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

AT5G04340.1

Common Name

C2H2, CZF2, T19N18.70, ZAT6

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 238aa MW: 25252.3 Da PI: 8.152

Description

zinc finger of Arabidopsis thaliana 6

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT5G04340.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.1	0.00013	89	111	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ykC+ C+k Fs+ L H +H AT5G04340.1 89 YKCSVCDKAFSSYQALGGHKASH 111 9***********99999998887 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	5.87E-10	88	111	No hit	No description
SMART	SM00355	0.0073	89	111	IPR015880	Zinc finger, C2H2-like
Pfam	PF13912	1.8E-13	89	113	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	2.2E-4	89	111	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.263	89	111	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	91	111	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	5.87E-10	143	170	No hit	No description
SMART	SM00355	0.35	148	170	IPR015880	Zinc finger, C2H2-like
Pfam	PF13912	1.3E-11	148	172	IPR007087	Zinc finger, C2H2
PROSITE profile	PS50157	10.014	148	175	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	150	170	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010200	Biological Process	response to chitin
GO:0055062	Biological Process	phosphate ion homeostasis
GO:2000280	Biological Process	regulation of root development
GO:0005634	Cellular Component	nucleus
GO:0001047	Molecular Function	core promoter binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0008270	Molecular Function	zinc ion binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000037	anatomy	shoot apex
PO:0000230	anatomy	inflorescence meristem
PO:0000293	anatomy	guard cell
PO:0009005	anatomy	root
PO:0009025	anatomy	vascular leaf
PO:0009029	anatomy	stamen
PO:0009030	anatomy	carpel
PO:0009031	anatomy	sepal
PO:0009046	anatomy	flower
PO:0009047	anatomy	stem
PO:0020030	anatomy	cotyledon
PO:0020038	anatomy	petiole
PO:0020100	anatomy	hypocotyl
PO:0020137	anatomy	leaf apex
PO:0025022	anatomy	collective leaf structure
PO:0025281	anatomy	pollen
PO:0007064	developmental stage	LP.12 twelve leaves visible stage
PO:0007095	developmental stage	LP.08 eight leaves visible stage
PO:0007098	developmental stage	LP.02 two leaves visible stage
PO:0007103	developmental stage	LP.10 ten leaves visible stage
PO:0007115	developmental stage	LP.04 four leaves visible stage
PO:0007123	developmental stage	LP.06 six leaves visible stage
PO:0007611	developmental stage	petal differentiation and expansion stage
PO:0007616	developmental stage	flowering stage

Sequence ? help Back to Top
Protein Sequence Length: 238 aa Download sequence Send to blast
MALETLTSPR LSSPMPTLFQ DSALGFHGSK GKRSKRSRSE FDRQSLTEDE YIALCLMLLA 60 RDGDRNRDLD LPSSSSSPPL LPPLPTPIYK CSVCDKAFSS YQALGGHKAS HRKSFSLTQS 120 AGGDELSTSS AITTSGISGG GGGSVKSHVC SICHKSFATG QALGGHKRCH YEGKNGGGVS 180 SSVSNSEDVG STSHVSSGHR GFDLNIPPIP EFSMVNGDEE VMSPMPAKKL RFDFPEKP

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.65029	0.0	leaf\| root\| seed

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	30680473	0.0
Genevisible	245711_at	0.0
Expression Atlas	AT5G04340	-
AtGenExpress	AT5G04340	-
ATTED-II	AT5G04340	-

Functional Description ? help Back to Top
Source	Description
TAIR	putative c2h2 zinc finger transcription factor mRNA,
UniProt	Probable transcription factor that regulates root development and phosphate (Pi) acquisition and homeostasis. Probably acts as a repressor of primary root growth and regulates Pi homeostasis through the control of root architecture. {ECO:0000269\|PubMed:17631527}.

