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

Sof009840

Organism

Saccharum officinarum

Taxonomic ID

4547

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Saccharinae; Saccharum; Saccharum officinarum complex

Family

C2H2

Protein Properties

Length: 261aa MW: 28470.6 Da PI: 9.3043

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
gnl\|UG\|Sof#S17421980	PU_ref	Unigene	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18.3	6.2e-06	70	92	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Sof009840 70 FVCEICNKGFQRDQNLQLHRRGH 92 89*******************88 PP
2	zf-C2H2	15.1	6.8e-05	146	168	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H +t+ Sof009840 146 WKCDKCSKKYAVQSDWKAHVKTC 168 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	7.2E-6	69	92	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.3E-7	69	92	No hit	No description
PROSITE profile	PS50157	10.949	70	92	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.017	70	92	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	3.5E-5	70	92	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	72	92	IPR007087	Zinc finger, C2H2
SMART	SM00355	240	111	141	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	4.8E-5	134	167	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.3E-7	141	166	No hit	No description
SMART	SM00355	90	146	166	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: 261 aa Download sequence Send to blast
XALGPFCESE DSGMEVEATP KTAVSSSGGA AQLPPPGPPA KKKRALPGMP DPDAEVIALS 60 PKTLLATNRF VCEICNKGFQ RDQNLQLHRR GHNLPWKLRQ RSGKEARKRV YVCPEPSCVH 120 HDPLRALGDL TGIKKHFCRK HGEKKWKCDK CSKKYAVQSD WKAHVKTCGS REYRCDCGTL 180 FSRSVLLLVA VAILLLDPLD RVHSLLMNCL CFRVRPFAGR TASSTNGPFC DALAEENAKG 240 PAGAPPAEEG GSGTRVFPNP V

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	5e-23	142	208	3	71	Zinc finger protein JACKDAW
5b3h_F	5e-23	142	208	3	71	Zinc finger protein JACKDAW
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Sof.19080	0.0	inflorescence\| root

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002468334.1	1e-128	protein indeterminate-domain 2
Swissprot	Q9SCQ6	1e-100	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A3L6TS49	1e-127	A0A3L6TS49_PANMI; Protein indeterminate-domain 1-like
TrEMBL	C5WTW1	1e-127	C5WTW1_SORBI; Uncharacterized protein
STRING	Sb01g043960.1	1e-128	(Sorghum bicolor)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G50700.1	1e-80	indeterminate(ID)-domain 2

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]