVLTMF LKDGLPEMND 540 GDAL*

Sequence ? help Back to Top

Protein Sequence Length: 545 aa Download sequence Send to blast

MTAEKKELKV FPAGLRVLVV DDDPLCLRIV EKMLKRCQYE VTTFSRGAEA LETLRARRDD  60
FDIVLSDVHM PDMDGFKLLE HIALELDVPV MMMSANCATD VVLRGIIHGA VDYLLKPVRL  120
EELRNIWQHV VRRQREPSKD GAAGKGGGAS GAPEVSGDTH ANTDDKQDGN ATDSKGSGSQ  180
KRKSGKSGDD GGKDGGGSGG KDGDASNKGN NNKRKKGKSN DATETAGGAG VEDNDDTSGL  240
KKPRVVWSPE LHQQFVTAVN QLGIDKAVPK RILDLMGVQG LTRENVASHL QKYRLYLKRL  300
QGVNNNGTVP SGAAGFMTGL AIDGVGGVMG PPTTGSPAMN GPGGPGGGLV MGPGHMGGPH  360
MDGSGMMHMG PGGPMAGMTV VYGGGMPGGM PGGADSKNGA SGQPPPGGYV VMGGPHGGGP  420
GGAPMMMQHG GMVPGPGPGL VPGPGGSLMM PAGMMPDGGG GMVGVHVGPG VVMGQHQLGG  480
KHSSGGAGMA GGSAAGKGAQ RGGVGGAFDV PPTNGSLDAD EIGDDVLTMF LKDGLPEMND  540
GDAL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5lxu_A	3e-22	242	298	1	57	Transcription factor LUX
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	190	196	GGKDGGG

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional activator that binds specifically to the DNA sequence 5'-[AG]GATT-3'. Functions as a response regulator involved in His-to-Asp phosphorelay signal transduction system. Phosphorylation of the Asp residue in the receiver domain activates the ability of the protein to promote the transcription of target genes. Could directly activate some type-A response regulators in response to cytokinins. Regulates SHY2 by binding to its promoter (PubMed:19039136). Involved in the root-meristem size determination through the regulation of cell differentiation (PubMed:17363254). {ECO:0000269\|PubMed:11574878, ECO:0000269\|PubMed:11691951, ECO:0000269\|PubMed:17363254, ECO:0000269\|PubMed:19039136}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by gibberellin. {ECO:0000269\|PubMed:20605455}.

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_003063042.1	0.0	g2-like myb-transcription factor with a n-terminal response regulator receiver domain
Swissprot	Q940D0	2e-94	ARR1_ARATH; Two-component response regulator ARR1
TrEMBL	C1N4R3	0.0	C1N4R3_MICPC; G2-like myb-transcription factor with a n-terminal response regulator receiver domain
STRING	XP_003063042.1	0.0	(Micromonas pusilla)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Chlorophytae	OGCP1220	15	16

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G16857.1	2e-54	response regulator 1

