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

Sp_179020_rswi.t1

Common Name

SOVF_179020

Organism

Spinacia oleracea

Taxonomic ID

3562

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Chenopodiaceae; Chenopodioideae; Anserineae; Spinacia

Family

C2H2

Protein Properties

Length: 168aa MW: 19174.1 Da PI: 9.8716

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sp_179020_rswi.t1	genome	TBVR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.6	1.1e-05	58	78	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C++Cgk F r nL+ H r H Sp_179020_rswi.t1 58 CEICGKGFQRDQNLQLHRRGH 78 *******************88 PP
2	zf-C2H2	14.7	9.2e-05	132	154	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k + +s+ k H +t+ Sp_179020_rswi.t1 132 WKCDKCNKKYAVQSDWKAHSKTC 154 58*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	9.84E-8	55	78	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.0E-5	55	78	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.076	56	78	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.489	56	78	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	58	78	IPR007087	Zinc finger, C2H2
SMART	SM00355	260	97	127	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	3.6E-5	120	153	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	9.84E-8	127	152	No hit	No description
SMART	SM00355	110	132	152	IPR015880	Zinc finger, C2H2-like

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: 168 aa Download sequence Send to blast
MGDEEEISNG FVITPVIGSN DDPLPPKKKR NLPGNPDPEA EVIALSPKTL MATNRFLCEI 60 CGKGFQRDQN LQLHRRGHNL PWKLKQRSSK EPRKRVYVCP EKSCVHNHPS RALGDLTGIK 120 KHFCRKHGEK KWKCDKCNKK YAVQSDWKAH SKTCGTREYK CDCGTIFS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-21	128	168	3	43	Zinc finger protein JACKDAW
5b3h_F	2e-21	128	168	3	43	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269\|PubMed:17785527, ECO:0000269\|PubMed:21935722, ECO:0000269\|PubMed:24821766, ECO:0000269\|PubMed:25829440}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269\|PubMed:21935722}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021848566.1	1e-123	zinc finger protein NUTCRACKER
Refseq	XP_021848567.1	1e-123	zinc finger protein NUTCRACKER
Swissprot	Q9ZWA6	4e-98	IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBL	A0A0K9QHB8	1e-122	A0A0K9QHB8_SPIOL; Uncharacterized protein (Fragment)
STRING	XP_010689779.1	1e-110	(Beta vulgaris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03840.1	3e-91	C2H2 family protein

Publications ? help Back to Top
Muñoz-Strale D,León G Identification of two highly specific pollen promoters using transcriptomic data. Plant Physiol. Biochem., 2014. 83: p. 292-9 [PMID:25208507] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]