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

Niben101Scf07196g01008.1

Organism

Nicotiana benthamiana

Taxonomic ID

4100

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

AP2

Protein Properties

Length: 405aa MW: 44496.6 Da PI: 7.2523

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Niben101Scf07196g01008.1	genome	BTI	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	36.2	1.5e-11	48	104	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrd.pseng..kr.krfslgkfgtaeeAakaaiaarkkleg 55 s y+GV++++++gr++A+++d + ++ k + g ++ +e+Aa+a++ a++k++g Niben101Scf07196g01008.1 48 SIYRGVTRHRWTGRYEAHLWDnSCR-RegQSrKGRQ-GGYDKEEKAARAYDLAALKYWG 104 57*****************5444.2455536655.779999************98 PP
2	AP2	37	8.5e-12	135	181	6	55
AP2 6 VrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 +r++++ grW A+I + +k +lg+f ++eeAa+a++ a+ k++g Niben101Scf07196g01008.1 135 IRRHHQHGRWQARIGRVAG---NKDLYLGTFTSEEEAAEAYDIAAIKFRG 181 799********988532...5**********************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF54171	4.77E-15	48	114	IPR016177	DNA-binding domain
Pfam	PF00847	6.0E-9	48	104	IPR001471	AP2/ERF domain
CDD	cd00018	2.80E-19	48	114	No hit	No description
Gene3D	G3DSA:3.30.730.10	2.2E-12	49	113	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	17.504	49	112	IPR001471	AP2/ERF domain
SMART	SM00380	3.2E-23	49	118	IPR001471	AP2/ERF domain
PRINTS	PR00367	2.2E-6	50	61	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	16.384	130	189	IPR001471	AP2/ERF domain
CDD	cd00018	1.71E-19	135	189	No hit	No description
SMART	SM00380	1.8E-25	135	195	IPR001471	AP2/ERF domain
Pfam	PF00847	2.8E-6	135	181	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	1.11E-14	137	190	IPR016177	DNA-binding domain
Gene3D	G3DSA:3.30.730.10	1.4E-14	137	189	IPR001471	AP2/ERF domain
PRINTS	PR00367	2.2E-6	171	191	IPR001471	AP2/ERF domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
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: 405 aa Download sequence Send to blast
MGSVKGSTSE TSASPSATTT ANASENSNTS IVEAAPRRTL DTFGQRTSIY RGVTRHRWTG 60 RYEAHLWDNS CRREGQSRKG RQGGYDKEEK AARAYDLAAL KYWGTSTTTN FPISNYEKEL 120 EDMKHMTRQE FVAAIRRHHQ HGRWQARIGR VAGNKDLYLG TFTSEEEAAE AYDIAAIKFR 180 GLNAVTNFDM NRYDVKAILE SNTLPIGGGA AKRLKEAQAL ESSRKKDQEM IALNSSFQYG 240 NSSNSSNNPL HAYPLLQQQP FSIESHQPLM TLQNQESSHF HQSYLQTQLQ LHPAAQTSHY 300 DSTHQFYSNY LQSNPVFLHG LMENGGGSAS TGSYSTGGYF GISTGLGGIS SNSTSNGVGG 360 GNGEEVALVK VDYDNMPVNG SNYNGWSGDS SVQGSNPGVF SMWND

Sequence ? help Back to Top

Protein Sequence Length: 405 aa Download sequence Send to blast

MGSVKGSTSE TSASPSATTT ANASENSNTS IVEAAPRRTL DTFGQRTSIY RGVTRHRWTG  60
RYEAHLWDNS CRREGQSRKG RQGGYDKEEK AARAYDLAAL KYWGTSTTTN FPISNYEKEL  120
EDMKHMTRQE FVAAIRRHHQ HGRWQARIGR VAGNKDLYLG TFTSEEEAAE AYDIAAIKFR  180
GLNAVTNFDM NRYDVKAILE SNTLPIGGGA AKRLKEAQAL ESSRKKDQEM IALNSSFQYG  240
NSSNSSNNPL HAYPLLQQQP FSIESHQPLM TLQNQESSHF HQSYLQTQLQ LHPAAQTSHY  300
DSTHQFYSNY LQSNPVFLHG LMENGGGSAS TGSYSTGGYF GISTGLGGIS SNSTSNGVGG  360
GNGEEVALVK VDYDNMPVNG SNYNGWSGDS SVQGSNPGVF SMWND

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}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009801580.1	0.0	PREDICTED: AP2-like ethylene-responsive transcription factor PLT2 isoform X2
Refseq	XP_016491022.1	0.0	PREDICTED: AP2-like ethylene-responsive transcription factor PLT2
Swissprot	Q5YGP8	1e-167	PLET1_ARATH; AP2-like ethylene-responsive transcription factor PLT1
TrEMBL	A0A1S4BQ54	0.0	A0A1S4BQ54_TOBAC; AP2-like ethylene-responsive transcription factor PLT2
TrEMBL	A0A1U7YRW8	0.0	A0A1U7YRW8_NICSY; AP2-like ethylene-responsive transcription factor PLT2 isoform X2
STRING	XP_009801579.1	0.0	(Nicotiana sylvestris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA2246	24	57

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G20840.1	1e-151	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] García-Cruz KV, et al. The MADS-box XAANTAL1 increases proliferation at the Arabidopsis root stem-cell niche and participates in transition to differentiation by regulating cell-cycle components. Ann. Bot., 2018. [PMID:27474508] 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] Franssen HJ,Kulikova O,Willemsen V,Heidstra R Cis-regulatory PLETHORA promoter elements directing root and nodule expression are conserved between Arabidopsis thaliana and Medicago truncatula. Plant Signal Behav, 2017. 12(2): p. e1278102 [PMID:28067580] 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] Ercoli MF, et al. GIF Transcriptional Coregulators Control Root Meristem Homeostasis. Plant Cell, 2018. 30(2): p. 347-359 [PMID:29352064] Xu C, et al. Control of auxin-induced callus formation by bZIP59-LBD complex in Arabidopsis regeneration. Nat Plants, 2018. 4(2): p. 108-115 [PMID:29358751]