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

Phvul.004G084300.1

Common Name

PHAVU_004G084300g

Organism

Phaseolus vulgaris

Taxonomic ID

3885

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Phaseolus

Family

C2H2

Protein Properties

Length: 513aa MW: 56674.9 Da PI: 6.0291

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Phvul.004G084300.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	21	8.5e-07	267	288	2	23
EETTTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCpdCgksFsrksnLkrHirtH 23 C++Cgk F+r nL+ H+r H Phvul.004G084300.1 267 FCTICGKGFKRDANLRMHMRGH 288 6*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.25E-5	264	291	No hit	No description
PROSITE profile	PS50157	12.03	266	293	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0026	266	288	IPR015880	Zinc finger, C2H2-like
Pfam	PF12874	0.001	267	288	No hit	No description
Gene3D	G3DSA:3.30.160.60	9.8E-6	267	316	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	268	288	IPR007087	Zinc finger, C2H2
SMART	SM00355	47	314	347	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	21	352	374	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:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 513 aa Download sequence Send to blast
MDTNGSLRAN TWARSSSLTS DPLSFPGFGL QNNQPKWDDP SNSDYGIRAE VPFKEFNQPS 60 QTQSPLPCNS NNEIEIPNQE NCHLNESSQT STLQDWDPNV MLNNLSFLEE KIHQLQDLVH 120 LIVHQKGVGQ PNELVTQEQQ LVTTDLTSII IQLISTAGSL LPSVRHNLAN AASLFGQIDQ 180 LRGTTVPSGT GGSSSCIQPQ NNGAKKVSDQ SMQTDLPNNC EMEPNYNMAE QELKDEEDVD 240 DGENLAPGSY EILQLEKEEI LAPHTHFCTI CGKGFKRDAN LRMHMRGHGD EYKTPAALAK 300 PHKDSGSPKL IKRYSCPYPG CKRNKDHKKF QPLKTILCVK NHYKRTHCDK SYTCSRCNTK 360 KFSVMADLKT HEKHCGKDKW LCSCGTTFSR KDKLFGHIAL FQGHTPAIPL DDNKGVAEPP 420 NHDSKENSKV GNTNFTFGSS PSNGNEVENG MDVKGNNSDD PISFFSSLNF DTSFGGFNEF 480 TRPLFDDSEG SFSFVMPGSF KSGGESSADN LL*

Sequence ? help Back to Top

Protein Sequence Length: 513 aa Download sequence Send to blast

MDTNGSLRAN TWARSSSLTS DPLSFPGFGL QNNQPKWDDP SNSDYGIRAE VPFKEFNQPS  60
QTQSPLPCNS NNEIEIPNQE NCHLNESSQT STLQDWDPNV MLNNLSFLEE KIHQLQDLVH  120
LIVHQKGVGQ PNELVTQEQQ LVTTDLTSII IQLISTAGSL LPSVRHNLAN AASLFGQIDQ  180
LRGTTVPSGT GGSSSCIQPQ NNGAKKVSDQ SMQTDLPNNC EMEPNYNMAE QELKDEEDVD  240
DGENLAPGSY EILQLEKEEI LAPHTHFCTI CGKGFKRDAN LRMHMRGHGD EYKTPAALAK  300
PHKDSGSPKL IKRYSCPYPG CKRNKDHKKF QPLKTILCVK NHYKRTHCDK SYTCSRCNTK  360
KFSVMADLKT HEKHCGKDKW LCSCGTTFSR KDKLFGHIAL FQGHTPAIPL DDNKGVAEPP  420
NHDSKENSKV GNTNFTFGSS PSNGNEVENG MDVKGNNSDD PISFFSSLNF DTSFGGFNEF  480
TRPLFDDSEG SFSFVMPGSF KSGGESSADN LL*

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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00196	ampDAP	Transfer from AT1G34370	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Phvul.004G084300.1

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP015044	0.0	AP015044.1 Vigna angularis var. angularis DNA, chromosome 11, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007151889.1	0.0	hypothetical protein PHAVU_004G084300g
Swissprot	Q9C8N5	1e-176	STOP1_ARATH; Protein SENSITIVE TO PROTON RHIZOTOXICITY 1
TrEMBL	V7C3C6	0.0	V7C3C6_PHAVU; Uncharacterized protein
STRING	XP_007151889.1	0.0	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF5340	32	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G34370.2	1e-176	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Phvul.004G084300.1
Entrez Gene	18632424

Publications ? help Back to Top
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]