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

Cagra.13389s0004.1.p

Organism

Capsella grandiflora

Taxonomic ID

264402

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella

Family

C3H

Protein Properties

Length: 717aa MW: 78061 Da PI: 6.5597

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.13389s0004.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	22.3	2.3e-07	306	326	5	26
--SGGGGTS--TTTTT-SS-SS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHg 26 +C++f++ G C++Gd C +aHg Cagra.13389s0004.1.p 306 PCPDFRK-GACRRGDMCEYAHG 326 8****.***********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF48403	5.29E-16	39	182	IPR020683	Ankyrin repeat-containing domain
Gene3D	G3DSA:1.25.40.20	6.5E-17	42	183	IPR020683	Ankyrin repeat-containing domain
CDD	cd00204	1.13E-13	47	181	No hit	No description
Pfam	PF12796	5.4E-10	84	156	IPR020683	Ankyrin repeat-containing domain
PROSITE profile	PS50297	15.777	89	192	IPR020683	Ankyrin repeat-containing domain
SMART	SM00248	0.0078	89	119	IPR002110	Ankyrin repeat
PROSITE profile	PS50088	11.915	124	159	IPR002110	Ankyrin repeat
SMART	SM00248	0.034	124	156	IPR002110	Ankyrin repeat
SMART	SM00356	4.0E-6	301	327	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.582	306	328	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	6.3E-5	306	326	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	6.1E-4	306	328	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	68	336	359	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	6.963	336	360	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0005737	Cellular Component	cytoplasm
GO:0005515	Molecular Function	protein binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 717 aa Download sequence Send to blast
MCCGSDRLNQ VVSSRSSSPV PLEDNNLFNN TDMNHLRVET EDTFASLLEL AANNDVEGVR 60 LSIERDPSCV DEAGLWYGRQ KGSKTMVNDQ RTPLMVAATY GSIDVIKLIV SLTDANVNRA 120 CGNDQTTALH CAASGGAVNA IQVVKLLLAA GADLSLLDAE GQRAGDVIVV PPKLEGVKLM 180 LQELLSADGS STAERNLRVV TNVPNRRSSS PSHSPTGENG GSGSGSPLDS PFKLKSTEFK 240 KEYPVDPSLP DIKNSIYATD EFRMYSFKVR PCSRAYSHDW TECPFVHPGE NARRRDPRKF 300 HYSCVPCPDF RKGACRRGDM CEYAHGVFEC WLHPAQYRTR LCKDGTGCAR RVCFFAHTPE 360 ELRPLYASTG SAVPSPRSNA DYAAALSLLP GSPSGVSVMS PLSPSAAGNG MSHSNMAWPQ 420 PNVPALHLPG SNLQSSRLRS SLNARDIPTD EFNMLADYEQ QQLLNEFSNS LSRSGRMKSM 480 PPSNLEDLFS AEGSSSPRFT DSSLASAVFS PTHKSAVFNQ FQQQQQQSML SPINTSFSSP 540 KSVDHSLFSG GGRMSPRNVV EPISPMSSRV SMLAQCVKQQ QQQQQQQQQQ QQHQFRSLSS 600 RELRTNSSPI VGSPVNNNSW SSKWGSSNGQ PDWGMSSEAL GKLRSSSSFD GEEPDVSWVQ 660 SLVKESPTDA KEKATTASSS GENVKQPNPI EPVMDHAGLE AWIEQMQLDQ LVAQQN*

Sequence ? help Back to Top

Protein Sequence Length: 717 aa Download sequence Send to blast

MCCGSDRLNQ VVSSRSSSPV PLEDNNLFNN TDMNHLRVET EDTFASLLEL AANNDVEGVR  60
LSIERDPSCV DEAGLWYGRQ KGSKTMVNDQ RTPLMVAATY GSIDVIKLIV SLTDANVNRA  120
CGNDQTTALH CAASGGAVNA IQVVKLLLAA GADLSLLDAE GQRAGDVIVV PPKLEGVKLM  180
LQELLSADGS STAERNLRVV TNVPNRRSSS PSHSPTGENG GSGSGSPLDS PFKLKSTEFK  240
KEYPVDPSLP DIKNSIYATD EFRMYSFKVR PCSRAYSHDW TECPFVHPGE NARRRDPRKF  300
HYSCVPCPDF RKGACRRGDM CEYAHGVFEC WLHPAQYRTR LCKDGTGCAR RVCFFAHTPE  360
ELRPLYASTG SAVPSPRSNA DYAAALSLLP GSPSGVSVMS PLSPSAAGNG MSHSNMAWPQ  420
PNVPALHLPG SNLQSSRLRS SLNARDIPTD EFNMLADYEQ QQLLNEFSNS LSRSGRMKSM  480
PPSNLEDLFS AEGSSSPRFT DSSLASAVFS PTHKSAVFNQ FQQQQQQSML SPINTSFSSP  540
KSVDHSLFSG GGRMSPRNVV EPISPMSSRV SMLAQCVKQQ QQQQQQQQQQ QQHQFRSLSS  600
RELRTNSSPI VGSPVNNNSW SSKWGSSNGQ PDWGMSSEAL GKLRSSSSFD GEEPDVSWVQ  660
SLVKESPTDA KEKATTASSS GENVKQPNPI EPVMDHAGLE AWIEQMQLDQ LVAQQN*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Cagra.13389s0004.1.p

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	AY037232	0.0	AY037232.1 Arabidopsis thaliana At2g41900/T6D20.20 mRNA, complete cds.
GenBank	AY093957	0.0	AY093957.1 Arabidopsis thaliana At2g41900/T6D20.20 mRNA, complete cds.
GenBank	CP002685	0.0	CP002685.1 Arabidopsis thaliana chromosome 2, complete sequence.
GenBank	U90439	0.0	U90439.3 Arabidopsis thaliana chromosome 2 BAC T6D20 genomic sequence, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006293740.1	0.0	zinc finger CCCH domain-containing protein 30
Swissprot	P93755	0.0	C3H30_ARATH; Zinc finger CCCH domain-containing protein 30
TrEMBL	R0FUQ4	0.0	R0FUQ4_9BRAS; Uncharacterized protein
STRING	Cagra.13389s0004.1.p	0.0	(Capsella grandiflora)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1785	28	79

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G41900.1	0.0	CCCH-type zinc finger protein with ARM repeat domain

Link Out ? help Back to Top
Phytozome	Cagra.13389s0004.1.p

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] He L, et al. Maize OXIDATIVE STRESS2 Homologs Enhance Cadmium Tolerance in Arabidopsis through Activation of a Putative SAM-Dependent Methyltransferase Gene. Plant Physiol., 2016. 171(3): p. 1675-85 [PMID:27208260]