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

GSBRNA2T00081713001

Common Name

GSBRNA2T00081713001

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: 417aa MW: 45571.4 Da PI: 8.3018

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00081713001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	19	3.8e-06	78	100	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C k F r+ nL+ H r H GSBRNA2T00081713001 78 FQCEVCEKGFQRQQNLQLHRRGH 100 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	4.2E-6	77	100	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.46E-7	77	100	No hit	No description
SMART	SM00355	0.0054	78	100	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	11.157	78	100	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	80	100	IPR007087	Zinc finger, C2H2
SMART	SM00355	130	119	149	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	3.0E-4	142	173	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.46E-7	149	174	No hit	No description
SMART	SM00355	180	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: 417 aa Download sequence Send to blast
MSSSYNNTIS SSSTQSFPLL AIGANNFNRE ETAMTMNQQR PNSVSPPPRR LRNKPGNPSP 60 DAEVIALTPE EIMATNRFQC EVCEKGFQRQ QNLQLHRRGH NLPFNLKQKS DEEIRRKVYV 120 CPEPTCVYHD PSRALGDLTG IKKHYCRKHG EKKFKCEKCD KFYAVESDCK AHSMICGTKE 180 YRCVCGTKFS RSDSYETHRA FCEALAQESA GNPNLSFTEM LAAAGGSDGS SRDGLYGGAS 240 SALSHNHFGD NSNSGFAPPG AGFNLNRSSS PKFEDFFPQS TNPNHGPTTN FPMQYPSNQG 300 LLARNDQNLM NQHGLINNNN VPSAQLRGSS VAANNFGGSG NVNFQGQMNS LAATSGQQGR 360 PGSSIFDHRL GNNLSIEGPD RRTLDFLGVN GRGGRNEPPL DLDMKFSDPN NPFGNV*

Sequence ? help Back to Top

Protein Sequence Length: 417 aa Download sequence Send to blast

MSSSYNNTIS SSSTQSFPLL AIGANNFNRE ETAMTMNQQR PNSVSPPPRR LRNKPGNPSP  60
DAEVIALTPE EIMATNRFQC EVCEKGFQRQ QNLQLHRRGH NLPFNLKQKS DEEIRRKVYV  120
CPEPTCVYHD PSRALGDLTG IKKHYCRKHG EKKFKCEKCD KFYAVESDCK AHSMICGTKE  180
YRCVCGTKFS RSDSYETHRA FCEALAQESA GNPNLSFTEM LAAAGGSDGS SRDGLYGGAS  240
SALSHNHFGD NSNSGFAPPG AGFNLNRSSS PKFEDFFPQS TNPNHGPTTN FPMQYPSNQG  300
LLARNDQNLM NQHGLINNNN VPSAQLRGSS VAANNFGGSG NVNFQGQMNS LAATSGQQGR  360
PGSSIFDHRL GNNLSIEGPD RRTLDFLGVN GRGGRNEPPL DLDMKFSDPN NPFGNV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	6e-23	150	216	3	69	Zinc finger protein JACKDAW
5b3h_F	6e-23	150	216	3	69	Zinc finger protein JACKDAW
Search in ModeBase

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00081713001

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	A0A078I5T2	0.0	A0A078I5T2_BRANA; BnaA06g09410D protein
TrEMBL	A0A3P5YQ19	0.0	A0A3P5YQ19_BRACM; Uncharacterized protein
STRING	Bra026203.1-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-163	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]