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

Bostr.26675s0387.1.p

Organism

Boechera stricta

Taxonomic ID

72658

Taxonomic Lineage

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

Family

C3H

Protein Properties

Length: 395aa MW: 43764.7 Da PI: 8.0295

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Bostr.26675s0387.1.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	33.6	6.6e-11	129	152	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 e C+ f+r+G C++Gd C FaHg Bostr.26675s0387.1.p 129 GEVCPEFRRGGDCSRGDDCEFAHG 152 689********************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	3.79E-6	126	156	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	8.4E-6	126	153	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.535	126	154	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.1E-6	130	154	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	1.9E-8	130	152	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.5	162	185	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010187	Biological Process	negative regulation of seed germination
GO:0005634	Cellular Component	nucleus
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 395 aa Download sequence Send to blast
MDVVCTEHQM RKPTVEIPPR KFLSSSKSFP AADFSSPRSP RKQNWNKSNK ITSEHEEDSF 60 NNEENNKEIK EYCYDSDSDD PYASDHFRMF EFKIRRCTRS RSHDWTDCPF AHPGEKARRR 120 DPRRFQYSGE VCPEFRRGGD CSRGDDCEFA HGVFECWLHP IRYRTEACKD GKHCKRKVCF 180 FAHSPRQLRV LPPENVSSGG SGSPSPAAKN PCCLFCSSSP TSTLLGNLSH LSRSPSLSPP 240 MSPAHKAAAF SRLRNRAASA VSSAGSVNYK DVLSELVNSL DSMSLAEAFQ VSSSSPVTTP 300 VSAAAAAFAS SCGLSNQRLH LQQQPSSPLQ FALSPSTPSY LTNSPPANFF GDDFTPRRRQ 360 MNDFMTVAAV RDKTSFEDGS CGDPDLGWVN DLLT*

Sequence ? help Back to Top

Protein Sequence Length: 395 aa Download sequence Send to blast

MDVVCTEHQM RKPTVEIPPR KFLSSSKSFP AADFSSPRSP RKQNWNKSNK ITSEHEEDSF  60
NNEENNKEIK EYCYDSDSDD PYASDHFRMF EFKIRRCTRS RSHDWTDCPF AHPGEKARRR  120
DPRRFQYSGE VCPEFRRGGD CSRGDDCEFA HGVFECWLHP IRYRTEACKD GKHCKRKVCF  180
FAHSPRQLRV LPPENVSSGG SGSPSPAAKN PCCLFCSSSP TSTLLGNLSH LSRSPSLSPP  240
MSPAHKAAAF SRLRNRAASA VSSAGSVNYK DVLSELVNSL DSMSLAEAFQ VSSSSPVTTP  300
VSAAAAAFAS SCGLSNQRLH LQQQPSSPLQ FALSPSTPSY LTNSPPANFF GDDFTPRRRQ  360
MNDFMTVAAV RDKTSFEDGS CGDPDLGWVN DLLT*

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	Bostr.26675s0387.1.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	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_010475006.1	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	D7KD80	0.0	D7KD80_ARALL; Zinc finger (CCCH-type) family protein
STRING	Bostr.26675s0387.1.p	0.0	(Boechera stricta)

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-173	C3H family protein

Link Out ? help Back to Top
Phytozome	Bostr.26675s0387.1.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] 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]