PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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: 499aa MW: 55206.8 Da PI: 6.1341

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT1G34370.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	21.1	8.3e-07	245	266	2	23
EETTTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCpdCgksFsrksnLkrHirtH 23 C++Cgk F+r nL+ H+r H AT1G34370.1 245 FCTICGKGFKRDANLRMHMRGH 266 6*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.17E-5	242	270	No hit	No description
PROSITE profile	PS50157	12.03	244	271	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0026	244	266	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	7.5E-6	245	297	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	246	266	IPR007087	Zinc finger, C2H2
SMART	SM00355	67	295	328	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	45	333	355	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010044	Biological Process	response to aluminum ion
GO:0010447	Biological Process	response to acidic pH
GO:0005634	Cellular Component	nucleus
GO:0003676	Molecular Function	nucleic acid binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0008270	Molecular Function	zinc ion binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000013	anatomy	cauline leaf
PO:0000037	anatomy	shoot apex
PO:0000230	anatomy	inflorescence meristem
PO:0000293	anatomy	guard cell
PO:0008019	anatomy	leaf lamina base
PO:0009005	anatomy	root
PO:0009006	anatomy	shoot system
PO:0009009	anatomy	plant embryo
PO:0009010	anatomy	seed
PO:0009025	anatomy	vascular leaf
PO:0009029	anatomy	stamen
PO:0009030	anatomy	carpel
PO:0009031	anatomy	sepal
PO:0009032	anatomy	petal
PO:0009046	anatomy	flower
PO:0009047	anatomy	stem
PO:0009052	anatomy	flower pedicel
PO:0020030	anatomy	cotyledon
PO:0020038	anatomy	petiole
PO:0020100	anatomy	hypocotyl
PO:0020137	anatomy	leaf apex
PO:0025022	anatomy	collective leaf structure
PO:0025195	anatomy	pollen tube cell
PO:0025281	anatomy	pollen
PO:0001054	developmental stage	vascular leaf senescent stage
PO:0001078	developmental stage	plant embryo cotyledonary stage
PO:0001081	developmental stage	mature plant embryo stage
PO:0001185	developmental stage	plant embryo globular stage
PO:0004507	developmental stage	plant embryo bilateral stage
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: 499 aa Download sequence Send to blast
METEDDLCNT NWGSSSSKSR EPGSSDCGNS TFAGFTSQQK WEDASILDYE MGVEPGLQES 60 IQANVDFLQG VRAQAWDPRT MLSNLSFMEQ KIHQLQDLVH LLVGRGGQLQ GRQDELAAQQ 120 QQLITTDLTS IIIQLISTAG SLLPSVKHNM STAPGPFTGQ PGSAVFPYVR EANNVASQSQ 180 NNNNCGAREF DLPKPVLVDE REGHVVEEHE MKDEDDVEEG ENLPPGSYEI LQLEKEEILA 240 PHTHFCTICG KGFKRDANLR MHMRGHGDEY KTAAALAKPN KESVPGSEPM LIKRYSCPFL 300 GCKRNKEHKK FQPLKTILCV KNHYKRTHCD KSFTCSRCHT KKFSVIADLK THEKHCGKNK 360 WLCSCGTTFS RKDKLFGHIA LFQGHTPAIP LEETKPSAST STQRGSSEGG NNNQGMVGFN 420 LGSASNANQE TTQPGMTDGR ICFEESFSPM NFDTCNFGGF HEFPRLMFDD SESSFQMLIA 480 NACGFSPRNV GESVSDTSL

