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

Itr_sc000984.1_g00007.1

Organism

Ipomoea trifida

Taxonomic ID

35884

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea

Family

C2H2

Protein Properties

Length: 507aa MW: 55948.4 Da PI: 6.1967

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc000984.1_g00007.1	genome	Kazusa	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	259	280	2	23
EETTTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCpdCgksFsrksnLkrHirtH 23 C++Cgk F+r nL+ H+r H Itr_sc000984.1_g00007.1 259 FCTICGKGFKRDANLRMHMRGH 280 6*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.35E-5	256	283	No hit	No description
PROSITE profile	PS50157	12.03	258	285	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0026	258	280	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	5.4E-6	259	309	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	260	280	IPR007087	Zinc finger, C2H2
SMART	SM00355	62	307	340	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	25	345	367	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: 507 aa Download sequence Send to blast
MDPDNGLDSD PWTKSSLSCN DFLENVPPDD QPFNVFTLQQ QKWESSFLNQ LNQPAQNQSS 60 VSTINNIQIR VPDQQDTQAC DSNKIQEWDP KTMLNNLSFL EKKIHELQDL VHVIVGRRGQ 120 VGFQANELLV QQQQLITADL TSIIVQLIST AGSLLPTVKH TLSYAGQAAQ LVQSGGVATP 180 SGAGFNSSAL PQSVNVSKVE DHSIHIDPVG DSGMDQNCTV EEHELKDEDE AEEEENLPPG 240 SYEILQLEKE EILAPHTHFC TICGKGFKRD ANLRMHMRGH GDEYKTPAAL AKPHKEVSSV 300 PALIKRYSCP YVGCKRNREH KKFQPLKTIL CVKNHYKRTH CEKSYTCSRC NIKKFSVIAD 360 LKTHEKHCGK DKWLCSCGTT FSRKDKLFGH IALFQGHTPA IPLDDHKGSS SGLSDQGQNT 420 AGQIDPKLNN AYSGSGSGSP QNAIDVKGSV NDPGNYFSPM NYDTGDLGGF QDFPRVPFED 480 SNSSFSFLLS GSCDYPQKAG KYGSSSE

Sequence ? help Back to Top

Protein Sequence Length: 507 aa Download sequence Send to blast

MDPDNGLDSD PWTKSSLSCN DFLENVPPDD QPFNVFTLQQ QKWESSFLNQ LNQPAQNQSS  60
VSTINNIQIR VPDQQDTQAC DSNKIQEWDP KTMLNNLSFL EKKIHELQDL VHVIVGRRGQ  120
VGFQANELLV QQQQLITADL TSIIVQLIST AGSLLPTVKH TLSYAGQAAQ LVQSGGVATP  180
SGAGFNSSAL PQSVNVSKVE DHSIHIDPVG DSGMDQNCTV EEHELKDEDE AEEEENLPPG  240
SYEILQLEKE EILAPHTHFC TICGKGFKRD ANLRMHMRGH GDEYKTPAAL AKPHKEVSSV  300
PALIKRYSCP YVGCKRNREH KKFQPLKTIL CVKNHYKRTH CEKSYTCSRC NIKKFSVIAD  360
LKTHEKHCGK DKWLCSCGTT FSRKDKLFGH IALFQGHTPA IPLDDHKGSS SGLSDQGQNT  420
AGQIDPKLNN AYSGSGSGSP QNAIDVKGSV NDPGNYFSPM NYDTGDLGGF QDFPRVPFED  480
SNSSFSFLLS GSCDYPQKAG KYGSSSE

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019180664.1	0.0	PREDICTED: protein SENSITIVE TO PROTON RHIZOTOXICITY 1
Refseq	XP_019180665.1	0.0	PREDICTED: protein SENSITIVE TO PROTON RHIZOTOXICITY 1
Swissprot	Q9C8N5	0.0	STOP1_ARATH; Protein SENSITIVE TO PROTON RHIZOTOXICITY 1
TrEMBL	A0A1Q3CHW4	0.0	A0A1Q3CHW4_CEPFO; Zf-C2H2 domain-containing protein
STRING	XP_009620662.1	0.0	(Nicotiana tomentosiformis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA4754	24	41

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G34370.2	1e-170	C2H2 family protein

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]