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

RrC7292_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: 251aa MW: 28227.1 Da PI: 7.3397

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC7292_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	36.4	9.2e-12	68	111	7	55
HHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 + ErrRR+r+++++ Lr+l+P+ +K++Ka+i+ Av Y+++Lq RrC7292_p1 68 ISERRRRSRMKDKLYALRSLVPNI-----TKMDKASIVGDAVLYVQELQ 111 57*******************7.....7****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	15.301	61	110	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	9.68E-16	64	127	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.8E-14	67	116	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.34E-12	68	113	No hit	No description
Gene3D	G3DSA:4.10.280.10	9.6E-17	68	130	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	3.0E-9	68	111	IPR011598	Myc-type, basic helix-loop-helix (bHLH) 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: 251 aa Download sequence Send to blast
MERRVNALSN LNDLEVYNFL VDPNFDQLIN FIRGDDQAIE NPPLDFDLGG HLQNNSCFID 60 QNQSRTLISE RRRRSRMKDK LYALRSLVPN ITKMDKASIV GDAVLYVQEL QSQAKKLKAD 120 IAGLEASLNS TGGYQEPAPD AHKIQTFQSI KPPSKNIIEM DVIQVEEKGF YVRLVCNKGV 180 GVAPSLYKSL ESLTSFQVQN SNLSSPSPDR YLLTYALDGT CFKQSLNLPN LKLWITGSLL 240 NQGFEFAKTF T

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor. Essential protein involved in iron uptake responses. Regulates FRO2 at the level of mRNA accumulation and IRT1 at the level of protein accumulation. Confers enhanced iron mobilization responses at low iron supply. {ECO:0000269\|PubMed:15539473, ECO:0000269\|PubMed:15556641, ECO:0000269\|PubMed:16117851}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: In roots by iron deficiency. Repressed by cytokinins. Induced by cold, UV, ethylene (ACC), jasmonic acid (JA), flagellin, and salicylic acid (SA) treatments. {ECO:0000269\|PubMed:12679534, ECO:0000269\|PubMed:15531708, ECO:0000269\|PubMed:15539473, ECO:0000269\|PubMed:15556641, ECO:0000269\|PubMed:18397377}.

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	AB493568	1e-168	AB493568.1 Arabidopsis thaliana At2g28160 mRNA for hypothetical protein, partial cds, clone: RAAt2g28160.
GenBank	BT026446	1e-168	BT026446.1 Arabidopsis thaliana At2g28160 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013747064.1	1e-141	transcription factor FER-LIKE IRON DEFICIENCY-INDUCED TRANSCRIPTION FACTOR
Swissprot	Q0V7X4	1e-119	FIT_ARATH; Transcription factor FER-LIKE IRON DEFICIENCY-INDUCED TRANSCRIPTION FACTOR
TrEMBL	A0A397ZT21	1e-143	A0A397ZT21_BRACM; Uncharacterized protein
STRING	Bo4g165090.1	1e-126	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4187	28	57

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G28160.1	1e-111	FER-like regulator of iron uptake

Publications ? help Back to Top
Schmid NB, et al. Feruloyl-CoA 6'-Hydroxylase1-dependent coumarins mediate iron acquisition from alkaline substrates in Arabidopsis. Plant Physiol., 2014. 164(1): p. 160-72 [PMID:24246380] Doustaly F, et al. Uranium perturbs signaling and iron uptake response in Arabidopsis thaliana roots. Metallomics, 2014. 6(4): p. 809-21 [PMID:24549117] Le CT, et al. ZINC FINGER OF ARABIDOPSIS THALIANA12 (ZAT12) Interacts with FER-LIKE IRON DEFICIENCY-INDUCED TRANSCRIPTION FACTOR (FIT) Linking Iron Deficiency and Oxidative Stress Responses. Plant Physiol., 2016. 170(1): p. 540-57 [PMID:26556796] Yang L, et al. Carbon Monoxide Interacts with Auxin and Nitric Oxide to Cope with Iron Deficiency in Arabidopsis. Front Plant Sci, 2016. 7: p. 112 [PMID:27014280] Zhou C, et al. Paenibacillus polymyxa BFKC01 enhances plant iron absorption via improved root systems and activated iron acquisition mechanisms. Plant Physiol. Biochem., 2016. 105: p. 162-173 [PMID:27105423] Mai HJ,Pateyron S,Bauer P Iron homeostasis in Arabidopsis thaliana: transcriptomic analyses reveal novel FIT-regulated genes, iron deficiency marker genes and functional gene networks. BMC Plant Biol., 2016. 16(1): p. 211 [PMID:27716045] Zhou C, et al. Exogenous Melatonin Improves Plant Iron Deficiency Tolerance via Increased Accumulation of Polyamine-Mediated Nitric Oxide. Int J Mol Sci, 2017. [PMID:27792144] 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] Cui Y, et al. Four IVa bHLH Transcription Factors Are Novel Interactors of FIT and Mediate JA Inhibition of Iron Uptake in Arabidopsis. Mol Plant, 2018. 11(9): p. 1166-1183 [PMID:29960107]