Sequence ? help Back to Top

Protein Sequence Length: 499 aa Download sequence Send to blast

METEDDLCNT NWGSSSSKSR EPGSSDCGNS TFAGFTSQQK WEDASILDYE MGVEPGLQES  60
IQANVDFLQG VRAQAWDPRT MLSNLSFMEQ KIHQLQDLVH LLVGRGGQLQ GRQDELAAQQ  120
QQLITTDLTS IIIQLISTAG SLLPSVKHNM STAPGPFTGQ PGSAVFPYVR EANNVASQSQ  180
NNNNCGAREF DLPKPVLVDE REGHVVEEHE MKDEDDVEEG ENLPPGSYEI LQLEKEEILA  240
PHTHFCTICG KGFKRDANLR MHMRGHGDEY KTAAALAKPN KESVPGSEPM LIKRYSCPFL  300
GCKRNKEHKK FQPLKTILCV KNHYKRTHCD KSFTCSRCHT KKFSVIADLK THEKHCGKNK  360
WLCSCGTTFS RKDKLFGHIA LFQGHTPAIP LEETKPSAST STQRGSSEGG NNNQGMVGFN  420
LGSASNANQE TTQPGMTDGR ICFEESFSPM NFDTCNFGGF HEFPRLMFDD SESSFQMLIA  480
NACGFSPRNV GESVSDTSL

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.64018	0.0	root\| seed\| silique\| vegetative tissue

Expression -- Microarray ? help Back to Top
Source	ID	E-value
Genevisible	259932_at	0.0
Expression Atlas	AT1G34370	-
AtGenExpress	AT1G34370	-
ATTED-II	AT1G34370	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots (e.g. root tips and lateral roots), leaves, flowers (e.g. stigma, sepal, anther, and filament), stems, siliques and cotyledons. {ECO:0000269\|PubMed:23935008}.

Functional Description ? help Back to Top
Source	Description
TAIR	Encodes a putative nuclear Cys(2)His(2)-type zinc finger protein involved in H+ and Al3+ rhizotoxicity. In mutants exposed to aluminum stress, there is no induction of AtALMT1, an malate transporter known to be involved in the mediation of aluminum toxicity.
UniProt	Probable transcription factor. Together with STOP2, plays a critical role in tolerance to major stress factors in acid soils such as proton H(+) and aluminum ion Al(3+). Required for the expression of genes in response to acidic stress (e.g. ALMT1 and MATE), and Al-activated citrate exudation. {ECO:0000269\|PubMed:17535918, ECO:0000269\|PubMed:18826429, ECO:0000269\|PubMed:19321711, ECO:0000269\|PubMed:23935008}.

Function -- GeneRIF ? help Back to Top
STOP1 plays a critical role in Arabidopsis tolerance to major stress factors in acid soils. [STOP1] [PMID: 17535918] STOP1 is localized to the nucleus and regulates the expression of multiple genes that protect Arabidopsis from Al and H(+) toxicities. [PMID: 19321711] STOP2, a STOP1 homolog, partially recovered Al- and low pH-tolerance by recovering the expression of genes regulated by STOP1. [PMID: 23935008] Mutation in a position around -297 from the first ATG completely inactivated AtALMT1 expression and Al response that contained the STOP1 binding site. [PMID: 25627216] Results indicate STOP1 and ALMT1 as a signalling pathway of low phosphate (Pi) availability and exuded malate as an unexpected apoplastic inhibitor of root cell wall expansion. [PMID: 28504266]

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00196	ampDAP	27203113	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT1G34370.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By shock H(+) and Al(3+) treatments. {ECO:0000269\|PubMed:17535918}.

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

Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source	Target Gene (A: Activate/R: Repress)
ATRM	AT1G08430(A), AT3G22200(A), AT5G07440(A)

Interaction ? help Back to Top
Source	Intact With
IntAct	Search Q9C8N5

Phenotype -- Disruption Phenotype ? help Back to Top
Source	Description
UniProt	DISRUPTION PHENOTYPE: Hypersensitive to H(+) and Al(3+) rhizotoxicity, reduced induction of genes such as ALMT1 and MATE in response to acidic stress, and impaired Al-activated citrate exudation. {ECO:0000269\|PubMed:17535918, ECO:0000269\|PubMed:18826429, ECO:0000269\|PubMed:19321711}.

