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

Lj4g3v1389250.1

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

C3H

Protein Properties

Length: 327aa MW: 36257.2 Da PI: 9.2451

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lj4g3v1389250.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	17.6	6.8e-06	1	17	10	26
GGTS--TTTTT-SS-SS CS zf-CCCH 10 artGtCkyGdrCkFaHg 26 ++tG Ck+G C+F+H+ Lj4g3v1389250.1 1 MKTGSCKFGFHCRFNHP 17 89**************8 PP
2	zf-CCCH	27.6	5.1e-09	43	63	5	25
--SGGGGTS--TTTTT-SS-S CS zf-CCCH 5 lCrffartGtCkyGdrCkFaH 25 +C++++r+G Ck+G Ck++H Lj4g3v1389250.1 43 ECKYYLRSGGCKFGKACKYNH 63 7******************** PP
3	zf-CCCH	43.2	6.6e-14	84	108	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 ++++C+f++rtG CkyG++C+F+H+ Lj4g3v1389250.1 84 GERECPFYMRTGSCKYGANCRFNHP 108 5799********************9 PP
4	zf-CCCH	29.9	9.8e-10	214	240	1	27
--S---SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHgp 27 +++++C++f++tG Ck+ ++CkF+H++ Lj4g3v1389250.1 214 PGEPECSYFLKTGACKFKSNCKFHHPR 240 5799*********************96 PP
5	zf-CCCH	32.7	1.3e-10	262	285	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 + C++++r+G+Ck+G+ C++ H+ Lj4g3v1389250.1 262 QNVCSHYSRYGICKFGPACRYDHP 285 568********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	10.455	1	19	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0019	38	65	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.319	38	66	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.7E-5	41	66	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.5E-7	43	63	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	5.4E-4	44	65	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.1E-6	82	109	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.657	82	110	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.57E-6	83	109	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.0E-11	84	108	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.0E-5	88	107	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.267	213	241	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	7.6E-5	213	240	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	2.6E-7	215	240	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.92E-6	218	243	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	9.5E-4	219	240	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	2.09E-6	256	285	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.4E-4	259	286	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	14.821	259	287	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	5.7E-8	262	285	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 327 aa Download sequence Send to blast
MKTGSCKFGF HCRFNHPIRR RTQAVKEKAG EREEPTERSS LTECKYYLRS GGCKFGKACK 60 YNHTRGSSST APKLNFIGLP IRLGERECPF YMRTGSCKYG ANCRFNHPDP TSVGGSDPPP 120 GYGNVGSFKG ASPSVPSWSS SKTLNETSFM PMILKPSQGV SPQNSDWNGY QAPVYLSERS 180 MHPTSAYVMN PAIETNAYMH RQRQMPVEEY PERPGEPECS YFLKTGACKF KSNCKFHHPR 240 NRVARLPPCI LSDKGLPLRP DQNVCSHYSR YGICKFGPAC RYDHPIDPLP VMMPGLGLQS 300 YPNSADVEMA GLGGSAGASD VRIQQSV

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Lja.2749	1e-178	floral bud\| pod\| root

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Lj4g3v1389250.1

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_027334998.1	0.0	zinc finger CCCH domain-containing protein 43-like
Swissprot	Q9STM4	1e-119	C3H43_ARATH; Zinc finger CCCH domain-containing protein 43
TrEMBL	A0A371G0W7	0.0	A0A371G0W7_MUCPR; Zinc finger CCCH domain-containing protein 43 (Fragment)
STRING	GLYMA17G13580.1	0.0	(Glycine max)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48440.1	1e-117	C3H family protein

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546]