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.013G019200.1

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: 508aa MW: 54768.3 Da PI: 9.0392

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.013G019200.1	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	76	98	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Potri.013G019200.1 76 FVCEICNKGFQRDQNLQLHRRGH 98 89*******************88 PP
2	zf-C2H2	13.9	0.00016	152	174	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H +t+ Potri.013G019200.1 152 WKCDKCSKKYAVQSDWKAHVKTC 174 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.99E-7	75	98	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.7E-5	75	98	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.949	76	98	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.017	76	98	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	8.1E-5	76	98	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	78	98	IPR007087	Zinc finger, C2H2
SMART	SM00355	220	117	147	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.2E-4	140	173	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	3.99E-7	147	172	No hit	No description
SMART	SM00355	90	152	172	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: 508 aa Download sequence Send to blast
MSNTTGDGTG SFSSGGTGGD EVHLNSSAAA AAANSNGSTI TQQPPLKRKR NLPGNPDPSA 60 EVIALSPNTL MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLKQRTTA EIRKRVYVCP 120 EPSCVHHNPA RALGDLTGIK KHFCRKHGEK KWKCDKCSKK YAVQSDWKAH VKTCGTKEYK 180 CDCGTIFSRR DSFITHRAFC DALAEENTKA NQGLMPNMEP NLQGQVSNLI PSMAINNNPN 240 QSTMMSSFNH LDAKNPLSLP QELMPTPPKP SSGSMFSNGT TGLFGGSRSM SPSLQLNANS 300 STIFEGNGLH NLSGSASMSA TALLQKAAQM GATASSNNVS SPMMQKSFVT SMAPPTFGTM 360 HTQNDQSHVI GGDDGYANQF FSANGGVENS VLNDMGIFSA VLDQNNSLFK TMEHASSNNE 420 NVFQGANSNP GLSSPTSGAN PSGLSRFSTG DVMTVDFLGL GGSRQRNLHQ QHNHQEMEFT 480 RGISHPRMQG LNHFEQATAL KKPMWDV*

Sequence ? help Back to Top

Protein Sequence Length: 508 aa Download sequence Send to blast

MSNTTGDGTG SFSSGGTGGD EVHLNSSAAA AAANSNGSTI TQQPPLKRKR NLPGNPDPSA  60
EVIALSPNTL MATNRFVCEI CNKGFQRDQN LQLHRRGHNL PWKLKQRTTA EIRKRVYVCP  120
EPSCVHHNPA RALGDLTGIK KHFCRKHGEK KWKCDKCSKK YAVQSDWKAH VKTCGTKEYK  180
CDCGTIFSRR DSFITHRAFC DALAEENTKA NQGLMPNMEP NLQGQVSNLI PSMAINNNPN  240
QSTMMSSFNH LDAKNPLSLP QELMPTPPKP SSGSMFSNGT TGLFGGSRSM SPSLQLNANS  300
STIFEGNGLH NLSGSASMSA TALLQKAAQM GATASSNNVS SPMMQKSFVT SMAPPTFGTM  360
HTQNDQSHVI GGDDGYANQF FSANGGVENS VLNDMGIFSA VLDQNNSLFK TMEHASSNNE  420
NVFQGANSNP GLSSPTSGAN PSGLSRFSTG DVMTVDFLGL GGSRQRNLHQ QHNHQEMEFT  480
RGISHPRMQG LNHFEQATAL KKPMWDV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-33	148	209	3	64	Zinc finger protein JACKDAW
5b3h_F	2e-33	148	209	3	64	Zinc finger protein JACKDAW
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Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pth.8362	0.0	bud\| leaf

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.013G019200.1

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	EF146825	0.0	EF146825.1 Populus trichocarpa clone WS01214_I21 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024439761.1	0.0	protein indeterminate-domain 2
Swissprot	Q9SCQ6	1e-119	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A2I4KKG8	0.0	A0A2I4KKG8_POPTR; C2H2 family protein
STRING	POPTR_0013s01990.1	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	1e-108	indeterminate(ID)-domain 2

Link Out ? help Back to Top
Phytozome	Potri.013G019200.1

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]