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

324207

Common Name

ARALYDRAFT_324207, ORG3

Organism

Arabidopsis lyrata

Taxonomic ID

81972

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 259aa MW: 28994.8 Da PI: 6.7869

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
324207	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	50.1	5e-16	76	128	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 ++ +hn+ Er RR++iNs f+ Lr++lP + +skKls +++ + +YI +Lq 324207 76 KKLNHNASERDRRKKINSLFSSLRSCLPAsD---QSKKLSIPATVSRSLKYIPELQ 128 6789***********************66...*****************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	14.659	75	127	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.44E-16	76	145	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.5E-13	76	128	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	5.97E-15	76	131	No hit	No description
Gene3D	G3DSA:4.10.280.10	1.2E-14	76	141	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.0E-12	81	133	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: 259 aa Download sequence Send to blast
MCALVPPLFP NFGWPSTGEY DSYYLAGDIL NNGAFLDFPV PEETYGAVTA VTHHQSFGVS 60 ASSEGNEIDN NPVVVKKLNH NASERDRRKK INSLFSSLRS CLPASDQSKK LSIPATVSRS 120 LKYIPELQEQ VKKLIKKKEE LLVQVSGQRN IEHYVKPQPK AVASYISTVS ATRLGDNEVM 180 VQISSSKIHN FSISNVLSGL EEDGFVLVDI SSSRSQGERL FYTFHLQMDK IENYKLNCEE 240 LSQRMLYLYE ECGNSFRL*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	324207

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by OBP3, auxin and salicylic acid (SA). Repressed by jasmonic acid (JA). 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: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	AF488577	0.0	AF488577.1 Arabidopsis thaliana clone bHLH039 putative bHLH transcription factor mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002878123.1	0.0	transcription factor ORG3
Swissprot	Q9M1K0	1e-166	ORG3_ARATH; Transcription factor ORG3
TrEMBL	D7LVM1	0.0	D7LVM1_ARALL; OBP3-responsive gene 3
STRING	fgenesh1_pm.C_scaffold_5001751	0.0	(Arabidopsis lyrata)

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
AT3G56980.1	1e-161	bHLH family protein

Link Out ? help Back to Top
Phytozome	324207
Entrez Gene	9314191

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] 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] 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] Naranjo-Arcos MA, et al. Dissection of iron signaling and iron accumulation by overexpression of subgroup Ib bHLH039 protein. Sci Rep, 2017. 7(1): p. 10911 [PMID:28883478] 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] Omidbakhshfard MA, et al. GROWTH-REGULATING FACTOR 9 negatively regulates arabidopsis leaf growth by controlling ORG3 and restricting cell proliferation in leaf primordia. PLoS Genet., 2018. 14(7): p. e1007484 [PMID:29985961]