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

Csa03g004920.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 400aa MW: 44190.1 Da PI: 8.0329

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa03g004920.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	33.6	6.7e-11	130	153	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 e C+ f+r+G C++Gd C FaHg Csa03g004920.1 130 GEVCPEFRRGGDCSRGDDCEFAHG 153 689********************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	13.535	127	155	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	8.4E-6	127	154	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	3.79E-6	127	157	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.1E-6	131	155	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.9E-8	131	153	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.5	163	186	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: 400 aa Download sequence Send to blast
MDVVCTEHQM RKPTVEIPPR KLLLSSKSFP AADSSSPRSP RKHNWNKSNK ITSEHEEDSF 60 NNEDNNNKEI KEYCYDSDSD DPYASDHFRM FEFKIRRCTR SRSHDWTDCP FAHPGEKARR 120 RDPRRFQYSG EVCPEFRRGG DCSRGDDCEF AHGVFECWLH PIRYRTEACK DGKHCKRKVC 180 FFAHSPRQLR VLPPENVSGG SGSPSSAAKN PCCLFCSSSP TSTLLGNLSH LSRSPSLSPP 240 MSPAHKAAAF SRLRNRAASA VSAAAAADSV NYKDVLSELV NSLDSMSLAE ALQVTSSSSP 300 VTTPVSAAAA AFASSCGLSN QRLHLQQQQP SSPLQFALSP STLSYLTNSP RANFFGDDFT 360 PRRRQMNDFS TVAAVRDKTS FEDGSCGDPD LGWVNDLLT*

Sequence ? help Back to Top

Protein Sequence Length: 400 aa Download sequence Send to blast

MDVVCTEHQM RKPTVEIPPR KLLLSSKSFP AADSSSPRSP RKHNWNKSNK ITSEHEEDSF  60
NNEDNNNKEI KEYCYDSDSD DPYASDHFRM FEFKIRRCTR SRSHDWTDCP FAHPGEKARR  120
RDPRRFQYSG EVCPEFRRGG DCSRGDDCEF AHGVFECWLH PIRYRTEACK DGKHCKRKVC  180
FFAHSPRQLR VLPPENVSGG SGSPSSAAKN PCCLFCSSSP TSTLLGNLSH LSRSPSLSPP  240
MSPAHKAAAF SRLRNRAASA VSAAAAADSV NYKDVLSELV NSLDSMSLAE ALQVTSSSSP  300
VTTPVSAAAA AFASSCGLSN QRLHLQQQQP SSPLQFALSP STLSYLTNSP RANFFGDDFT  360
PRRRQMNDFS TVAAVRDKTS FEDGSCGDPD LGWVNDLLT*

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription repressor that functions as negative regulator of phytochrome-mediated promotion of seed germination. Inhibits seed germination by regulating the expression of gibberellic acid (GA) and abscisic acid (ABA) metabolic genes. Does not regulate the expression of the DELLA genes RGA and RGA1. Activated by PIL5, a phytochrome-interacting basic helix-loop-helix transcription factor. {ECO:0000269\|PubMed:18487351}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa03g004920.1

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	AC003027	0.0	AC003027.1 Arabidopsis thaliana chromosome I BAC F21M11 genomic sequence, complete sequence.
GenBank	CP002684	0.0	CP002684.1 Arabidopsis thaliana chromosome 1 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010482518.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 2-like
Swissprot	Q9ZWA1	0.0	C3H2_ARATH; Zinc finger CCCH domain-containing protein 2
TrEMBL	V4MW89	0.0	V4MW89_EUTSA; Uncharacterized protein
STRING	XP_010482518.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2987	27	66

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03790.1	1e-166	C3H family protein

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] Chang G, et al. AFP2 as the novel regulator breaks high-temperature-induced seeds secondary dormancy through ABI5 and SOM in Arabidopsis thaliana. Biochem. Biophys. Res. Commun., 2018. 501(1): p. 232-238 [PMID:29723526]