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

mrna15119.1-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: 630aa MW: 67285.2 Da PI: 9.3251

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
mrna15119.1-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	16.8	1.9e-05	175	197	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H mrna15119.1-v1.0-hybrid 175 FVCEICNKGFQRDQNLQLHRRGH 197 89*******************88 PP
2	zf-C2H2	15.4	5.4e-05	251	273	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC+ C+k + +s+ k H++t+ mrna15119.1-v1.0-hybrid 251 WKCERCSKKYAVQSDWKAHMKTC 273 58*******************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	7.38E-7	174	197	No hit	No description
Gene3D	G3DSA:3.30.160.60	2.2E-5	174	197	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.017	175	197	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.949	175	197	IPR007087	Zinc finger, C2H2
Pfam	PF12874	0.0027	175	197	No hit	No description
PROSITE pattern	PS00028	0	177	197	IPR007087	Zinc finger, C2H2
SMART	SM00355	260	216	246	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	5.7E-5	239	272	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	7.38E-7	246	272	No hit	No description
SMART	SM00355	77	251	271	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: 630 aa Download sequence Send to blast
MCQSWGYTEE ELFGATAVSC VRAAFSGEAS SSFLWRILAR WNSGSEWRGE VERKKAERGG 60 VGFRRVWRSR NLGLEMRESS GGGTWLQGGG ESVRGERCGW RWFRPTRTWS SDRLKKPTKM 120 DDLDNSSSLV DSTASAEASF SEPPAKKKRN LPGMPDPDAE VIALSPKTLM ATNRFVCEIC 180 NKGFQRDQNL QLHRRGHNLP WKLRQRTTTE VKKRVYVCPE TSCVHHNPAR ALGDLTGIKK 240 HFCRKHGEKK WKCERCSKKY AVQSDWKAHM KTCGTREYKC DCGTLFARRD SFITHRAFCD 300 ALAEESAKAQ TLGSSQLGTP NPNPNAGKAV LVASPPPPPL TPSNIVVSPA LSIQSSEFPA 360 ENPVRVSPPP PATTCLTSAT TAIGTTATAT TTSTGNCSNT STSVFASIFA PSSNASQTSA 420 AANSSYSSAI PSVSAMEPTS LSLSTSLYLS NNGSSLFPTT NHQDQRQYVA SPQAPVMSAT 480 ALLQKAAQMG AATTSESFLR GFGLDTSSSP PQAQDSTASL QWSNNSHIQQ HKRDGSGGAA 540 VTVAAGLTDL MMGPPLPFGS HHQPMTRDLL GLGIGDNGGG GNASSGGLSA LLNSFGGRGG 600 YTTYARGEES SWEGAPESKP NTSNGPALL*

Sequence ? help Back to Top

Protein Sequence Length: 630 aa Download sequence Send to blast

MCQSWGYTEE ELFGATAVSC VRAAFSGEAS SSFLWRILAR WNSGSEWRGE VERKKAERGG  60
VGFRRVWRSR NLGLEMRESS GGGTWLQGGG ESVRGERCGW RWFRPTRTWS SDRLKKPTKM  120
DDLDNSSSLV DSTASAEASF SEPPAKKKRN LPGMPDPDAE VIALSPKTLM ATNRFVCEIC  180
NKGFQRDQNL QLHRRGHNLP WKLRQRTTTE VKKRVYVCPE TSCVHHNPAR ALGDLTGIKK  240
HFCRKHGEKK WKCERCSKKY AVQSDWKAHM KTCGTREYKC DCGTLFARRD SFITHRAFCD  300
ALAEESAKAQ TLGSSQLGTP NPNPNAGKAV LVASPPPPPL TPSNIVVSPA LSIQSSEFPA  360
ENPVRVSPPP PATTCLTSAT TAIGTTATAT TTSTGNCSNT STSVFASIFA PSSNASQTSA  420
AANSSYSSAI PSVSAMEPTS LSLSTSLYLS NNGSSLFPTT NHQDQRQYVA SPQAPVMSAT  480
ALLQKAAQMG AATTSESFLR GFGLDTSSSP PQAQDSTASL QWSNNSHIQQ HKRDGSGGAA  540
VTVAAGLTDL MMGPPLPFGS HHQPMTRDLL GLGIGDNGGG GNASSGGLSA LLNSFGGRGG  600
YTTYARGEES SWEGAPESKP NTSNGPALL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-34	247	312	3	68	Zinc finger protein JACKDAW
5b3h_F	1e-34	247	312	3	68	Zinc finger protein JACKDAW
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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	mrna15119.1-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_004291889.1	0.0	PREDICTED: protein indeterminate-domain 2-like
Swissprot	Q9SCQ6	1e-137	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A2P6PYJ3	0.0	A0A2P6PYJ3_ROSCH; Putative transcription factor C2H2 family
STRING	XP_004291889.1	0.0	(Fragaria vesca)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF2218	32	86

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G66730.1	1e-112	C2H2-like zinc finger protein

Link Out ? help Back to Top
Phytozome	mrna15119.1-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]