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

Dca29759.1

Organism

Dianthus caryophyllus

Taxonomic ID

3570

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Caryophyllaceae; Caryophylleae; Dianthus

Family

AP2

Protein Properties

Length: 629aa MW: 68504.1 Da PI: 6.6564

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Dca29759.1	genome	DCA	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	30.5	9.1e-10	206	262	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrd.pseng..kr.krfslgkfgtaeeAakaaiaarkkleg 55 s y+GV++++++gr++A+++d + ++ k + g ++ +++Aa+ ++ a++k++g Dca29759.1 206 SIYRGVTRHRWTGRYEAHLWDnSCR-RegQSrKGRQ-GGYDKEDKAARSYDLAALKYWG 262 57*****************5444.2455535555.7799999***********98 PP
2	AP2	47.7	4e-15	305	356	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s y+GV+++++ grW A+I + +k +lg+f t+eeAa+a++ a+ k++g Dca29759.1 305 SIYRGVTRHHQHGRWQARIGRVAG---NKDLYLGTFSTEEEAAEAYDIAAIKFRG 356 57**************988532...5**********************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF00847	2.2E-7	206	262	IPR001471	AP2/ERF domain
CDD	cd00018	3.54E-18	206	272	No hit	No description
SuperFamily	SSF54171	2.81E-13	206	272	IPR016177	DNA-binding domain
SMART	SM00380	1.5E-21	207	276	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	1.5E-10	207	271	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	16.898	207	270	IPR001471	AP2/ERF domain
PRINTS	PR00367	4.9E-6	208	219	IPR001471	AP2/ERF domain
Pfam	PF00847	8.6E-10	305	356	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	1.11E-17	305	365	IPR016177	DNA-binding domain
CDD	cd00018	5.07E-25	305	364	No hit	No description
SMART	SM00380	4.3E-33	306	370	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	6.5E-18	306	364	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	19.256	306	364	IPR001471	AP2/ERF domain
PRINTS	PR00367	4.9E-6	346	366	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: 629 aa Download sequence Send to blast
MNSNNWLSFP LSPTHSSHLQ STNSDTHQHF NLGLVSDHID NPFGQVQEWN LLNSHDTNEV 60 PKIADFLGVG KSESHHSSNL SAFHNDITQA SEHDYLFSGN GLLTVQNNVA TNNNNGYHEF 120 QENSNSLQSL TLSMGSSGKQ QQQQHQQQEQ QPPLSNNTTT NCESGDNIST ASVAASTAAE 180 DVTTAIAPVV EATPRRTLET FGQRTSIYRG VTRHRWTGRY EAHLWDNSCR REGQSRKGRQ 240 GGYDKEDKAA RSYDLAALKY WGTSTTTNFP ISNYEKEIEE MKHMTRQEFV AAIRRKSSGF 300 SRGASIYRGV TRHHQHGRWQ ARIGRVAGNK DLYLGTFSTE EEAAEAYDIA AIKFRGLSAV 360 TNFEMNRYDV KTILESTTLP IGGGAAKRLK EAQAIESSRK REELIALTNS TFQYGSGSTS 420 SRYGSHTGGG YPLLSYHHQD HQHPAVQQQQ QQQTLLTLQN NHGQDHNTST NNNISLSHYS 480 QEAQFLQLYQ QQQSNYSNNP SSIYNGYIQS NPGLLHGFMG MGSGSNSTGV VIDHTNNNGS 540 SSGSYGGGGV GVGYMHGTDG ISNNAMGSTS TTSNNGVGPG DGEPLALVKV DYDMSSAGGG 600 GGGGGSYGGW SSESVQGPNS GVFSMWNNE

Sequence ? help Back to Top

Protein Sequence Length: 629 aa Download sequence Send to blast

MNSNNWLSFP LSPTHSSHLQ STNSDTHQHF NLGLVSDHID NPFGQVQEWN LLNSHDTNEV  60
PKIADFLGVG KSESHHSSNL SAFHNDITQA SEHDYLFSGN GLLTVQNNVA TNNNNGYHEF  120
QENSNSLQSL TLSMGSSGKQ QQQQHQQQEQ QPPLSNNTTT NCESGDNIST ASVAASTAAE  180
DVTTAIAPVV EATPRRTLET FGQRTSIYRG VTRHRWTGRY EAHLWDNSCR REGQSRKGRQ  240
GGYDKEDKAA RSYDLAALKY WGTSTTTNFP ISNYEKEIEE MKHMTRQEFV AAIRRKSSGF  300
SRGASIYRGV TRHHQHGRWQ ARIGRVAGNK DLYLGTFSTE EEAAEAYDIA AIKFRGLSAV  360
TNFEMNRYDV KTILESTTLP IGGGAAKRLK EAQAIESSRK REELIALTNS TFQYGSGSTS  420
SRYGSHTGGG YPLLSYHHQD HQHPAVQQQQ QQQTLLTLQN NHGQDHNTST NNNISLSHYS  480
QEAQFLQLYQ QQQSNYSNNP SSIYNGYIQS NPGLLHGFMG MGSGSNSTGV VIDHTNNNGS  540
SSGSYGGGGV GVGYMHGTDG ISNNAMGSTS TTSNNGVGPG DGEPLALVKV DYDMSSAGGG  600
GGGGGSYGGW SSESVQGPNS GVFSMWNNE

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}.

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_010673600.1	0.0	PREDICTED: AP2-like ethylene-responsive transcription factor PLT2
Swissprot	Q5YGP7	0.0	PLET2_ARATH; AP2-like ethylene-responsive transcription factor PLT2
TrEMBL	A0A061GZ62	0.0	A0A061GZ62_THECC; AP2 domain-containing transcription factor
STRING	XP_010673600.1	0.0	(Beta vulgaris)

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]