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

Tp1g37920

Organism

Thellungiella parvula

Taxonomic ID

98039

Taxonomic Lineage

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

Family

AP2

Protein Properties

Length: 559aa MW: 61345.1 Da PI: 6.9085

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp1g37920	genome	thellungiella	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	47.9	3.3e-15	176	235	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrd.pse.ng..kr.krfslgkfgtaeeAakaaiaarkkleg 55 s y+GV++++++gr++A+++d + g ++ ++++lg ++ +e+Aa+a++ a++k++g Tp1g37920 176 SIYRGVTRHRWTGRYEAHLWDnSCRrEGqsRKgRQVYLGGYDKEEKAARAYDLAALKYWG 235 57*****************666664477446***********************98 PP
2	AP2	47.1	6.1e-15	280	329	3	55
AP2 3 ykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 y+GV+++++ grW A+I + +k +lg+f t+eeAa+a++ a+ k++g Tp1g37920 280 YRGVTRHHQHGRWQARIGRVAG---NKDLYLGTFSTEEEAAEAYDIAAIKFRG 329 9*************988532...5**********************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF00847	3.3E-12	176	235	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	2.94E-17	176	244	IPR016177	DNA-binding domain
CDD	cd00018	1.46E-22	176	245	No hit	No description
Gene3D	G3DSA:3.30.730.10	5.4E-16	177	243	IPR001471	AP2/ERF domain
SMART	SM00380	5.8E-30	177	249	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	19.322	177	243	IPR001471	AP2/ERF domain
PRINTS	PR00367	4.9E-6	178	189	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	8.5E-18	278	338	IPR016177	DNA-binding domain
CDD	cd00018	2.07E-24	278	339	No hit	No description
PROSITE profile	PS51032	19.506	279	337	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	4.6E-18	279	337	IPR001471	AP2/ERF domain
SMART	SM00380	1.5E-32	279	343	IPR001471	AP2/ERF domain
Pfam	PF00847	1.5E-9	280	329	IPR001471	AP2/ERF domain
PRINTS	PR00367	4.9E-6	319	339	IPR001471	AP2/ERF domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0000723	Biological Process	telomere maintenance
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0007389	Biological Process	pattern specification process
GO:0010073	Biological Process	meristem maintenance
GO:0010449	Biological Process	root meristem growth
GO:0019827	Biological Process	stem cell population maintenance
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: 559 aa Download sequence Send to blast
MNSNNWLSFP LSPNHPSLPP HIHSSQTSHF NLGSWNMINP HGGGGEGGDV PKVADFLGVS 60 KSENHQADHN LVPYNNIHQP NDSDYYFQTN SLLPTVVTCA SNTPNNYELQ ESAHNLQSLT 120 LSMGSTGATA VAAATVKASP GETSADNTSS TTNTSGGAIV EAAPRRTLET FGQRTSIYRG 180 VTRHRWTGRY EAHLWDNSCR REGQSRKGRQ VYLGGYDKEE KAARAYDLAA LKYWGPSTTT 240 NFPITTYEKE VEEMKHMTRQ EFVASIRRKS SGFSRGASMY RGVTRHHQHG RWQARIGRVA 300 GNKDLYLGTF STEEEAAEAY DIAAIKFRGL NAVTNFEINR YDVKAILESN TLPIGGGAAK 360 RLKEAQALES SRKREEMIAL GSNFHQYGAA SGSSSVASSS RLQLQPYPLS IQQPFEHLHH 420 QPLLTLQNND DISQYNTNAH DSYSYIQTQL HLHQQQTNNY LQSSSHSSQL YNAYLQSNPG 480 LLHGFVSDNN NNPSGFLGNN GIGIGSTSTV GSSAEEEFPT VKVDYDMPSS GGDTGYGGWP 540 TGEHVQGSNP GGVFTMWNE

Sequence ? help Back to Top

Protein Sequence Length: 559 aa Download sequence Send to blast

MNSNNWLSFP LSPNHPSLPP HIHSSQTSHF NLGSWNMINP HGGGGEGGDV PKVADFLGVS  60
KSENHQADHN LVPYNNIHQP NDSDYYFQTN SLLPTVVTCA SNTPNNYELQ ESAHNLQSLT  120
LSMGSTGATA VAAATVKASP GETSADNTSS TTNTSGGAIV EAAPRRTLET FGQRTSIYRG  180
VTRHRWTGRY EAHLWDNSCR REGQSRKGRQ VYLGGYDKEE KAARAYDLAA LKYWGPSTTT  240
NFPITTYEKE VEEMKHMTRQ EFVASIRRKS SGFSRGASMY RGVTRHHQHG RWQARIGRVA  300
GNKDLYLGTF STEEEAAEAY DIAAIKFRGL NAVTNFEINR YDVKAILESN TLPIGGGAAK  360
RLKEAQALES SRKREEMIAL GSNFHQYGAA SGSSSVASSS RLQLQPYPLS IQQPFEHLHH  420
QPLLTLQNND DISQYNTNAH DSYSYIQTQL HLHQQQTNNY LQSSSHSSQL YNAYLQSNPG  480
LLHGFVSDNN NNPSGFLGNN GIGIGSTSTV GSSAEEEFPT VKVDYDMPSS GGDTGYGGWP  540
TGEHVQGSNP GGVFTMWNE

