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

mrna24910.1-v1.0-hybrid

Organism

Fragaria vesca

Taxonomic ID

57918

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Rosoideae; Potentilleae; Fragariinae; Fragaria

Family

C2H2

Protein Properties

Length: 559aa MW: 60591.3 Da PI: 8.9378

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
mrna24910.1-v1.0-hybrid	genome	GDR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	15.4	5.2e-05	153	175	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H++t+ mrna24910.1-v1.0-hybrid 153 WKCDKCSKKYAVQSDWKAHQKTC 175 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	6.6E-5	141	174	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.59E-5	149	190	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding

Sequence ? help Back to Top
Protein Sequence Length: 559 aa Download sequence Send to blast
MSNITGDIEE GSFSSGNTAG EEVHQEKQLQ NHLHGTNSGG GSGGGKSNSN GSVTTQQQQQ 60 QPIKKKRNLP GTPGKLLTLF PNTHEVIRDQ NLQLHRRGHN LPWKLRQRTS TEVRKRVYIC 120 PEPTCVHHNP ARALGDLTGI KKHFSRKHGE KKWKCDKCSK KYAVQSDWKA HQKTCGTREY 180 KCDCGTIFSR RDSFITHRAF CDALAEENNK VNHGLIMNNN MGTHNQMPDH LISSMPMNTN 240 TSMGIGAGAI SEYNNYDPKN PLKSLPDELV PMPFKSIMNT NLPAGGGMFS TSSGSLFGGS 300 RSVNNNSSTS SSLQLSSNNS SSAGFNYLQD SKNGCGGSPN VTGSAQMSAT ALLQKAAQMG 360 ATASNTTINS PMMQKSFVSS MAGPENHHHL SNNSINVTRP PYDHHPQFQQ VQQQQLPDHH 420 QMAGMHGFTN QLFGEANSTS AASSAAMSDH MAGMFSQVVF NMGSGGSHEQ NQALLRNLEQ 480 QRFGGSGGEG AGDMTTLDLL GLGGGGGARP QPQNLHEQHQ QRLDLEAMSQ QQPRMPMMNP 540 FQQRSHGDSP VESNPFGM*

Sequence ? help Back to Top

Protein Sequence Length: 559 aa Download sequence Send to blast

MSNITGDIEE GSFSSGNTAG EEVHQEKQLQ NHLHGTNSGG GSGGGKSNSN GSVTTQQQQQ  60
QPIKKKRNLP GTPGKLLTLF PNTHEVIRDQ NLQLHRRGHN LPWKLRQRTS TEVRKRVYIC  120
PEPTCVHHNP ARALGDLTGI KKHFSRKHGE KKWKCDKCSK KYAVQSDWKA HQKTCGTREY  180
KCDCGTIFSR RDSFITHRAF CDALAEENNK VNHGLIMNNN MGTHNQMPDH LISSMPMNTN  240
TSMGIGAGAI SEYNNYDPKN PLKSLPDELV PMPFKSIMNT NLPAGGGMFS TSSGSLFGGS  300
RSVNNNSSTS SSLQLSSNNS SSAGFNYLQD SKNGCGGSPN VTGSAQMSAT ALLQKAAQMG  360
ATASNTTINS PMMQKSFVSS MAGPENHHHL SNNSINVTRP PYDHHPQFQQ VQQQQLPDHH  420
QMAGMHGFTN QLFGEANSTS AASSAAMSDH MAGMFSQVVF NMGSGGSHEQ NQALLRNLEQ  480
QRFGGSGGEG AGDMTTLDLL GLGGGGGARP QPQNLHEQHQ QRLDLEAMSQ QQPRMPMMNP  540
FQQRSHGDSP VESNPFGM*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-34	149	220	3	72	Zinc finger protein JACKDAW
5b3h_F	1e-34	149	220	3	72	Zinc finger protein JACKDAW
Search in ModeBase

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	mrna24910.1-v1.0-hybrid

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_011470993.1	0.0	PREDICTED: protein indeterminate-domain 2-like
Swissprot	Q9SCQ6	1e-88	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A251N5H5	0.0	A0A251N5H5_PRUPE; Uncharacterized protein
STRING	XP_008369087.1	0.0	(Malus domestica)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF2192	30	85

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03840.2	1e-74	C2H2 family protein

Link Out ? help Back to Top
Phytozome	mrna24910.1-v1.0-hybrid

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]