Function -- GeneRIF ? help Back to Top
AtSWP1 and AtCZS (a C2H2 zinc finger-SET domain protein) represent two main components of a co-repressor complex that fine tunes flowering and is unique to plants. [PMID: 17224141] repressor of primary root growth and regulates phosphate homeostasis through the control of root architecture [PMID: 17631527] these results suggest that phosphorylation by MPK6 is required for the functional role of ZAT6 in seed germination under salt and osmotic stress. [PMID: 23257164] ZAT6 coordinately activates phytochelatin synthesis-related gene expression and directly targets GSH1 to positively regulate Cd accumulation and tolerance in Arabidopsis. [PMID: 26983992] melatonin and auxin mediated the transcriptional levels of zinc finger of Arabidopsis thaliana (ZAT6) in a mutually antagonistic manner. ZAT6 negatively modulated the endogenous auxin level [PMID: 29607541]

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00622	PBM	24477691	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT5G04340.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By cold treatment and during Pi starvation. {ECO:0000269\|PubMed:15634197, ECO:0000269\|PubMed:17631527}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT5G04340

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF022658	0.0	AF022658.1 Arabidopsis thaliana putative c2h2 zinc finger transcription factor mRNA, complete cds.
GenBank	CP002688	0.0	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_196054.1	1e-173	6
Swissprot	O22533	1e-174	ZAT6_ARATH; Zinc finger protein ZAT6
TrEMBL	A0A178UKV2	1e-171	A0A178UKV2_ARATH; ZAT6
STRING	AT5G04340.1	1e-172	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1211	28	98
Representative plant	OGRP131	15	149

Link Out ? help Back to Top
Phytozome	AT5G04340.1
Entrez Gene	830313
iHOP	AT5G04340
wikigenes	AT5G04340