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT1G34370

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB300236	0.0	AB300236.1 Arabidopsis thaliana STOP1 gene for C2-H2 zinc finger protein, complete cds, ecotype: Ler.
GenBank	AB300238	0.0	AB300238.1 Arabidopsis thaliana STOP1 gene for C2-H2 zinc finger protein, complete cds, ecotype: Kl-5.
GenBank	AB300239	0.0	AB300239.1 Arabidopsis thaliana STOP1 gene for C2-H2 zinc finger protein, complete cds, ecotype: Col-4.
GenBank	AB300240	0.0	AB300240.1 Arabidopsis thaliana STOP1 gene for C2-H2 zinc finger protein, complete cds, ecotype: Tu-0.
GenBank	AB300241	0.0	AB300241.1 Arabidopsis thaliana STOP1 gene for C2-H2 zinc finger protein, complete cds, ecotype: Lo-1.
GenBank	AB300242	0.0	AB300242.1 Arabidopsis thaliana STOP1 gene for C2-H2 zinc finger protein, complete cds, ecotype: Kb-0.
GenBank	AB300243	0.0	AB300243.1 Arabidopsis thaliana STOP1 gene for C2-H2 zinc finger protein, complete cds, ecotype: Pi-0.
GenBank	AB300244	0.0	AB300244.1 Arabidopsis thaliana STOP1 gene for C2-H2 zinc finger protein, complete cds, ecotype: Fr-3.
GenBank	AB300245	0.0	AB300245.1 Arabidopsis thaliana STOP1 gene for C2-H2 zinc finger protein, complete cds, ecotype: Go-0.
GenBank	AB300246	0.0	AB300246.1 Arabidopsis thaliana STOP1 gene for C2-H2 zinc finger protein, complete cds, ecotype: Van-3.
GenBank	AB300247	0.0	AB300247.1 Arabidopsis thaliana STOP1 gene for C2-H2 zinc finger protein, complete cds, ecotype: Li-1.
GenBank	AC023913	0.0	AC023913.7 Arabidopsis thaliana chromosome 1 BAC F7P12 genomic sequence, complete sequence.
GenBank	AK227128	0.0	AK227128.1 Arabidopsis thaliana mRNA for putative zinc finger protein, complete cds, clone: RAFL09-80-D13.
GenBank	CP002684	0.0	CP002684.1 Arabidopsis thaliana chromosome 1 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_174697.1	0.0	C2H2 and C2HC zinc fingers superfamily protein
Refseq	NP_849746.1	0.0	C2H2 and C2HC zinc fingers superfamily protein
Swissprot	Q9C8N5	0.0	STOP1_ARATH; Protein SENSITIVE TO PROTON RHIZOTOXICITY 1
TrEMBL	A0A178WM47	0.0	A0A178WM47_ARATH; STOP1
STRING	AT1G34370.2	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6977	26	44
Representative plant	OGRP830	16	63

Link Out ? help Back to Top
Phytozome	AT1G34370.1
Entrez Gene	840339
iHOP	AT1G34370
wikigenes	AT1G34370

