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

Lj1g3v4921080.1

Organism

Lotus japonicus

Taxonomic ID

34305

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus

Family

C2H2

Protein Properties

Length: 493aa MW: 53113.3 Da PI: 8.6672

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lj1g3v4921080.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.2	3e-05	89	111	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C++C+k F r nL+ H r H Lj1g3v4921080.1 89 FICEICNKGFQRDQNLQLHRRGH 111 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	1.3E-5	88	111	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.11E-7	88	111	No hit	No description
PROSITE profile	PS50157	10.845	89	111	IPR007087	Zinc finger, C2H2
Pfam	PF12171	5.9E-5	89	111	IPR022755	Zinc finger, double-stranded RNA binding
SMART	SM00355	0.022	89	111	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	91	111	IPR007087	Zinc finger, C2H2
SMART	SM00355	89	130	160	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.0E-4	153	186	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.11E-7	160	185	No hit	No description
SMART	SM00355	130	165	185	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: 493 aa Download sequence Send to blast
MSNITSCDSG SFSSENNRED AVKQKSLILG QLHSPNSHTS TTTNNSINSN TNSELPPLVK 60 KKRNLPGNPD PSAEVIALSP NTLVTTNRFI CEICNKGFQR DQNLQLHRRG HNLPWKLKQR 120 TTAEVRKRVY VCPEPTCVHH NPARALGDLT GIKKHFSRKH GEKKWKCDKC SKKYAVRSDW 180 KAHSKICGTK EYKCDCGTIF SRRDSFITHR AFCDALADEN NKQNEGQLSN MGPNLQNQPL 240 IPNLAAPSSL PINTNELMTM TAKPFNINMT AAPGTTTLFS SPASLLQLGG NSNILDEAML 300 HNMASPHMSA TALLQKAAQM GATVSSNNNS GMAPPSQSYG IMNQHVHING QHDINLSSQY 360 DYNGMVSSGA TAAGSVVGMS GLEMFNAILD QSKALSRIIA QNSTTARSSN SLHGQCDPIT 420 SGGGGSNNVH VNGGNEDVMT LDLLGIGGGG GGAHGGFYGG GDQGRSERDH DDMWRNWSNK 480 NTGFESFSAT GSI

Sequence ? help Back to Top

Protein Sequence Length: 493 aa Download sequence Send to blast

MSNITSCDSG SFSSENNRED AVKQKSLILG QLHSPNSHTS TTTNNSINSN TNSELPPLVK  60
KKRNLPGNPD PSAEVIALSP NTLVTTNRFI CEICNKGFQR DQNLQLHRRG HNLPWKLKQR  120
TTAEVRKRVY VCPEPTCVHH NPARALGDLT GIKKHFSRKH GEKKWKCDKC SKKYAVRSDW  180
KAHSKICGTK EYKCDCGTIF SRRDSFITHR AFCDALADEN NKQNEGQLSN MGPNLQNQPL  240
IPNLAAPSSL PINTNELMTM TAKPFNINMT AAPGTTTLFS SPASLLQLGG NSNILDEAML  300
HNMASPHMSA TALLQKAAQM GATVSSNNNS GMAPPSQSYG IMNQHVHING QHDINLSSQY  360
DYNGMVSSGA TAAGSVVGMS GLEMFNAILD QSKALSRIIA QNSTTARSSN SLHGQCDPIT  420
SGGGGSNNVH VNGGNEDVMT LDLLGIGGGG GGAHGGFYGG GDQGRSERDH DDMWRNWSNK  480
NTGFESFSAT GSI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-31	161	230	3	70	Zinc finger protein JACKDAW
5b3h_F	2e-31	161	230	3	70	Zinc finger protein JACKDAW
Search in ModeBase

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	Lj1g3v4921080.1

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_017415418.1	0.0	PREDICTED: protein indeterminate-domain 2-like
Swissprot	Q9SCQ6	1e-114	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A0L9TYR6	0.0	A0A0L9TYR6_PHAAN; Uncharacterized protein
TrEMBL	A0A0S3SQM9	0.0	A0A0S3SQM9_PHAAN; Uncharacterized protein
STRING	XP_007144938.1	0.0	(Phaseolus vulgaris)

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
AT3G50700.1	1e-104	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]