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.T034600.1

Common Name

POPTR_0002s20950g

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: 491aa MW: 54114 Da PI: 8.7856

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.T034600.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.2	1.4e-05	6	28	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Potri.T034600.1 6 FVCEICNKGFQRDQNLQLHRRGH 28 89*******************88 PP
2	zf-C2H2	15.7	4.4e-05	82	104	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H++t+ Potri.T034600.1 82 WKCDKCSKKYAVQSDWKAHQKTC 104 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	1.6E-5	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	4.35E-8	5	28	No hit	No description
SMART	SM00355	0.017	6	28	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	7.8E-5	6	28	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.949	6	28	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	98	47	77	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	5.6E-5	70	103	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	4.35E-8	77	103	No hit	No description
SMART	SM00355	94	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: 491 aa Download sequence Send to blast
MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLRQRTTT EVRKKVYICP EPTCVHHNPA 60 RALGDLTGIK KHFSRKHGEK KWKCDKCSKK YAVQSDWKAH QKTCGTREYK CDCGTIFSRR 120 DSFITHRAFC DALAEENNKV NQGVMANMGS NLLNQMPELM SSMPLSANTS TSIGIPDFNC 180 FDPKNPLKSL PQELVPIPFK SMNMAGGMFS SSSGTLFGSP RSISSTSSLQ LSSNGSSGLH 240 YLQDNKNGCQ ISATAHMSAT ALLQKAAQMG ATASNSINSP MMQKSFASSM AGPDQLSSIR 300 SSTYGGIQQH NTSYDDLPPQ ASDQTSMAGM INGVGGFNNQ PLQRGPQEMS QIFDTAGTGS 360 SAMNDMAMFA SMFMSNDQNP GFIKNMEQED SGNSGLMHGR NALMERNPTG PSRFAGTPIE 420 GGDMMTRDFM GIGGARPTNF QDQQQQHQPR LEMEAMSQHQ RMQMMNPYHQ QQQPSLREPA 480 IEKPSSIWDV *

Sequence ? help Back to Top

Protein Sequence Length: 491 aa Download sequence Send to blast

MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLRQRTTT EVRKKVYICP EPTCVHHNPA  60
RALGDLTGIK KHFSRKHGEK KWKCDKCSKK YAVQSDWKAH QKTCGTREYK CDCGTIFSRR  120
DSFITHRAFC DALAEENNKV NQGVMANMGS NLLNQMPELM SSMPLSANTS TSIGIPDFNC  180
FDPKNPLKSL PQELVPIPFK SMNMAGGMFS SSSGTLFGSP RSISSTSSLQ LSSNGSSGLH  240
YLQDNKNGCQ ISATAHMSAT ALLQKAAQMG ATASNSINSP MMQKSFASSM AGPDQLSSIR  300
SSTYGGIQQH NTSYDDLPPQ ASDQTSMAGM INGVGGFNNQ PLQRGPQEMS QIFDTAGTGS  360
SAMNDMAMFA SMFMSNDQNP GFIKNMEQED SGNSGLMHGR NALMERNPTG PSRFAGTPIE  420
GGDMMTRDFM GIGGARPTNF QDQQQQHQPR LEMEAMSQHQ RMQMMNPYHQ QQQPSLREPA  480
IEKPSSIWDV *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	5e-34	78	141	3	66	Zinc finger protein JACKDAW
5b3h_F	5e-34	78	141	3	66	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	32	44	KLRQRTTTEVRKK

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.T034600.1

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_024447996.1	0.0	protein indeterminate-domain 2
Swissprot	Q9SCQ6	7e-98	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A3N7FC77	0.0	A0A3N7FC77_POPTR; Uncharacterized protein
STRING	POPTR_0002s20950.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF2192	30	85
Representative plant	OGRP95	16	242

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G50700.1	4e-86	indeterminate(ID)-domain 2

Link Out ? help Back to Top
Phytozome	Potri.T034600.1
Entrez Gene	18096462

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]