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

Potri.019G085400.1

Common Name

POPTR_0019s11520g

Organism

Populus trichocarpa

Taxonomic ID

3694

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

C2H2

Protein Properties

Length: 507aa MW: 56172.6 Da PI: 6.5033

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.019G085400.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	21.1	8.4e-07	273	294	2	23
EETTTTEEESSHHHHHHHHHHT CS zf-C2H2 2 kCpdCgksFsrksnLkrHirtH 23 C++Cgk F+r nL+ H+r H Potri.019G085400.1 273 FCTICGKGFKRDANLRMHMRGH 294 6*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	2.25E-5	270	297	No hit	No description
SMART	SM00355	0.0026	272	294	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	12.03	272	299	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	7.1E-6	273	323	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	274	294	IPR007087	Zinc finger, C2H2
SMART	SM00355	54	321	354	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	25	359	381	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: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
MDLTDRLSVD VWADTSSSGN ELPRRMSSEN PSFTDFNLQQ QQKQQQKWED NIISPPFGGF 60 NQASESGYLL LSNRNNQTKI LDHQEDGKSI ETLETNKVQD WDPRAMLSNL SFLEQKIHHL 120 QDLVHLFVGR KGQGLGGQDQ LVTQQQQFLI TADLTSIIVQ LISTAGSLLP SVKHTLSTDT 180 PNGHLGQLGG LLFPPVAGMN CSPKPQHGSG RRVSDQSDKM DGTGNCGTDQ NHFIEEHETK 240 EEEDADEGDY LPPGSYDILQ LEKEEILAPH THFCTICGKG FKRDANLRMH MRGHGDEYKT 300 PAALAKPNKE SSSDPVVIKR YSCPFSGCKR NKDHKKFQPL KSILCVKNHY KRTHCDKSYT 360 CSRCNTKKFS VTADLKTHEK HCGKDRWLCS CGTTFSRKDK LFGHIALFQG HTPAIPLEET 420 KGPAVSSDKV DGNEASNKVG NINFSFGSHA ATGSGAKNVM EVNDDADDPS SCFSPLNFDT 480 CNFGGFHEFP RPPFDDSESS FSFLLS*

Sequence ? help Back to Top

Protein Sequence Length: 507 aa Download sequence Send to blast

MDLTDRLSVD VWADTSSSGN ELPRRMSSEN PSFTDFNLQQ QQKQQQKWED NIISPPFGGF  60
NQASESGYLL LSNRNNQTKI LDHQEDGKSI ETLETNKVQD WDPRAMLSNL SFLEQKIHHL  120
QDLVHLFVGR KGQGLGGQDQ LVTQQQQFLI TADLTSIIVQ LISTAGSLLP SVKHTLSTDT  180
PNGHLGQLGG LLFPPVAGMN CSPKPQHGSG RRVSDQSDKM DGTGNCGTDQ NHFIEEHETK  240
EEEDADEGDY LPPGSYDILQ LEKEEILAPH THFCTICGKG FKRDANLRMH MRGHGDEYKT  300
PAALAKPNKE SSSDPVVIKR YSCPFSGCKR NKDHKKFQPL KSILCVKNHY KRTHCDKSYT  360
CSRCNTKKFS VTADLKTHEK HCGKDRWLCS CGTTFSRKDK LFGHIALFQG HTPAIPLEET  420
KGPAVSSDKV DGNEASNKVG NINFSFGSHA ATGSGAKNVM EVNDDADDPS SCFSPLNFDT  480
CNFGGFHEFP RPPFDDSESS FSFLLS*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pth.12010	0.0	bud

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Potri.019G085400.1

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	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB811778	0.0	AB811778.1 Populus nigra PnSTOP1 mRNA for STOP1-like protein, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002325563.1	0.0	protein SENSITIVE TO PROTON RHIZOTOXICITY 1
Swissprot	Q9C8N5	0.0	STOP1_ARATH; Protein SENSITIVE TO PROTON RHIZOTOXICITY 1
TrEMBL	B9IQK8	0.0	B9IQK8_POPTR; Uncharacterized protein
STRING	POPTR_0019s11520.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF5340	32	54
Representative plant	OGRP830	16	63

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G34370.2	1e-167	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Potri.019G085400.1
Entrez Gene	7475811

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]