Link Out ? help Back to Top
Phytozome	52653
Entrez Gene	9688277

Publications ? help Back to Top
Bürkle L,Meyer S,Dortay H,Lehrach H,Heyl A In vitro recombination cloning of entire cDNA libraries in Arabidopsis thaliana and its application to the yeast two-hybrid system. Funct. Integr. Genomics, 2005. 5(3): p. 175-83 [PMID:15714319] Worden AZ, et al. Green evolution and dynamic adaptations revealed by genomes of the marine picoeukaryotes Micromonas. Science, 2009. 324(5924): p. 268-72 [PMID:19359590] Moubayidin L, et al. Spatial coordination between stem cell activity and cell differentiation in the root meristem. Dev. Cell, 2013. 26(4): p. 405-15 [PMID:23987513] Takahashi N, et al. Cytokinins control endocycle onset by promoting the expression of an APC/C activator in Arabidopsis roots. Curr. Biol., 2013. 23(18): p. 1812-7 [PMID:24035544] Kurepa J,Li Y,Perry SE,Smalle JA Ectopic expression of the phosphomimic mutant version of Arabidopsis response regulator 1 promotes a constitutive cytokinin response phenotype. BMC Plant Biol., 2014. 14: p. 28 [PMID:24423196] Cortleven A, et al. A novel protective function for cytokinin in the light stress response is mediated by the Arabidopsis histidine kinase2 and Arabidopsis histidine kinase3 receptors. Plant Physiol., 2014. 164(3): p. 1470-83 [PMID:24424319] Marín-de la Rosa N, et al. Genome Wide Binding Site Analysis Reveals Transcriptional Coactivation of Cytokinin-Responsive Genes by DELLA Proteins. PLoS Genet., 2015. 11(7): p. e1005337 [PMID:26134422] D'Alessandro S,Golin S,Hardtke CS,Lo Schiavo F,Zottini M The co-chaperone p23 controls root development through the modulation of auxin distribution in the Arabidopsis root meristem. J. Exp. Bot., 2015. 66(16): p. 5113-22 [PMID:26163704] Jiang L, et al. Strigolactones spatially influence lateral root development through the cytokinin signaling network. J. Exp. Bot., 2016. 67(1): p. 379-89 [PMID:26519957] Moubayidin L, et al. A SCARECROW-based regulatory circuit controls Arabidopsis thaliana meristem size from the root endodermis. Planta, 2016. 243(5): p. 1159-68 [PMID:26848984] Muraro D, et al. A multi-scale model of the interplay between cell signalling and hormone transport in specifying the root meristem of Arabidopsis thaliana. J. Theor. Biol., 2016. 404: p. 182-205 [PMID:27157127] Cortleven A, et al. Cytokinin Regulates the Etioplast-Chloroplast Transition through the Two-Component Signaling System and Activation of Chloroplast-Related Genes. Plant Physiol., 2016. 172(1): p. 464-78 [PMID:27388681] Kobayashi K, et al. Shoot Removal Induces Chloroplast Development in Roots via Cytokinin Signaling. Plant Physiol., 2017. 173(4): p. 2340-2355 [PMID:28193764] Zhang TQ, et al. A Two-Step Model for de Novo Activation of WUSCHEL during Plant Shoot Regeneration. Plant Cell, 2017. 29(5): p. 1073-1087 [PMID:28389585] Kushwah S,Laxmi A The interaction between glucose and cytokinin signaling in controlling Arabidopsis thaliana seedling root growth and development. Plant Signal Behav, 2017. 12(5): p. e1312241 [PMID:28467152] Meng WJ, et al. Type-B ARABIDOPSIS RESPONSE REGULATORs Specify the Shoot Stem Cell Niche by Dual Regulation of WUSCHEL. Plant Cell, 2017. 29(6): p. 1357-1372 [PMID:28576846] Kobayashi K,Iwase A Simultaneous but spatially different regulation of non-photosynthetic callus formation and photosynthetic root development after shoot removal. Plant Signal Behav, 2017. 12(6): p. e1338999 [PMID:28594268] Liu B,De Storme N,Geelen D Cold interferes with male meiotic cytokinesis in Arabidopsis thaliana independently of the AHK2/3-AHP2/3/5 cytokinin signaling module. Cell Biol. Int., 2017. 41(8): p. 879-889 [PMID:28618065] Zhang F,May A,Irish VF Type-B ARABIDOPSIS RESPONSE REGULATORs Directly Activate WUSCHEL. Trends Plant Sci., 2017. 22(10): p. 815-817 [PMID:28886911] Yan Z, et al. Type B Response Regulators Act As Central Integrators in Transcriptional Control of the Auxin Biosynthesis Enzyme TAA1. Plant Physiol., 2017. 175(3): p. 1438-1454 [PMID:28931628] Rong XF, et al. Type-B ARRs Control Carpel Regeneration Through Mediating AGAMOUS Expression in Arabidopsis. Plant Cell Physiol., 2018. 59(4): p. 756-764 [PMID:29186581] Bustillo-Avendaño E, et al. Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root Organogenesis. Plant Physiol., 2018. 176(2): p. 1709-1727 [PMID:29233938] Waldie T,Leyser O Cytokinin Targets Auxin Transport to Promote Shoot Branching. Plant Physiol., 2018. 177(2): p. 803-818 [PMID:29717021]