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

Carubv10003340m

Common Name

CARUB_v10003340mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 273aa MW: 30219.4 Da PI: 5.8009

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10003340m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.7	8.6e-05	104	126	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C ++F ++ L H++ H Carubv10003340m 104 FSCNYCQRTFYSSQALGGHQNAH 126 89******************988 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	3.33E-7	99	131	No hit	No description
Gene3D	G3DSA:3.30.160.60	8.5E-4	102	130	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	11.635	104	131	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	106	126	IPR007087	Zinc finger, C2H2

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: 273 aa Download sequence Send to blast
MDSSSGKPRP SDSSCIVSAS TTLPFPNSPK LSLENYNIDA EADQAEDNYD QKAGDEGIRL 60 DLMLAGYDCS QPDLNQELNL LDWLEASVVT PSFNGSSSTE QKLFSCNYCQ RTFYSSQALG 120 GHQNAHKRER TLAKRGQRMA SAAAFGHPYG FAPFPFHGQY SNRSLGIQAH SMSHKPSSYN 180 VFGGEYGQIN WSRIPLVQQP AIGKLSSTEN HYNHHQMMIA PPLTSTCENI GRFDVERIPV 240 EFPTPDLWRR GGESLNPAEE EQQKNLDLSL KL*

Functional Description ? help Back to Top
Source	Description
UniProt	Acts as negative regulator of abscisic acid (ABA) signaling during germination and early seedling development. Involved in the regulation of vegetative development and fertility. Modulates red light signaling in seedling photomorphogenesis. {ECO:0000269\|PubMed:24808098}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10003340m

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by abscisic acid (ABA). {ECO:0000269\|PubMed:24808098}.

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	AB493745	0.0	AB493745.1 Arabidopsis thaliana At5g10970 mRNA for hypothetical protein, partial cds, clone: RAAt5g10970.
GenBank	AL365234	0.0	AL365234.1 Arabidopsis thaliana DNA chromosome 5, BAC clone T30N20 (ESSA project).
GenBank	AL391222	0.0	AL391222.1 Arabidopsis thaliana DNA chromosome 5, BAC clone T5K6 (ESSA project).
GenBank	CP002688	0.0	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006289750.1	0.0	zinc finger protein 3
Swissprot	Q39262	4e-73	ZFP3_ARATH; Zinc finger protein 3
TrEMBL	R0HFT8	0.0	R0HFT8_9BRAS; Uncharacterized protein
STRING	XP_006289750.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1893	27	71

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G10970.1	1e-173	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Carubv10003340m
Entrez Gene	17882103

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] Joseph MP, et al. The Arabidopsis ZINC FINGER PROTEIN3 Interferes with Abscisic Acid and Light Signaling in Seed Germination and Plant Development. Plant Physiol., 2014. 165(3): p. 1203-1220 [PMID:24808098] Zhang A, et al. The Arabidopsis Gene zinc finger protein 3(ZFP3) Is Involved in Salt Stress and Osmotic Stress Response. PLoS ONE, 2016. 11(12): p. e0168367 [PMID:27977750]