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

Rsa1.0_01939.1_g00005.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 257aa MW: 28895.1 Da PI: 7.0673

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_01939.1_g00005.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	14.9	7.9e-05	80	102	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C ++F ++ L H++ H Rsa1.0_01939.1_g00005.1 80 FSCNYCQRTFYSSQALGGHQNAH 102 89******************988 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	5.35E-7	76	107	No hit	No description
Gene3D	G3DSA:3.30.160.60	7.8E-4	78	106	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	11.635	80	107	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	82	102	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: 257 aa Download sequence Send to blast
MDNQLPSDPS CVPFSSTAFP CKDSPNQCQE KSFKDEDVDV NDSSQEQINQ ELNLIDFIDT 60 SIDVHHGYYG STTSAEQKLF SCNYCQRTFY SSQALGGHQN AHKRERTLAK RGKRMAALAS 120 AFGHPYAFSP VPFNGHYNNR SLGIQAHSMS HKLSSYNGFG GHYGQTNLSK LPFDQQPALG 180 KLSSMETFHH HYYQQQHHMM MIDPSVNARS NNIRIPSTNI GKILVGSPIT LEQWREDGGL 240 LSTNQEEQHK LDLSLKL

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	Rsa1.0_01939.1_g00005.1

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	AC005964	1e-111	AC005964.1 Arabidopsis thaliana chromosome V map 60.5 cM, complete sequence.
GenBank	AC006259	1e-111	AC006259.1 Arabidopsis thaliana BAC F21J6 from chromosome V, containing KNAT3 and mapping near 60.5 cM, complete sequence.
GenBank	AK227706	1e-111	AK227706.1 Arabidopsis thaliana mRNA for ZFP3 zinc finger protein, complete cds, clone: RAFL14-29-I08.
GenBank	ATHZFPC	1e-111	L39646.1 Arabidopsis thaliana zinc finger protein (ZFP3) mRNA, complete cds.
GenBank	BT008308	1e-111	BT008308.1 Arabidopsis thaliana At5g25160 gene, complete cds.
GenBank	CP002688	1e-111	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018459218.1	0.0	PREDICTED: zinc finger protein 3-like
Swissprot	Q39262	1e-100	ZFP3_ARATH; Zinc finger protein 3
TrEMBL	A0A397Z5N5	1e-154	A0A397Z5N5_BRACM; Uncharacterized protein
TrEMBL	M4D024	1e-154	M4D024_BRARP; Uncharacterized protein
STRING	Bra009822.1-P	1e-155	(Brassica rapa)

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
AT5G25160.1	1e-102	zinc finger protein 3

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]