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

PGSC0003DMP400045254

Common Name

LOC102596245

Organism

Solanum tuberosum

Taxonomic ID

4113

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum

Family

C2H2

Protein Properties

Length: 434aa MW: 48344.1 Da PI: 7.0138

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400045254	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	21.3	7e-07	183	204	2	23
EETTTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCpdCgksFsrksnLkrHirtH 23 C++Cgk F+r nL+ H+r H PGSC0003DMP400045254 183 FCTICGKGFKRDANLRMHMRGH 204 6*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.81E-5	180	207	No hit	No description
PROSITE profile	PS50157	12.03	182	209	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0026	182	204	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.9E-5	183	233	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	184	204	IPR007087	Zinc finger, C2H2
SMART	SM00355	220	231	264	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	33	269	291	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 434 aa Download sequence Send to blast
MEQQANQSSD NHDVTGIKEW DPRAMLRSMS FLEQKIHQLR ELVRIIVDHR SLAGIQGSDL 60 SIQQQQLITT DLTSIIIQLI STAGSLLPTV KHQANPPTKQ LEQFGGASVP SETGTNVGAL 120 TCNVNATKAK DQTNHVDQMG DCSVDEHEAK DEDEPHEEEN LPPGSYEILQ LEKEEILAPH 180 THFCTICGKG FKRDANLRMH MRGHGDEYKT SAALAKPHKD SSSGTTLIKR YSCPCVGCKR 240 NKEHKKFQPL KSILCVKNHY RRTHCEKRYA CSRCNLKKFS VIADLRTHEK HCGKDKWLCS 300 CGTTFSRKDK LFGHISLFQG HTPAIPLDET KGFAPTSDQG QTNDATTKAG NIDFEVNVQN 360 DSGFQNTMNV KGSTDNPDSY FSSLNFETSK LNELQEFPQP PFEDQENSFS FLLSGSCNYP 420 RKAGKNIGST TLE*

Sequence ? help Back to Top

Protein Sequence Length: 434 aa Download sequence Send to blast

MEQQANQSSD NHDVTGIKEW DPRAMLRSMS FLEQKIHQLR ELVRIIVDHR SLAGIQGSDL  60
SIQQQQLITT DLTSIIIQLI STAGSLLPTV KHQANPPTKQ LEQFGGASVP SETGTNVGAL  120
TCNVNATKAK DQTNHVDQMG DCSVDEHEAK DEDEPHEEEN LPPGSYEILQ LEKEEILAPH  180
THFCTICGKG FKRDANLRMH MRGHGDEYKT SAALAKPHKD SSSGTTLIKR YSCPCVGCKR  240
NKEHKKFQPL KSILCVKNHY RRTHCEKRYA CSRCNLKKFS VIADLRTHEK HCGKDKWLCS  300
CGTTFSRKDK LFGHISLFQG HTPAIPLDET KGFAPTSDQG QTNDATTKAG NIDFEVNVQN  360
DSGFQNTMNV KGSTDNPDSY FSSLNFETSK LNELQEFPQP PFEDQENSFS FLLSGSCNYP  420
RKAGKNIGST TLE*

Functional Description ? help Back to Top
Source	Description
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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PGSC0003DMP400045254

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	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	HG975445	0.0	HG975445.1 Solanum pennellii chromosome ch06, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006353630.1	0.0	PREDICTED: protein SENSITIVE TO PROTON RHIZOTOXICITY 1-like
Refseq	XP_006353631.1	0.0	PREDICTED: protein SENSITIVE TO PROTON RHIZOTOXICITY 1-like
Refseq	XP_015166898.1	0.0	PREDICTED: protein SENSITIVE TO PROTON RHIZOTOXICITY 1-like
Swissprot	Q9C8N5	1e-168	STOP1_ARATH; Protein SENSITIVE TO PROTON RHIZOTOXICITY 1
TrEMBL	M1CGN8	0.0	M1CGN8_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400067092	0.0	(Solanum tuberosum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G34370.2	1e-143	C2H2 family protein

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400045254
Entrez Gene	102596245

Publications ? help Back to Top
Xu X, et al. Genome sequence and analysis of the tuber crop potato. Nature, 2011. 475(7355): p. 189-95 [PMID:21743474] 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] 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] 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]