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.T133700.1

Common Name

POPTR_0001s12770g

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: 398aa MW: 43228.6 Da PI: 8.3838

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.T133700.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	15.6	4.5e-05	6	28	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y C+ C+k F r nL+ H r H Potri.T133700.1 6 YICEVCHKGFQRDQNLQLHRRGH 28 89*******************88 PP
2	zf-C2H2	13.4	0.00022	82	104	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H + + Potri.T133700.1 82 WKCDKCSKRYAVQSDWKAHTKIC 104 58*****************9987 PP
3	zf-C2H2	11.3	0.001	112	130	5	23
TTTEEESSHHHHHHHHHHT CS zf-C2H2 5 dCgksFsrksnLkrHirtH 23 dCg+ Fsrk+++++H + Potri.T133700.1 112 DCGTIFSRKDSFVTHRAFC 130 8**************8765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.5E-6	5	28	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.9E-5	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.038	6	28	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.741	6	28	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	190	47	77	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.8E-4	70	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.5E-6	77	102	No hit	No description
SMART	SM00355	130	82	102	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: 398 aa Download sequence Send to blast
MATNRYICEV CHKGFQRDQN LQLHRRGHNL PWKLKQRQNT QAKKRVYVCP EPTCVHHDPS 60 RALGDLTGIK KHFCRKHGEK KWKCDKCSKR YAVQSDWKAH TKICGTREYR CDCGTIFSRK 120 DSFVTHRAFC DALAEENCKV NQNLAATGGM LQAQEPFSSS MPSSDACTNK SAAMNLTISA 180 ENSDSALRPL SLNSSGMVMS SNLNPRTSLP LACFSSLDGS NTSPSAIGSS YTSATALLQK 240 AAVMGAKISD NSIAPILFKG FNGYSTTSMN SSGLVPEGSS IDGSNIGPHA ANMNGIYLGD 300 TEMFDKNLDP GYPRNSVCQT GFFESPLLMD IENGNAAHAL AGEAYMGGSE KMTVDFLGVE 360 PPTGHSAVGR KRNYEGNIMG LGYSNAQQNL HNLHSDW*

Sequence ? help Back to Top

Protein Sequence Length: 398 aa Download sequence Send to blast

MATNRYICEV CHKGFQRDQN LQLHRRGHNL PWKLKQRQNT QAKKRVYVCP EPTCVHHDPS  60
RALGDLTGIK KHFCRKHGEK KWKCDKCSKR YAVQSDWKAH TKICGTREYR CDCGTIFSRK  120
DSFVTHRAFC DALAEENCKV NQNLAATGGM LQAQEPFSSS MPSSDACTNK SAAMNLTISA  180
ENSDSALRPL SLNSSGMVMS SNLNPRTSLP LACFSSLDGS NTSPSAIGSS YTSATALLQK  240
AAVMGAKISD NSIAPILFKG FNGYSTTSMN SSGLVPEGSS IDGSNIGPHA ANMNGIYLGD  300
TEMFDKNLDP GYPRNSVCQT GFFESPLLMD IENGNAAHAL AGEAYMGGSE KMTVDFLGVE  360
PPTGHSAVGR KRNYEGNIMG LGYSNAQQNL HNLHSDW*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	7e-33	78	136	3	61	Zinc finger protein JACKDAW
5b3h_F	7e-33	78	136	3	61	Zinc finger protein JACKDAW
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Observed in vegetative tissues. Mainly expressed in hypocotyls, petioles, shoot apices, root tips, and trichomes, and, at low levels, in leaves, stems and flowers. {ECO:0000269\|PubMed:25035403}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that acts as a positive regulator of gibberellin (GA) action, homeostasis and signaling. GA converts the GAF1 complex from transcriptional activator to repressor via the degradation of DELLA proteins. {ECO:0000269\|PubMed:25035403}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Potri.T133700.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024448903.1	0.0	protein indeterminate-domain 2-like
Swissprot	Q9SCQ6	2e-96	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A2K1R5L6	0.0	A0A2K1R5L6_POPTR; Uncharacterized protein
TrEMBL	A0A3N7FEG2	0.0	A0A3N7FEG2_POPTR; Uncharacterized protein
STRING	POPTR_0001s12770.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF17040	7	8
Representative plant	OGRP95	16	242

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G50700.1	8e-99	indeterminate(ID)-domain 2

Link Out ? help Back to Top
Phytozome	Potri.T133700.1
Entrez Gene	18094488

Publications ? help Back to Top
Fukazawa J, et al. DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis. Plant Cell, 2014. 26(7): p. 2920-38 [PMID:25035403] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755] Khare D, et al. Root avoidance of toxic metals requires the GeBP-LIKE 4 transcription factor in Arabidopsis thaliana. New Phytol., 2017. 213(3): p. 1257-1273 [PMID:27768815]