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

Lj0g3v0351859.1

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: 460aa MW: 51388.6 Da PI: 7.7963

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lj0g3v0351859.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.6	2.3e-05	6	28	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Lj0g3v0351859.1 6 FICEVCNKGFQREQNLQLHRRGH 28 89*******************88 PP
2	zf-C2H2	13.2	0.00026	83	105	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H +t+ Lj0g3v0351859.1 83 WKCEKCPKKYAVQSDWKAHSKTC 105 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	8.51E-8	5	28	No hit	No description
Gene3D	G3DSA:3.30.160.60	4.9E-6	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.99	6	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	6	28	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	2.2E-5	6	28	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
SMART	SM00355	160	48	78	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	1.8E-4	71	104	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	8.51E-8	78	103	No hit	No description
SMART	SM00355	130	83	103	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: 460 aa Download sequence Send to blast
MATNRFICEV CNKGFQREQN LQLHRRGHNL PWKLKQKNSK DQAKRKVYLC PEPTCVHHDP 60 SRALGDLTGI KKHFSRKHGE KKWKCEKCPK KYAVQSDWKA HSKTCGTKEY RCDCGTLFSR 120 RDSFITHRAF CDAPAQENNT SQPPNNMSSA ISSQLYGSSS NNNHMSLALS QMCPQIHHQT 180 NNNNQSASDL LHFGGANIAK TEESNHNFPS TPSLGFSFKP SLYQTPSSMF FMPPESNQNQ 240 NYHHFGGTDS KPFQGLIQLS ELHNNNSSFS EHFNIYNIEG SSFFSEGTCS VMGDHHQHHQ 300 FQTSSTTVPS LFSSTFLHSS NITPHLSATA MLQKAAQMAA SSSNNTSSSS DHKPNYGNMQ 360 DQMMNSSIFG ASDDHDYGLK EEEPKHLQKM MSAGGSERLS TRDFLGVGQD HVVRSLSEGV 420 SEEDPQQQQQ HGFFNLSSLE AERNGSRATG QCFGDGGNFQ

Sequence ? help Back to Top

Protein Sequence Length: 460 aa Download sequence Send to blast

MATNRFICEV CNKGFQREQN LQLHRRGHNL PWKLKQKNSK DQAKRKVYLC PEPTCVHHDP  60
SRALGDLTGI KKHFSRKHGE KKWKCEKCPK KYAVQSDWKA HSKTCGTKEY RCDCGTLFSR  120
RDSFITHRAF CDAPAQENNT SQPPNNMSSA ISSQLYGSSS NNNHMSLALS QMCPQIHHQT  180
NNNNQSASDL LHFGGANIAK TEESNHNFPS TPSLGFSFKP SLYQTPSSMF FMPPESNQNQ  240
NYHHFGGTDS KPFQGLIQLS ELHNNNSSFS EHFNIYNIEG SSFFSEGTCS VMGDHHQHHQ  300
FQTSSTTVPS LFSSTFLHSS NITPHLSATA MLQKAAQMAA SSSNNTSSSS DHKPNYGNMQ  360
DQMMNSSIFG ASDDHDYGLK EEEPKHLQKM MSAGGSERLS TRDFLGVGQD HVVRSLSEGV  420
SEEDPQQQQQ HGFFNLSSLE AERNGSRATG QCFGDGGNFQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	3e-32	79	137	3	61	Zinc finger protein JACKDAW
5b3h_F	3e-32	79	137	3	61	Zinc finger protein JACKDAW
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Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Lja.1319	1e-132	flower\| pod\| root

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269\|PubMed:24821766, ECO:0000305\|PubMed:19726569}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Lj0g3v0351859.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by gibberellin. {ECO:0000305\|PubMed:17933900}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP015041	1e-111	AP015041.1 Vigna angularis var. angularis DNA, chromosome 8, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_027361491.1	1e-160	protein indeterminate-domain 5, chloroplastic-like isoform X1
Refseq	XP_027361492.1	1e-160	protein indeterminate-domain 5, chloroplastic-like isoform X2
Refseq	XP_027361494.1	1e-160	protein indeterminate-domain 5, chloroplastic-like isoform X2
Refseq	XP_027361495.1	1e-160	protein indeterminate-domain 5, chloroplastic-like isoform X2
Swissprot	Q8GYC1	3e-97	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A1S3VSI0	1e-151	A0A1S3VSI0_VIGRR; protein indeterminate-domain 5, chloroplastic
STRING	GLYMA07G19540.2	1e-149	(Glycine max)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1536	33	97

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02080.2	3e-80	indeterminate(ID)-domain 4

Publications ? help Back to Top
Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]