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

Dca16538.1

Organism

Dianthus caryophyllus

Taxonomic ID

3570

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Caryophyllaceae; Caryophylleae; Dianthus

Family

C2H2

Protein Properties

Length: 210aa MW: 23501.9 Da PI: 10.5029

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Dca16538.1	genome	DCA	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	18	8.2e-06	88	110	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H Dca16538.1 88 FICEVCNKGFQREQNLQLHRRGH 110 89*******************88 PP
2	zf-C2H2	15.6	4.6e-05	165	187	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Dca16538.1 165 FKCEKCSKRYAVQSDWKAHSKTC 187 89*****************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.12E-8	87	110	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.8E-6	87	110	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Pfam	PF12171	7.8E-6	88	110	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.99	88	110	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0052	88	110	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	90	110	IPR007087	Zinc finger, C2H2
SMART	SM00355	150	130	160	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	2.8E-6	153	186	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.12E-8	160	185	No hit	No description
SMART	SM00355	88	165	185	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: 210 aa Download sequence Send to blast
MAASSSSSPF FGSGRAEGIH QPPPPLQPPS QPPQQQLHQP HSSAAMPPSS SSGPPQKKKR 60 NLPGAPSKYP DAEVIALSPK TLMATNRFIC EVCNKGFQRE QNLQLHRRGH NLPWKLKQKS 120 TKEPVRKKVY LCPEPSCVHH DPARALGDLT GIKKHYSRKH GEKKFKCEKC SKRYAVQSDW 180 KAHSKTCGTR EYRCDCGTLF SRLVQRTVVD

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-22	161	210	3	56	Zinc finger protein JACKDAW
5b3h_F	2e-22	161	210	3	56	Zinc finger protein JACKDAW
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	114	127	KLKQKSTKEPVRKK

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. {ECO:0000305}.
UniProt	Transcription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). 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). {ECO:0000269\|PubMed:24821766, ECO:0000305\|PubMed:19726569}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by gibberellin. {ECO:0000305\|PubMed:17933900}.

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_018841154.1	1e-103	PREDICTED: protein indeterminate-domain 5, chloroplastic
Refseq	XP_018841164.1	1e-103	PREDICTED: protein indeterminate-domain 5, chloroplastic
Refseq	XP_018841171.1	1e-103	PREDICTED: protein indeterminate-domain 5, chloroplastic
Refseq	XP_024465038.1	1e-104	protein indeterminate-domain 5, chloroplastic isoform X1
Swissprot	Q8GYC1	2e-95	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
Swissprot	Q8RWX7	2e-95	IDD6_ARATH; Protein indeterminate-domain 6, chloroplastic
TrEMBL	A0A2I4GBA6	1e-102	A0A2I4GBA6_JUGRE; protein indeterminate-domain 5, chloroplastic
TrEMBL	A0A2K1YRN5	1e-102	A0A2K1YRN5_POPTR; Uncharacterized protein
STRING	POPTR_0010s10950.1	1e-101	(Populus trichocarpa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02080.1	4e-94	indeterminate(ID)-domain 4

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] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755] Bustillo-Avendaño E, et al. Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root Organogenesis. Plant Physiol., 2018. 176(2): p. 1709-1727 [PMID:29233938]