Publications ? help Back to Top
Chrispeels HE,Oettinger H,Janvier N,Tague BW AtZFP1, encoding Arabidopsis thaliana C2H2 zinc-finger protein 1, is expressed downstream of photomorphogenic activation. Plant Mol. Biol., 2000. 42(2): p. 279-90 [PMID:10794528] Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Kim JC, et al. A novel cold-inducible zinc finger protein from soybean, SCOF-1, enhances cold tolerance in transgenic plants. Plant J., 2001. 25(3): p. 247-59 [PMID:11208017] Seki M, et al. Functional annotation of a full-length Arabidopsis cDNA collection. Science, 2002. 296(5565): p. 141-5 [PMID:11910074] Vogel JT,Zarka DG,Van Buskirk HA,Fowler SG,Thomashow MF Roles of the CBF2 and ZAT12 transcription factors in configuring the low temperature transcriptome of Arabidopsis. Plant J., 2005. 41(2): p. 195-211 [PMID:15634197] Li P, et al. Effects of chronic ozone exposure on gene expression in Arabidopsis thaliana ecotypes and in Thellungiella halophila. Plant Cell Environ., 2006. 29(5): p. 854-68 [PMID:17087469] Krichevsky A, et al. C2H2 zinc finger-SET histone methyltransferase is a plant-specific chromatin modifier. Dev. Biol., 2007. 303(1): p. 259-69 [PMID:17224141] Gan Y,Liu C,Yu H,Broun P Integration of cytokinin and gibberellin signalling by Arabidopsis transcription factors GIS, ZFP8 and GIS2 in the regulation of epidermal cell fate. Development, 2007. 134(11): p. 2073-81 [PMID:17507408] Zhang J,Cao ML,Huang YB,Wu BJ [Study of hrpN(CSDS001) and the gene expression profile of Arabidopsis thaliana induced by Harpin(CSDS001)]. Yi Chuan, 2007. 29(5): p. 629-36 [PMID:17548335] Crawford BC,Ditta G,Yanofsky MF The NTT gene is required for transmitting-tract development in carpels of Arabidopsis thaliana. Curr. Biol., 2007. 17(13): p. 1101-8 [PMID:17600712] Devaiah BN,Nagarajan VK,Raghothama KG Phosphate homeostasis and root development in Arabidopsis are synchronized by the zinc finger transcription factor ZAT6. Plant Physiol., 2007. 145(1): p. 147-59 [PMID:17631527] Ciftci-Yilmaz S,Mittler R The zinc finger network of plants. Cell. Mol. Life Sci., 2008. 65(7-8): p. 1150-60 [PMID:18193167] Pauwels L, et al. Mapping methyl jasmonate-mediated transcriptional reprogramming of metabolism and cell cycle progression in cultured Arabidopsis cells. Proc. Natl. Acad. Sci. U.S.A., 2008. 105(4): p. 1380-5 [PMID:18216250] Ascencio-Ib Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection. Plant Physiol., 2008. 148(1): p. 436-54 [PMID:18650403] Vald Transcriptional regulation and signaling in phosphorus starvation: what about legumes? J Integr Plant Biol, 2008. 50(10): p. 1213-22 [PMID:19017108] Kagale S,Links MG,Rozwadowski K Genome-wide analysis of ethylene-responsive element binding factor-associated amphiphilic repression motif-containing transcriptional regulators in Arabidopsis. Plant Physiol., 2010. 152(3): p. 1109-34 [PMID:20097792] Kodaira KS, et al. Arabidopsis Cys2/His2 zinc-finger proteins AZF1 and AZF2 negatively regulate abscisic acid-repressive and auxin-inducible genes under abiotic stress conditions. Plant Physiol., 2011. 157(2): p. 742-56 [PMID:21852415] Gaudinier A, et al. Enhanced Y1H assays for Arabidopsis. Nat. Methods, 2011. 8(12): p. 1053-5 [PMID:22037706] Causier B,Ashworth M,Guo W,Davies B The TOPLESS interactome: a framework for gene repression in Arabidopsis. Plant Physiol., 2012. 158(1): p. 423-38 [PMID:22065421] Liu XM, et al. Phosphorylation of the zinc finger transcriptional regulator ZAT6 by MPK6 regulates Arabidopsis seed germination under salt and osmotic stress. Biochem. Biophys. Res. Commun., 2013. 430(3): p. 1054-9 [PMID:23257164] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Shi H, et al. The Cysteine2/Histidine2-Type Transcription Factor ZINC FINGER OF ARABIDOPSIS THALIANA6 Modulates Biotic and Abiotic Stress Responses by Activating Salicylic Acid-Related Genes and C-REPEAT-BINDING FACTOR Genes in Arabidopsis. Plant Physiol., 2014. 165(3): p. 1367-1379 [PMID:24834923] Shi H,Chan Z The cysteine2/histidine2-type transcription factor ZINC FINGER OF ARABIDOPSIS THALIANA 6-activated C-REPEAT-BINDING FACTOR pathway is essential for melatonin-mediated freezing stress resistance in Arabidopsis. J. Pineal Res., 2014. 57(2): p. 185-91 [PMID:24962049] Chen J, et al. Zinc-Finger Transcription Factor ZAT6 Positively Regulates Cadmium Tolerance through the Glutathione-Dependent Pathway in Arabidopsis. Plant Physiol., 2016. 171(1): p. 707-19 [PMID:26983992] Song L, et al. A transcription factor hierarchy defines an environmental stress response network. Science, 2017. [PMID:27811239] Li Y, et al. The C2H2 zinc-finger protein SlZF3 regulates AsA synthesis and salt tolerance by interacting with CSN5B. Plant Biotechnol. J., 2018. 16(6): p. 1201-1213 [PMID:29193661] Kim SY,Hyoung S,So WM,Shin JS The novel transcription factor TRP interacts with ZFP5, a trichome initiation-related transcription factor, and negatively regulates trichome initiation through gibberellic acid signaling. Plant Mol. Biol., 2018. 96(3): p. 315-326 [PMID:29335898] Shi H, et al. Zinc finger of Arabidopsis thaliana 6 is involved in melatonin-mediated auxin signaling through interacting INDETERMINATE DOMAIN15 and INDOLE-3-ACETIC ACID 17. J. Pineal Res., 2018. 65(2): p. e12494 [PMID:29607541] Shi H,Liu G,Wei Y,Chan Z The zinc-finger transcription factor ZAT6 is essential for hydrogen peroxide induction of anthocyanin synthesis in Arabidopsis. Plant Mol. Biol., 2018. 97(1-2): p. 165-176 [PMID:29675814] Tague BW,Goodman HM Characterization of a family of Arabidopsis zinc finger protein cDNAs. Plant Mol. Biol., 1995. 28(2): p. 267-79 [PMID:7599312] Tague BW,Gallant P,Goodman HM Expression analysis of an Arabidopsis C2H2 zinc finger protein gene. Plant Mol. Biol., 1996. 32(5): p. 785-96 [PMID:8980531] Meissner R,Michael AJ Isolation and characterisation of a diverse family of Arabidopsis two and three-fingered C2H2 zinc finger protein genes and cDNAs. Plant Mol. Biol., 1997. 33(4): p. 615-24 [PMID:9132053] Luo M, et al. Genes controlling fertilization-independent seed development in Arabidopsis thaliana. Proc. Natl. Acad. Sci. U.S.A., 1999. 96(1): p. 296-301 [PMID:9874812]