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

GSBRNA2T00081712001

Common Name

GSBRNA2T00081712001

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: 451aa MW: 49310.3 Da PI: 8.6045

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00081712001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	16.8	1.9e-05	77	99	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C k F r nL+ H r H GSBRNA2T00081712001 77 FQCEVCQKGFQREQNLQLHRRGH 99 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	4.72E-6	76	99	No hit	No description
Gene3D	G3DSA:3.30.160.60	2.8E-6	76	99	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	0.0044	77	99	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.053	77	99	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	79	99	IPR007087	Zinc finger, C2H2
SMART	SM00355	52	118	148	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	6.8E-4	145	174	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	4.72E-6	149	174	No hit	No description
SMART	SM00355	130	154	174	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: 451 aa Download sequence Send to blast
MSSSYNNTIS SSSTQSFPIL AIGANNFNRE ETAMTMNQRP NSVSPPPRRL RNKPGNPSPD 60 AEVIALSPEE IMATNRFQCE VCQKGFQREQ NLQLHRRGHN LPFNLKQKSD EQVRRKVYVC 120 PEPTCVYHDP SRALGDLTGI KKHYYRKHGD EKKFKCEKCN KFYAVESDCK AHFKNCGTKE 180 YRCVCGTKFS RSDSYETHRA FCEALAQESA GNPNLSFTEM LAAAGGSDGS SRHGLYGGAS 240 SGLSHNHFGD NSNSGFAPPA AGFNLNRSSS PKFEDFFPQS TNPNHGPTTN FPMQYPSNQG 300 LLARNDQNLM NQHGLINSNN NNNNLFNPGY FQANTQNLSD QTGGPPLFHH ADNNVPSALL 360 RGSSMAANNF GGSGNSNFQG QMNSLAATSG HQGRPGSSIF DHRLGNNLSI GGPDRRTLDF 420 LGVNGRGGRS EPPLDLDMKF SDPNNPFGNV *

Sequence ? help Back to Top

Protein Sequence Length: 451 aa Download sequence Send to blast

MSSSYNNTIS SSSTQSFPIL AIGANNFNRE ETAMTMNQRP NSVSPPPRRL RNKPGNPSPD  60
AEVIALSPEE IMATNRFQCE VCQKGFQREQ NLQLHRRGHN LPFNLKQKSD EQVRRKVYVC  120
PEPTCVYHDP SRALGDLTGI KKHYYRKHGD EKKFKCEKCN KFYAVESDCK AHFKNCGTKE  180
YRCVCGTKFS RSDSYETHRA FCEALAQESA GNPNLSFTEM LAAAGGSDGS SRHGLYGGAS  240
SGLSHNHFGD NSNSGFAPPA AGFNLNRSSS PKFEDFFPQS TNPNHGPTTN FPMQYPSNQG  300
LLARNDQNLM NQHGLINSNN NNNNLFNPGY FQANTQNLSD QTGGPPLFHH ADNNVPSALL  360
RGSSMAANNF GGSGNSNFQG QMNSLAATSG HQGRPGSSIF DHRLGNNLSI GGPDRRTLDF  420
LGVNGRGGRS EPPLDLDMKF SDPNNPFGNV *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	6e-23	151	216	4	69	Zinc finger protein JACKDAW
5b3h_F	6e-23	151	216	4	69	Zinc finger protein JACKDAW
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. {ECO:0000305}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00081712001

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	AC189499	0.0	AC189499.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB086M23, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009148837.1	0.0	PREDICTED: protein indeterminate-domain 6, chloroplastic-like isoform X1
Refseq	XP_009148838.1	0.0	PREDICTED: protein indeterminate-domain 6, chloroplastic-like isoform X2
Swissprot	Q8RWX7	0.0	IDD6_ARATH; Protein indeterminate-domain 6, chloroplastic
TrEMBL	A0A078I325	0.0	A0A078I325_BRANA; BnaA06g09400D protein
TrEMBL	A0A3P5YDD1	0.0	A0A3P5YDD1_BRACM; Uncharacterized protein
STRING	Bra026204.1-P	0.0	(Brassica rapa)

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-168	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]