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

RrC14808_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

ERF

Protein Properties

Length: 101aa MW: 10894.2 Da PI: 10.7403

Description

ERF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC14808_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	51.5	2.5e-16	1	47	5	55
AP2 5 GVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 GVr+++ +g+W+A Irdp+ + +r++lg+f ta +Aa a+++a++k++g RrC14808_p1 1 GVRQRP-WGKWAAVIRDPK----KaARVWLGTFETAGDAALAYDRAALKFKG 47 9***.******94....45**********************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.730.10	1.1E-28	1	56	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	9.81E-20	1	56	IPR016177	DNA-binding domain
SMART	SM00380	1.7E-29	1	61	IPR001471	AP2/ERF domain
CDD	cd00018	6.01E-28	1	56	No hit	No description
PROSITE profile	PS51032	21.812	1	55	IPR001471	AP2/ERF domain
Pfam	PF00847	3.7E-10	1	47	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: 101 aa Download sequence Send to blast
GVRQRPWGKW AAVIRDPKKA ARVWLGTFET AGDAALAYDR AALKFKGTKA KLNFPERVQG 60 PSSYVASQSG TDHSPRGGSE LMNSPPPQLG PSTTSSWPNE L

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
2gcc_A	2e-24	1	59	8	67	ATERF1
3gcc_A	2e-24	1	59	8	67	ATERF1
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Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional activator involved in the regulation of plant development and tolerance to abiotic stresses (PubMed:21069430). Acts as positive regulator of tolerance to waterlogging stress. Delays waterlogging-induced premature senescence by regulating stomatal closure and antioxidant enzyme activity. May function through ABI1-mediated abscisic acid (ABA) signaling pathway (PubMed:22661072). Involved in tissue reunion of wounded inflorescence stems. Required for the division of pith cells in the reunion process, which is dependent on polar-transported auxin and the wound-inducible hormones ethylene and jasmonate (PubMed:21911380). 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). {ECO:0000250, ECO:0000269\|PubMed:21069430, ECO:0000269\|PubMed:21911380, ECO:0000269\|PubMed:22661072}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by salt stress (PubMed:16133218, PubMed:21069430). Induced drought stress, jasmonate (JA), salicylic acid (SA), abscisic acid (ABA) and ethylene. Down-regulated by freezing stress (PubMed:21069430). Induced by wounding in the flowering stem (PubMed:21911380). Induced by waterlogging. {ECO:0000269\|PubMed:16133218, ECO:0000269\|PubMed:21069430, ECO:0000269\|PubMed:21911380}.

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	AC189391	4e-98	AC189391.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB054G07, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018473033.1	2e-61	PREDICTED: ethylene-responsive transcription factor ERF113-like
Swissprot	Q9LYU3	9e-40	EF113_ARATH; Ethylene-responsive transcription factor ERF113
TrEMBL	A0A398ACE7	3e-52	A0A398ACE7_BRACM; Uncharacterized protein
STRING	Bra023404.1-P	2e-52	(Brassica rapa)
STRING	Bo3g009120.1	8e-53	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM10	28	1650

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G13330.1	1e-32	related to AP2 6l

Publications ? help Back to Top
Huang Z,Zhao P,Medina J,Meilan R,Woeste K Roles of JnRAP2.6-like from the transition zone of black walnut in hormone signaling. PLoS ONE, 2013. 8(11): p. e75857 [PMID:24265672] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Asahina M,Satoh S Molecular and physiological mechanisms regulating tissue reunion in incised plant tissues. J. Plant Res., 2015. 128(3): p. 381-8 [PMID:25736731] Hickman R, et al. Architecture and Dynamics of the Jasmonic Acid Gene Regulatory Network. Plant Cell, 2017. 29(9): p. 2086-2105 [PMID:28827376] Li B, et al. Network-Guided Discovery of Extensive Epistasis between Transcription Factors Involved in Aliphatic Glucosinolate Biosynthesis. Plant Cell, 2018. 30(1): p. 178-195 [PMID:29317470] Matsuoka K, et al. RAP2.6L and jasmonic acid-responsive genes are expressed upon Arabidopsis hypocotyl grafting but are not needed for cell proliferation related to healing. Plant Mol. Biol., 2018. 96(6): p. 531-542 [PMID:29344830] Yang S,Poretska O,Sieberer T ALTERED MERISTEM PROGRAM1 Restricts Shoot Meristem Proliferation and Regeneration by Limiting HD-ZIP III-Mediated Expression of RAP2.6L. Plant Physiol., 2018. 177(4): p. 1580-1594 [PMID:29884678]