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

Gorai.006G131700.2

Common Name

B456_006G131700, LOC105799438

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

C2H2

Protein Properties

Length: 506aa MW: 55592.2 Da PI: 6.3022

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.006G131700.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	21.1	8.4e-07	263	284	2	23
EETTTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCpdCgksFsrksnLkrHirtH 23 C++Cgk F+r nL+ H+r H Gorai.006G131700.2 263 FCTICGKGFKRDANLRMHMRGH 284 6*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.85E-5	261	285	No hit	No description
PROSITE profile	PS50157	11.946	262	289	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0026	262	284	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.1E-5	263	313	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	264	284	IPR007087	Zinc finger, C2H2
SMART	SM00355	53	311	344	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	26	349	371	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: 506 aa Download sequence Send to blast
MDLKERVCGE LQKEVPKGAS FTNFNTQHQQ KWEDPSSTSD YSTRIEPPFQ AFNQTSQTQS 60 LLLCNNQIKV PMQDGSVNDL LQASKIQDWD PSAMLNNLSF LGQKIHQLQD LVYLIIGRKG 120 QVLGGPDELL VQQQQLVTAD LTSIIVQLIS TAGSLLPSVK QTLSAATTSL GQCGEFGGVV 180 FPSSAQGLND GVQPQNAGGS KVSEPPNSVD ITSNNGNEQS NHIIEEHELK DEEDAEEGEN 240 LLPGTYEILQ LEKEEILAPH THFCTICGKG FKRDANLRMH MRGHGEEYKT PGALAKPTKE 300 SSSEPTIIKR YSCPYAGCKR NKDHKKFQPL KTILCVKNHY KRTHCDKSYI CSRCNTKKFS 360 VIADLKTHEK HCGKDKWLCS CGTTFSRKDK LFGHITLFQG HTPAIPSDEI KAAPAGTSDG 420 ATNKVGSVNF NLSSYVSSES EVQSSSMDIK GGIDDAVGYF SPLSFDTCNF GGFHEFPRPP 480 FDDSESSFAF LLSRSCNYSQ KSGEE*

Sequence ? help Back to Top

Protein Sequence Length: 506 aa Download sequence Send to blast

MDLKERVCGE LQKEVPKGAS FTNFNTQHQQ KWEDPSSTSD YSTRIEPPFQ AFNQTSQTQS  60
LLLCNNQIKV PMQDGSVNDL LQASKIQDWD PSAMLNNLSF LGQKIHQLQD LVYLIIGRKG  120
QVLGGPDELL VQQQQLVTAD LTSIIVQLIS TAGSLLPSVK QTLSAATTSL GQCGEFGGVV  180
FPSSAQGLND GVQPQNAGGS KVSEPPNSVD ITSNNGNEQS NHIIEEHELK DEEDAEEGEN  240
LLPGTYEILQ LEKEEILAPH THFCTICGKG FKRDANLRMH MRGHGEEYKT PGALAKPTKE  300
SSSEPTIIKR YSCPYAGCKR NKDHKKFQPL KTILCVKNHY KRTHCDKSYI CSRCNTKKFS  360
VIADLKTHEK HCGKDKWLCS CGTTFSRKDK LFGHITLFQG HTPAIPSDEI KAAPAGTSDG  420
ATNKVGSVNF NLSSYVSSES EVQSSSMDIK GGIDDAVGYF SPLSFDTCNF GGFHEFPRPP  480
FDDSESSFAF LLSRSCNYSQ KSGEE*

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
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

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012485445.1	0.0	PREDICTED: protein SENSITIVE TO PROTON RHIZOTOXICITY 1-like isoform X1
Refseq	XP_012485446.1	0.0	PREDICTED: protein SENSITIVE TO PROTON RHIZOTOXICITY 1-like isoform X1
Refseq	XP_012485447.1	0.0	PREDICTED: protein SENSITIVE TO PROTON RHIZOTOXICITY 1-like isoform X1
Refseq	XP_012485448.1	0.0	PREDICTED: protein SENSITIVE TO PROTON RHIZOTOXICITY 1-like isoform X1
Swissprot	Q9C8N5	0.0	STOP1_ARATH; Protein SENSITIVE TO PROTON RHIZOTOXICITY 1
TrEMBL	A0A0D2RVJ5	0.0	A0A0D2RVJ5_GOSRA; Uncharacterized protein
STRING	Gorai.006G131700.1	0.0	(Gossypium raimondii)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G34370.2	0.0	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Gorai.006G131700.2
Entrez Gene	105799438

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] 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]