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

e_gw1.4.797.1

Common Name

COCSUDRAFT_13648

Organism

Coccomyxa subellipsoidea C-169

Taxonomic ID

574566

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Chlorophyta; Trebouxiophyceae; Trebouxiophyceae incertae sedis; Coccomyxaceae; Coccomyxa; Coccomyxa subellipsoidea

Family

AP2

Protein Properties

Length: 179aa MW: 20063.9 Da PI: 9.3672

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
e_gw1.4.797.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	24.4	7.2e-08	11	49	14	55
AP2 14 rWvAeIrdpseng.krkrfslgkfgtaeeAakaaiaarkkleg 55 rW+A++++ + ++++lg + +e Aa+a++ a++k +g e_gw1.4.797.1 11 RWEAHLWV----KeLGRQVYLGGYENEEHAAEAYDVAALKCKG 49 9*****....3334*********************9877 PP
2	AP2	42.8	1.3e-13	93	141	2	55
AP2 2 gykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 ++GV+ ++ +grW+A+I +p g +k+++lg f + eAaka+++a +l+g e_gw1.4.797.1 93 AFRGVTHHP-SGRWEARIGVP---G-SKHIYLGLFTGEREAAKAYDRALVRLRG 141 58**999.7*****8...3.6******99**********998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51032	12.418	1	57	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	1.3E-13	7	58	IPR001471	AP2/ERF domain
SMART	SM00380	1.8E-15	7	63	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	3.92E-11	10	59	IPR016177	DNA-binding domain
Pfam	PF00847	2.6E-4	10	49	IPR001471	AP2/ERF domain
CDD	cd00018	4.03E-16	11	59	No hit	No description
CDD	cd00018	5.59E-18	92	151	No hit	No description
SuperFamily	SSF54171	2.75E-15	92	150	IPR016177	DNA-binding domain
Gene3D	G3DSA:3.30.730.10	8.1E-17	93	150	IPR001471	AP2/ERF domain
SMART	SM00380	4.4E-22	93	155	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	16.002	93	149	IPR001471	AP2/ERF domain
PRINTS	PR00367	7.1E-7	94	105	IPR001471	AP2/ERF domain
Pfam	PF00847	2.1E-6	94	141	IPR001471	AP2/ERF domain
PRINTS	PR00367	7.1E-7	131	151	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: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: 179 aa Download sequence Send to blast
MPCLPSRVLC RWEAHLWVKE LGRQVYLGGY ENEEHAAEAY DVAALKCKGP RVRTNFPLSR 60 YSDLTECMGG ISVEELIMAV RRQSQGFSRG TSAFRGVTHH PSGRWEARIG VPGSKHIYLG 120 LFTGEREAAK AYDRALVRLR GTAAATNFAL SDYRNDLADY HKMQQVWLLI GRPPGFYS*

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_005650140.1	1e-131	AP2-domain-containing protein
Swissprot	Q5YGP7	4e-44	PLET2_ARATH; AP2-like ethylene-responsive transcription factor PLT2
TrEMBL	I0Z4M7	1e-130	I0Z4M7_COCSC; AP2-domain-containing protein
STRING	XP_005650140.1	1e-131	(Coccomyxa subellipsoidea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Chlorophytae	OGCP56	16	57

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G51190.1	2e-46	AP2 family protein

Link Out ? help Back to Top
Entrez Gene	17043598

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] Blanc G, et al. The genome of the polar eukaryotic microalga Coccomyxa subellipsoidea reveals traits of cold adaptation. Genome Biol., 2012. 13(5): p. R39 [PMID:22630137] 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]