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

SMil_00007445-RA_Salv

Organism

Salvia miltiorrhiza

Taxonomic ID

226208

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Lamiales; Lamiaceae; Nepetoideae; Mentheae; Salvia

Family

C2H2

Protein Properties

Length: 407aa MW: 45353.2 Da PI: 8.7922

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
SMil_00007445-RA_Salv	genome	NDCTCM	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	19.7	2.2e-06	58	80	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++Cgk F r nL+ H r H SMil_00007445-RA_Salv 58 FVCEICGKGFQREQNLQLHKRGH 80 89******************988 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	8.64E-6	57	80	No hit	No description
Gene3D	G3DSA:3.30.160.60	8.9E-6	57	80	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	11.697	58	80	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0023	58	80	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	60	80	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	8.64E-6	129	154	No hit	No description
SMART	SM00355	180	134	154	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: 407 aa Download sequence Send to blast
MATDEEAATS ITSTQNDAVR ASNPPVPPKK KRNLPGNPDP EAEVIALSPK TLMATNRFVC 60 EICGKGFQRE QNLQLHKRGH NLPWKLKQRT SKEVRKRVYV CPEKTCVHHH ASRALGDLTG 120 IKKHFCRKHG EKKWKCDKCA KHYAVHSDWK AHYKTCGTRE YKCDCGTIFS RRDSFITHRA 180 FCDALAEETA RFTAASHSHT PNHFITSSLG LGQHHFPPNL PLWAAHGNQQ SHDHNSIAKH 240 LQEMHHQFTL DHPLVQNPNP PSLYQTANWG FGRNQFPNQN PIMIPILKEV SVPSLFHAQN 300 QNQSQSQSCA AISATALLQR AAQIGATTRD GDGDKLCGLY GTTSSGGSGL GSDVELSATL 360 DREMEMYPPL KRCRRPVEEE IGLGETRDFL GVGMHTICNP SAINGWI

Sequence ? help Back to Top

Protein Sequence Length: 407 aa Download sequence Send to blast

MATDEEAATS ITSTQNDAVR ASNPPVPPKK KRNLPGNPDP EAEVIALSPK TLMATNRFVC  60
EICGKGFQRE QNLQLHKRGH NLPWKLKQRT SKEVRKRVYV CPEKTCVHHH ASRALGDLTG  120
IKKHFCRKHG EKKWKCDKCA KHYAVHSDWK AHYKTCGTRE YKCDCGTIFS RRDSFITHRA  180
FCDALAEETA RFTAASHSHT PNHFITSSLG LGQHHFPPNL PLWAAHGNQQ SHDHNSIAKH  240
LQEMHHQFTL DHPLVQNPNP PSLYQTANWG FGRNQFPNQN PIMIPILKEV SVPSLFHAQN  300
QNQSQSQSCA AISATALLQR AAQIGATTRD GDGDKLCGLY GTTSSGGSGL GSDVELSATL  360
DREMEMYPPL KRCRRPVEEE IGLGETRDFL GVGMHTICNP SAINGWI

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-33	130	199	3	72	Zinc finger protein JACKDAW
5b3h_F	2e-33	130	199	3	72	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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011100239.1	1e-170	zinc finger protein NUTCRACKER
Swissprot	Q9ZWA6	1e-133	IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBL	A0A4D8ZGF5	0.0	A0A4D8ZGF5_SALSN; Uncharacterized protein
STRING	Migut.M00153.1.p	1e-159	(Erythranthe guttata)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA103	24	350

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03840.1	1e-127	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]