Publications ? help Back to Top
Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Englbrecht CC,Schoof H,B Conservation, diversification and expansion of C2H2 zinc finger proteins in the Arabidopsis thaliana genome. BMC Genomics, 2004. 5(1): p. 39 [PMID:15236668] Iuchi S, et al. Zinc finger protein STOP1 is critical for proton tolerance in Arabidopsis and coregulates a key gene in aluminum tolerance. Proc. Natl. Acad. Sci. U.S.A., 2007. 104(23): p. 9900-5 [PMID:17535918] Soitamo AJ,Piippo M,Allahverdiyeva Y,Battchikova N,Aro EM Light has a specific role in modulating Arabidopsis gene expression at low temperature. BMC Plant Biol., 2008. 8: p. 13 [PMID:18230142] Dortay H, et al. Toward an interaction map of the two-component signaling pathway of Arabidopsis thaliana. J. Proteome Res., 2008. 7(9): p. 3649-60 [PMID:18642946] Houde M,Diallo AO Identification of genes and pathways associated with aluminum stress and tolerance using transcriptome profiling of wheat near-isogenic lines. BMC Genomics, 2008. 9: p. 400 [PMID:18752686] Wang Y, et al. Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis. Plant Physiol., 2008. 148(3): p. 1201-11 [PMID:18775970] Liu J,Magalhaes JV,Shaff J,Kochian LV Aluminum-activated citrate and malate transporters from the MATE and ALMT families function independently to confer Arabidopsis aluminum tolerance. Plant J., 2009. 57(3): p. 389-99 [PMID:18826429] Sawaki Y, et al. STOP1 regulates multiple genes that protect arabidopsis from proton and aluminum toxicities. Plant Physiol., 2009. 150(1): p. 281-94 [PMID:19321711] Iuchi S,Kobayashi Y,Koyama H,Kobayashi M STOP1, a Cys2/His2 type zinc-finger protein, plays critical role in acid soil tolerance in Arabidopsis. Plant Signal Behav, 2008. 3(2): p. 128-30 [PMID:19704731] Zhou C,Yin Y,Dam P,Xu Y Identification of novel proteins involved in plant cell-wall synthesis based on protein-protein interaction data. J. Proteome Res., 2010. 9(10): p. 5025-37 [PMID:20687615] Efroni I, et al. Regulation of leaf maturation by chromatin-mediated modulation of cytokinin responses. Dev. Cell, 2013. 24(4): p. 438-45 [PMID:23449474] Ohyama Y, et al. Characterization of AtSTOP1 orthologous genes in tobacco and other plant species. Plant Physiol., 2013. 162(4): p. 1937-46 [PMID:23749850] Kobayashi Y, et al. Molecular and physiological analysis of Al³⁺ and H⁺ rhizotoxicities at moderately acidic conditions. Plant Physiol., 2013. 163(1): p. 180-92 [PMID:23839867] Kobayashi Y, et al. STOP2 activates transcription of several genes for Al- and low pH-tolerance that are regulated by STOP1 in Arabidopsis. Mol Plant, 2014. 7(2): p. 311-22 [PMID:23935008] Yokosho K,Yamaji N,Ma JF Global transcriptome analysis of Al-induced genes in an Al-accumulating species, common buckwheat (Fagopyrum esculentum Moench). Plant Cell Physiol., 2014. 55(12): p. 2077-91 [PMID:25273892] Tokizawa M, et al. SENSITIVE TO PROTON RHIZOTOXICITY1, CALMODULIN BINDING TRANSCRIPTION ACTIVATOR2, and other transcription factors are involved in ALUMINUM-ACTIVATED MALATE TRANSPORTER1 expression. Plant Physiol., 2015. 167(3): p. 991-1003 [PMID:25627216] Jin J, et al. An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors. Mol. Biol. Evol., 2015. 32(7): p. 1767-73 [PMID:25750178] Geng X, et al. LEUNIG_HOMOLOG transcriptional co-repressor mediates aluminium sensitivity through PECTIN METHYLESTERASE46-modulated root cell wall pectin methylesterification in Arabidopsis. Plant J., 2017. 90(3): p. 491-504 [PMID:28181322] Balzergue C, et al. Low phosphate activates STOP1-ALMT1 to rapidly inhibit root cell elongation. Nat Commun, 2017. 8: p. 15300 [PMID:28504266] Pelagio-Flores R,Esparza-Reynoso S,Garnica-Vergara A,López-Bucio J,Herrera-Estrella A Trichoderma-Induced Acidification Is an Early Trigger for Changes in Arabidopsis Root Growth and Determines Fungal Phytostimulation. Front Plant Sci, 2017. 8: p. 822 [PMID:28567051] Jiang F, et al. Identification and characterization of suppressor mutants of stop1. BMC Plant Biol., 2017. 17(1): p. 128 [PMID:28738784] Daspute AA, et al. Transcriptional Regulation of Aluminum-Tolerance Genes in Higher Plants: Clarifying the Underlying Molecular Mechanisms. Front Plant Sci, 2017. 8: p. 1358 [PMID:28848571] Sharma A,Wai CM,Ming R,Yu Q Diurnal Cycling Transcription Factors of Pineapple Revealed by Genome-Wide Annotation and Global Transcriptomic Analysis. Genome Biol Evol, 2017. 9(9): p. 2170-2190 [PMID:28922793] Zhang Y, et al. The Cell Cycle Checkpoint Regulator ATR Is Required for Internal Aluminum Toxicity-Mediated Root Growth Inhibition in Arabidopsis. Front Plant Sci, 2018. 9: p. 118 [PMID:29491872]