Functional Description ? help Back to Top
Source	Description
UniProt	Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Master regulator of basal/root fate. Essential for root quiescent center (QC) and columella specification, stem cell activity, as well as for establishment of the stem cell niche during embryogenesis. Modulates the root polar auxin transport by regulating the distribution of PIN genes. Essential role in respecifying pattern and polarity in damaged roots. Direct target of the transcriptional corepressor TPL. Expression levels and patterns regulated post-transcriptionally by root meristem growth factors (RGFs). {ECO:0000250, ECO:0000269\|PubMed:15454085, ECO:0000269\|PubMed:15635403, ECO:0000269\|PubMed:16424342, ECO:0000269\|PubMed:20190735}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Tp1g37920

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin accumulation. {ECO:0000269\|PubMed:15454085}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY506550	0.0	AY506550.1 Arabidopsis thaliana PLETHORA2 (PLT2) mRNA, complete cds.
GenBank	BT020277	0.0	BT020277.1 Arabidopsis thaliana At1g51190 mRNA, complete cds.
GenBank	BT020460	0.0	BT020460.1 Arabidopsis thaliana At1g51190 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010461951.1	0.0	PREDICTED: AP2-like ethylene-responsive transcription factor PLT2
Swissprot	Q5YGP7	0.0	PLET2_ARATH; AP2-like ethylene-responsive transcription factor PLT2
TrEMBL	V4KGN8	0.0	V4KGN8_EUTSA; Uncharacterized protein
STRING	XP_010461951.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3015	27	67

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G51190.1	0.0	AP2 family protein

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] Lee DK,Sieburth LE The bps signal: embryonic arrest from an auxin-independent mechanism in bypass triple mutants. Plant Signal Behav, 2012. 7(6): p. 698-700 [PMID:22580686] Hong LW,Yan DW,Liu WC,Chen HG,Lu YT TIME FOR COFFEE controls root meristem size by changes in auxin accumulation in Arabidopsis. J. Exp. Bot., 2014. 65(1): p. 275-86 [PMID:24277277] Tian H,Jia Y,Niu T,Yu Q,Ding Z The key players of the primary root growth and development also function in lateral roots in Arabidopsis. Plant Cell Rep., 2014. 33(5): p. 745-53 [PMID:24504658] Zhao Q, et al. Sulfur nutrient availability regulates root elongation by affecting root indole-3-acetic acid levels and the stem cell niche. J Integr Plant Biol, 2014. 56(12): p. 1151-63 [PMID:24831283] Huang JB, et al. ROP3 GTPase contributes to polar auxin transport and auxin responses and is important for embryogenesis and seedling growth in Arabidopsis. Plant Cell, 2014. 26(9): p. 3501-18 [PMID:25217509] Yang S, et al. The Arabidopsis SWI2/SNF2 Chromatin Remodeling ATPase BRAHMA Targets Directly to PINs and Is Required for Root Stem Cell Niche Maintenance. Plant Cell, 2015. 27(6): p. 1670-80 [PMID:25991732] Jia Y, et al. The Arabidopsis thaliana elongator complex subunit 2 epigenetically affects root development. J. Exp. Bot., 2015. 66(15): p. 4631-42 [PMID:25998905] Zhang M, et al. A tetratricopeptide repeat domain-containing protein SSR1 located in mitochondria is involved in root development and auxin polar transport in Arabidopsis. Plant J., 2015. 83(4): p. 582-99 [PMID:26072661] Shinohara H,Mori A,Yasue N,Sumida K,Matsubayashi Y Identification of three LRR-RKs involved in perception of root meristem growth factor in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(14): p. 3897-902 [PMID:27001831] Ou Y, et al. RGF1 INSENSITIVE 1 to 5, a group of LRR receptor-like kinases, are essential for the perception of root meristem growth factor 1 in Arabidopsis thaliana. Cell Res., 2016. 26(6): p. 686-98 [PMID:27229312] Santuari L, et al. The PLETHORA Gene Regulatory Network Guides Growth and Cell Differentiation in Arabidopsis Roots. Plant Cell, 2016. 28(12): p. 2937-2951 [PMID:27920338] Promchuea S,Zhu Y,Chen Z,Zhang J,Gong Z ARF2 coordinates with PLETHORAs and PINs to orchestrate ABA-mediated root meristem activity in Arabidopsis . J Integr Plant Biol, 2017. 59(1): p. 30-43 [PMID:28074634] Du Y,Scheres B PLETHORA transcription factors orchestrate de novo organ patterning during Arabidopsis lateral root outgrowth. Proc. Natl. Acad. Sci. U.S.A., 2017. 114(44): p. 11709-11714 [PMID:29078398] 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]