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

GSBRNA2T00098841001

Common Name

GSBRNA2T00098841001, LOC106449477

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

bHLH

Protein Properties

Length: 250aa MW: 28181.9 Da PI: 8.3185

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00098841001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	52.9	6.4e-17	68	119	2	55
HHHHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS HLH 2 rrahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 + hn++Er+RR++iNs f++Lr++lP + + kKls +++ ++v+YI +Lq GSBRNA2T00098841001 68 KLCHNANERNRRKKINSLFSTLRSCLPAsD---QLKKLSIPQTVLRTVKYIPELQ 119 678***********************66...9999*************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	14.494	66	118	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	3.03E-14	67	123	No hit	No description
SuperFamily	SSF47459	3.14E-16	67	135	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.7E-14	68	135	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	4.5E-14	68	119	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.9E-12	72	124	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:1.10.10.10	7.7E-4	177	215	IPR011991	Winged helix-turn-helix DNA-binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 250 aa Download sequence Send to blast
MCELGPALFP KFGMELTGEH ESYSTNATSF LDFPVPNTHG VAHHETSFGV SVSSEVNGID 60 NHSVMIKKLC HNANERNRRK KINSLFSTLR SCLPASDQLK KLSIPQTVLR TVKYIPELQE 120 QVKRLTQKKE DLMGRVSGQR DTDRYIKPQP QAVASYVSTV FATKHGDNEV MVQISSSKIH 180 KFSIYNVLNG LEEDGFIVAD VSSSSSRGER LFYTLHLQVG KTDSYKLICE ELSQRILYLY 240 EEHGNSFRY*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Roots. {ECO:0000269\|PubMed:12679534}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00098841001

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by OBP3, auxin and salicylic acid (SA). Repressed by jasmonic acid (JA), UV LIGHT, and heat treatments. Up regulated by iron deficiency in roots and leaves, as well as by nickel, high zinc or high copper treatments. Repressed by high iron, low copper and low zinc treatments. {ECO:0000269\|PubMed:12679534, ECO:0000269\|PubMed:12887587, ECO:0000269\|PubMed:17516080}.

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	AC189506	0.0	AC189506.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB088E10, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013746686.1	0.0	transcription factor ORG3
Swissprot	Q9M1K1	1e-116	ORG2_ARATH; Transcription factor ORG2
TrEMBL	A0A3P6BJV0	0.0	A0A3P6BJV0_BRACM; Uncharacterized protein
STRING	Bra003260.1-P	1e-176	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM482	28	153

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G56970.1	1e-118	bHLH family protein

Link Out ? help Back to Top
Entrez Gene	106449477

Publications ? help Back to Top
Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature. Differentiation, 2010. 80(1): p. 1-8 [PMID:20219281] Matsuoka K, et al. Gibberellin-induced expression of Fe uptake-related genes in Arabidopsis. Plant Cell Physiol., 2014. 55(1): p. 87-98 [PMID:24192296] 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] Li X,Zhang H,Ai Q,Liang G,Yu D Two bHLH Transcription Factors, bHLH34 and bHLH104, Regulate Iron Homeostasis in Arabidopsis thaliana. Plant Physiol., 2016. 170(4): p. 2478-93 [PMID:26921305] Shen C, et al. Involvement of endogenous salicylic acid in iron-deficiency responses in Arabidopsis. J. Exp. Bot., 2016. 67(14): p. 4179-93 [PMID:27208542] Liang G,Zhang H,Li X,Ai Q,Yu D bHLH transcription factor bHLH115 regulates iron homeostasis in Arabidopsis thaliana. J. Exp. Bot., 2017. 68(7): p. 1743-1755 [PMID:28369511] Ezer D, et al. The G-Box Transcriptional Regulatory Code in Arabidopsis. Plant Physiol., 2017. 175(2): p. 628-640 [PMID:28864470] Kailasam S,Wang Y,Lo JC,Chang HF,Yeh KC S-Nitrosoglutathione works downstream of nitric oxide to mediate iron-deficiency signaling in Arabidopsis. Plant J., 2018. 94(1): p. 157-168 [PMID:29396986] Kurt F,Filiz E Genome-wide and comparative analysis of bHLH38, bHLH39, bHLH100 and bHLH101 genes in Arabidopsis, tomato, rice, soybean and maize: insights into iron (Fe) homeostasis. Biometals, 2018. 31(4): p. 489-504 [PMID:29546482]