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

676714748

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

AP2

Protein Properties

Length: 570aa MW: 62536.3 Da PI: 6.6966

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676714748	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	36.5	1.2e-11	190	246	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrd.pseng..kr.krfslgkfgtaeeAakaaiaarkkleg 55 s y+GV++++++gr++A+++d + ++ k + g ++ +e+Aa+a++ a++k++g 676714748 190 SIYRGVTRHRWTGRYEAHLWDnSCR-RegQSrKGRQ-GGYDKEEKAARAYDLAALKYWG 246 57*****************5444.2455536655.779999************98 PP
2	AP2	47	6.3e-15	291	340	3	55
AP2 3 ykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 y+GV+++++ grW A+I + +k +lg+f t+eeAa+a++ a+ k++g 676714748 291 YRGVTRHHQHGRWQARIGRVAG---NKDLYLGTFSTEEEAAEAYDIAAIKFRG 340 9*************988532...5**********************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00018	1.05E-19	190	256	No hit	No description
SuperFamily	SSF54171	8.5E-15	190	255	IPR016177	DNA-binding domain
Pfam	PF00847	4.2E-9	190	246	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	17.57	191	254	IPR001471	AP2/ERF domain
SMART	SM00380	3.4E-23	191	260	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	2.3E-12	191	254	IPR001471	AP2/ERF domain
PRINTS	PR00367	5.1E-6	192	203	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	9.15E-18	289	349	IPR016177	DNA-binding domain
CDD	cd00018	1.02E-24	289	350	No hit	No description
PROSITE profile	PS51032	19.506	290	348	IPR001471	AP2/ERF domain
SMART	SM00380	1.5E-32	290	354	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	4.7E-18	290	348	IPR001471	AP2/ERF domain
Pfam	PF00847	1.5E-9	291	340	IPR001471	AP2/ERF domain
PRINTS	PR00367	5.1E-6	330	350	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: 570 aa Download sequence Send to blast
MNSNNWLAFP LSPTHSSLPP HIHSSQTSHF NLGLVNDNID NPFQNQEWNM INPHGGGGEG 60 GGVPKVADFL GVSKSDQNHQ ADHNLVPYND IHQTNDSDYY FQTNSLLPTV VTCASNTPNN 120 YELQESAHNL QSLTLSMGST GAAAAAAATV KASPDETSAD NSSSTTNTSG GAIIEPTPRR 180 TLETFGQRTS IYRGVTRHRW TGRYEAHLWD NSCRREGQSR KGRQGGYDKE EKAARAYDLA 240 ALKYWGPSTT TNFPITNYEK EVEEMKHMTR QEFVAAIRRK SSGFSRGASM YRGVTRHHQH 300 GRWQARIGRV AGNKDLYLGT FSTEEEAAEA YDIAAIKFRG LNAVTNFEIN RYDVKAILES 360 NTLPIGGGAA KRLKEAQALE SSRKREEMIA LGSNFQQYGA ASGSSSVASS SRLQLQPYPL 420 SIQQPFEHLH HQPLLTLQNN NDISQYNTSA HDSYSYIQTQ LHLHQQQTNN YLQSSNHSSQ 480 LYNAYLQSNP GLLHGFVSDN NNNTSGFLGN SAIGIGSTST VGSSAEEDFP TVKVDYDMPS 540 SGGTTGYGGW TTGESVQGSN PGSVFTMWNE

Sequence ? help Back to Top

Protein Sequence Length: 570 aa Download sequence Send to blast

MNSNNWLAFP LSPTHSSLPP HIHSSQTSHF NLGLVNDNID NPFQNQEWNM INPHGGGGEG  60
GGVPKVADFL GVSKSDQNHQ ADHNLVPYND IHQTNDSDYY FQTNSLLPTV VTCASNTPNN  120
YELQESAHNL QSLTLSMGST GAAAAAAATV KASPDETSAD NSSSTTNTSG GAIIEPTPRR  180
TLETFGQRTS IYRGVTRHRW TGRYEAHLWD NSCRREGQSR KGRQGGYDKE EKAARAYDLA  240
ALKYWGPSTT TNFPITNYEK EVEEMKHMTR QEFVAAIRRK SSGFSRGASM YRGVTRHHQH  300
GRWQARIGRV AGNKDLYLGT FSTEEEAAEA YDIAAIKFRG LNAVTNFEIN RYDVKAILES  360
NTLPIGGGAA KRLKEAQALE SSRKREEMIA LGSNFQQYGA ASGSSSVASS SRLQLQPYPL  420
SIQQPFEHLH HQPLLTLQNN NDISQYNTSA HDSYSYIQTQ LHLHQQQTNN YLQSSNHSSQ  480
LYNAYLQSNP GLLHGFVSDN NNNTSGFLGN SAIGIGSTST VGSSAEEDFP TVKVDYDMPS  540
SGGTTGYGGW TTGESVQGSN PGSVFTMWNE

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	676714748

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

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

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	AY585681	0.0	AY585681.1 Arabidopsis thaliana clone at1g51190 AP2/EREBP transcription factor 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]