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

Spipo24G0004400

Organism

Spirodela polyrhiza

Taxonomic ID

29656

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela

Family

C2H2

Protein Properties

Length: 454aa MW: 47710.6 Da PI: 8.6318

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Spipo24G0004400	genome	MIPS/IBIS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.4	1.3e-05	56	78	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Spipo24G0004400 56 FVCEICNKGFQRDQNLQLHRRGH 78 89*******************88 PP
2	zf-C2H2	14.8	8e-05	132	154	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k + +s+ k H +t+ Spipo24G0004400 132 FECEKCSKKYAVQSDWKAHAKTC 154 89******************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	1.5E-5	55	78	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.49E-7	55	78	No hit	No description
Pfam	PF12171	7.1E-5	56	78	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.017	56	78	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	10.949	56	78	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	58	78	IPR007087	Zinc finger, C2H2
SMART	SM00355	210	97	127	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.5E-4	120	153	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.49E-7	127	152	No hit	No description
SMART	SM00355	120	132	152	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009937	Biological Process	regulation of gibberellic acid mediated signaling pathway
GO:0010029	Biological Process	regulation of seed germination
GO:0010431	Biological Process	seed maturation
GO:0005634	Cellular Component	nucleus
GO:0044212	Molecular Function	transcription regulatory region DNA binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 454 aa Download sequence Send to blast
MASNSVSEEA SVSAGDQRVD PLPKSAKRKR NLPGMPDPDA EVIALSPKTL MATNRFVCEI 60 CNKGFQRDQN LQLHRRGHNL PWKLRQRSGK EVRKRVYVCP EPSCVHHDPS RALGDLTGIK 120 KHFCRKHGEK KFECEKCSKK YAVQSDWKAH AKTCGTREYR CDCGTLFSRK DSFITHRAFC 180 EALAEENAKA LTTAAEEPVA ASAVVRDEEG VAAAVASSSS SPSSAVVNPA PPPQMPTAAE 240 RPKQEAEEPE AAAPILPRAP PPPAQHRAGG NSDGDNATTA GGDGGAATSI FASLFSSAAA 300 SSSRSPTLPD FTPLEPTSLS LSRSTSTFFS PSSSLDRRPF ATAPPSPHLS ATALLQKAAQ 360 MGPTASGASL LRSFTLHEQD SAAAAALPSL LMPPPSFFAT KPATLDLLGL GGGPPAGGLS 420 ALITSFGLAA SPAKAWEGTD HHHHRSSGSS PFL*

Sequence ? help Back to Top

Protein Sequence Length: 454 aa Download sequence Send to blast

MASNSVSEEA SVSAGDQRVD PLPKSAKRKR NLPGMPDPDA EVIALSPKTL MATNRFVCEI  60
CNKGFQRDQN LQLHRRGHNL PWKLRQRSGK EVRKRVYVCP EPSCVHHDPS RALGDLTGIK  120
KHFCRKHGEK KFECEKCSKK YAVQSDWKAH AKTCGTREYR CDCGTLFSRK DSFITHRAFC  180
EALAEENAKA LTTAAEEPVA ASAVVRDEEG VAAAVASSSS SPSSAVVNPA PPPQMPTAAE  240
RPKQEAEEPE AAAPILPRAP PPPAQHRAGG NSDGDNATTA GGDGGAATSI FASLFSSAAA  300
SSSRSPTLPD FTPLEPTSLS LSRSTSTFFS PSSSLDRRPF ATAPPSPHLS ATALLQKAAQ  360
MGPTASGASL LRSFTLHEQD SAAAAALPSL LMPPPSFFAT KPATLDLLGL GGGPPAGGLS  420
ALITSFGLAA SPAKAWEGTD HHHHRSSGSS PFL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	1e-34	128	189	3	64	Zinc finger protein JACKDAW
5b3h_F	1e-34	128	189	3	64	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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00403	DAP	Transfer from AT3G50700	Download

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020690375.1	1e-151	zinc finger protein GAI-ASSOCIATED FACTOR 1 isoform X1
Swissprot	Q9SCQ6	1e-136	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A2I0WLT8	1e-149	A0A2I0WLT8_9ASPA; Zinc finger protein MAGPIE
STRING	VIT_04s0023g01430.t01	1e-146	(Vitis vinifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP202	38	320

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G50700.1	1e-103	indeterminate(ID)-domain 2

Link Out ? help Back to Top
Phytozome	Spipo24G0004400

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]