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

GSBRNA2T00081963001

Common Name

GSBRNA2T00081963001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 392aa MW: 42463.8 Da PI: 10.1693

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00081963001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	15.8	3.9e-05	8	28	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C+ C++ F+r nL+ H r+H GSBRNA2T00081963001 8 CEVCNRGFNREQNLQLHGRVH 28 *****************9998 PP
2	zf-C2H2	13.5	0.00022	57	79	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+ks+ +s+ k+H + + GSBRNA2T00081963001 57 WKCDKCPKSYALQSDWKTHSKIC 79 58*****************9876 PP
3	zf-C2H2	13.9	0.00016	87	105	5	23
TTTEEESSHHHHHHHHHHT CS zf-C2H2 5 dCgksFsrksnLkrHirtH 23 dCg++Fsr++n++ H ++ GSBRNA2T00081963001 87 DCGTTFSRRENYNAHKALC 105 9**************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	5.3E-5	5	28	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	1.14E-8	5	77	No hit	No description
SMART	SM00355	0.53	6	28	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.136	6	28	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	8	28	IPR007087	Zinc finger, C2H2
Pfam	PF12874	0.0011	8	28	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.0E-5	43	78	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	54	57	84	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: 392 aa Download sequence Send to blast
MATNRFLCEV CNRGFNREQN LQLHGRVHNL SWKPKQKSEK EARRKKHYYR KQGEKQWKCD 60 KCPKSYALQS DWKTHSKICG LKVHRCDCGT TFSRRENYNA HKALCDALNQ ESGRNPTGSI 120 TNMAAAAGGS GGRHDFYGGA DSALGRVQDF YARAASALGK QDFYGGAASA LGRHGFYGGA 180 ASALSHNQFG NKSNTGYNLN HSSSNKFEGF VPHPTNPNPG PTNFPMQCPS NQASLAHNDQ 240 SLRSQHDLIS LGARINNNNN NTNHGYFQNN TKTSNQTFFA HGADINDPSA LPRGLTPSSS 300 SGVVVNGFGD NDKGNLQGRM NSLAVTTNQQ GWSASNIFGP HFGNNLSMGA SDVLTLGVNG 360 GSVRKGRGGR NPAPLDTEMK FSYSNRPFGN P*

Sequence ? help Back to Top

Protein Sequence Length: 392 aa Download sequence Send to blast

MATNRFLCEV CNRGFNREQN LQLHGRVHNL SWKPKQKSEK EARRKKHYYR KQGEKQWKCD  60
KCPKSYALQS DWKTHSKICG LKVHRCDCGT TFSRRENYNA HKALCDALNQ ESGRNPTGSI  120
TNMAAAAGGS GGRHDFYGGA DSALGRVQDF YARAASALGK QDFYGGAASA LGRHGFYGGA  180
ASALSHNQFG NKSNTGYNLN HSSSNKFEGF VPHPTNPNPG PTNFPMQCPS NQASLAHNDQ  240
SLRSQHDLIS LGARINNNNN NTNHGYFQNN TKTSNQTFFA HGADINDPSA LPRGLTPSSS  300
SGVVVNGFGD NDKGNLQGRM NSLAVTTNQQ GWSASNIFGP HFGNNLSMGA SDVLTLGVNG  360
GSVRKGRGGR NPAPLDTEMK FSYSNRPFGN P*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-22	53	114	3	64	Zinc finger protein JACKDAW
5b3h_F	2e-22	53	114	3	64	Zinc finger protein JACKDAW
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	32	45	KPKQKSEKEARRKK

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.17150	1e-31	seed

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. {ECO:0000305}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00081963001

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_013740255.1	0.0	protein indeterminate-domain 6, chloroplastic-like
Swissprot	Q8RWX7	1e-126	IDD6_ARATH; Protein indeterminate-domain 6, chloroplastic
TrEMBL	A0A078JN81	0.0	A0A078JN81_BRANA; BnaCnng61280D protein
STRING	Bo5g048370.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3678	17	59

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G14580.2	1e-109	C2H2-like zinc finger protein

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] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] 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]