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

OB08G14470.1

Common Name

LOC102704164

Organism

Oryza brachyantha

Taxonomic ID

4533

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

AP2

Protein Properties

Length: 282aa MW: 30652 Da PI: 6.0063

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OB08G14470.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	46.1	1.2e-14	84	143	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrd.pse.ng..kr.krfslgkfgtaeeAakaaiaarkkleg 55 s+y+GV++ k++g+++A+++d s+ g ++ k+++lg++ t+e Aa+a++ a++k++g OB08G14470.1 84 SRYHGVTRLKWSGKYEAHLWDnTSQvEGrkRKgKHVYLGSYVTEENAARAHDLAALKYWG 143 79*****************666696675336***********************98 PP
2	AP2	49.2	1.3e-15	188	241	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpse.ngkr.krfslgkfgtaeeAakaaiaarkkleg 55 s y+GV+++k +grW A+I e + k ++lg+f t+ eAa+a++ a+ +l+g OB08G14470.1 188 SSYRGVTRRK-DGRWQARIGRIGEsR--DtKDIYLGTFETEIEAAEAYDLAAIELRG 241 67***999.9**99953323..36******99***********97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00018	3.18E-14	84	155	No hit	No description
Pfam	PF00847	7.2E-12	84	143	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	6.54E-14	84	153	IPR016177	DNA-binding domain
PROSITE profile	PS51032	17.082	85	153	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	6.1E-13	85	153	IPR001471	AP2/ERF domain
SMART	SM00380	1.4E-18	85	159	IPR001471	AP2/ERF domain
Pfam	PF00847	2.5E-11	188	241	IPR001471	AP2/ERF domain
CDD	cd00018	4.95E-20	188	251	No hit	No description
SuperFamily	SSF54171	3.73E-17	188	251	IPR016177	DNA-binding domain
PROSITE profile	PS51032	18.505	189	249	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	1.1E-18	189	249	IPR001471	AP2/ERF domain
SMART	SM00380	1.6E-25	189	255	IPR001471	AP2/ERF domain
PRINTS	PR00367	8.9E-8	190	201	IPR001471	AP2/ERF domain
PRINTS	PR00367	8.9E-8	231	251	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: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: 282 aa Download sequence Send to blast
MATVHPASSE PAPPPKEGEE PEQQPRAGGT DPPGPGAGEE IAALDEQQAV ADGGGDEGRA 60 AAGGGGGGKL VAEAMRKYAA PRSSRYHGVT RLKWSGKYEA HLWDNTSQVE GRKRKGKHVY 120 LGSYVTEENA ARAHDLAALK YWGAGLNTKL NFNISDYEKE IELMKTMTQD EFVVYIRRQS 180 SCFSRGTSSY RGVTRRKDGR WQARIGRIGE SRDTKDIYLG TFETEIEAAE AYDLAAIELR 240 GVHAVTNFDI SNYCEDGLKK LEGSSEVPKL EGPSEVAKLA GQ

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	OB08G14470.1

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	AY685118	0.0	AY685118.1 Oryza sativa (japonica cultivar-group) transcription factor AP2D9 (AP2D9) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006659172.1	0.0	PREDICTED: AP2-like ethylene-responsive transcription factor PLT2
Swissprot	Q5YGP7	1e-67	PLET2_ARATH; AP2-like ethylene-responsive transcription factor PLT2
TrEMBL	J3MQR8	0.0	J3MQR8_ORYBR; Uncharacterized protein
STRING	OB08G14470.1	0.0	(Oryza brachyantha)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP7864	35	48

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G72570.1	5e-70	AP2 family protein

Link Out ? help Back to Top
Entrez Gene	102704164

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]