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

RrC16589_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 300aa MW: 34619.7 Da PI: 9.2769

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC16589_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	42.1	1.5e-13	121	170	1	52
CHHHHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIk 52 ++ +hn+ Er RR+++N ++ Lr llP+ + +++Kls +++ +v+YI RrC16589_p1 121 KKLNHNASERDRRRKLNALYSSLRALLPPsD---QKRKLSIPMTVAGVVKYIP 170 6789***********************66...9999************6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	7.94E-11	120	177	No hit	No description
SuperFamily	SSF47459	1.83E-13	120	197	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	13.973	120	172	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.8E-11	121	191	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.1E-10	121	170	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.4E-8	126	178	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010106	Biological Process	cellular response to iron ion starvation
GO:0055072	Biological Process	iron ion homeostasis
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 300 aa Download sequence Send to blast
IDRFHLKFVL IIKVSLSHLL NFLSSSLLQI IERTIMCALT PMFPSYQQEW YSTSTMESPW 60 LDSFSPTLPS FLYPSLDQPD EFKNHNVILH PHHMNLAHIN GSNKNSNNDQ KGDERELVLE 120 KKLNHNASER DRRRKLNALY SSLRALLPPS DQKRKLSIPM TVAGVVKYIP EQKQELERLS 180 RRKEELMKTM SSKTATLSHQ QEQLKHRAMM DSIDSSPQKI AANWITDTEI AVQIATWKWA 240 SISDMLLRLE ENGLNVTSVS SSSVSSTARI FYTMHLQMRG DCKVRLEELS DMLFGLRQSY

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: 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: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	AK353050	1e-173	AK353050.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-13-G10.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018474933.1	1e-174	PREDICTED: transcription factor bHLH101
Swissprot	Q9FYE6	2e-95	BH101_ARATH; Transcription factor bHLH101
TrEMBL	A0A397ZRW4	1e-145	A0A397ZRW4_BRACM; Uncharacterized protein
STRING	Bo3g002630.1	1e-135	(Brassica oleracea)

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
AT5G04150.1	1e-85	bHLH family protein

Publications ? help Back to Top
Maurer F,Naranjo Arcos MA,Bauer P Responses of a triple mutant defective in three iron deficiency-induced Basic Helix-Loop-Helix genes of the subgroup Ib(2) to iron deficiency and salicylic acid. PLoS ONE, 2014. 9(6): p. e99234 [PMID:24919188] Martínez-Trujillo M, et al. Chromate alters root system architecture and activates expression of genes involved in iron homeostasis and signaling in Arabidopsis thaliana. Plant Mol. Biol., 2014. 86(1-2): p. 35-50 [PMID:24928490] 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] Van Dingenen J, et al. Strobilurins as growth-promoting compounds: how Stroby regulates Arabidopsis leaf growth. Plant Cell Environ., 2017. 40(9): p. 1748-1760 [PMID:28444690] 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]