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

RrC12416_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: 239aa MW: 26769.3 Da PI: 6.1253

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC12416_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	58.8	9.4e-19	64	116	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 ++ +hn+ Er RR++iNs f+ Lr++lP+ + +skKls ++++ +A eYI +Lq RrC12416_p1 64 KKLNHNASERGRRKKINSMFSALRSCLPStD---KSKKLSVSATVSQALEYIPELQ 116 6789***********************77...*****************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	1.43E-16	63	119	No hit	No description
PROSITE profile	PS50888	15.116	63	115	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	3.3E-16	64	116	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.18E-18	64	135	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	2.6E-16	64	132	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	3.3E-14	69	121	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009414	Biological Process	response to water deprivation
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: 239 aa Download sequence Send to blast
MCALVPPLFP NFGWPCGDQG FYVNDDIANT FLDFPLPDLD VDHQNASSER HRTLGLVNNP 60 VLMKKLNHNA SERGRRKKIN SMFSALRSCL PSTDKSKKLS VSATVSQALE YIPELQEQVN 120 MLIKKKDELS FQISGQKDLL NTNQNGNPEK GDTRYASTVS ATRIGETGLM VQISSLQTVK 180 CSFGNLLSGI EEDGLVLVDA SSSRSQGERL FYTMHFQMDN CNLNFEELSS RLLYLYEKC

Functional Description ? help Back to Top
Source	Description
UniProt	Plays a role in metal homeostasis. Confers tolerance to high zinc (Zn) and nickel (Ni). {ECO:0000269\|PubMed:18088336}.

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 heat treatment, high iron, low copper and low zinc treatments. {ECO:0000269\|PubMed:12679534, ECO:0000269\|PubMed:17516080, ECO:0000269\|PubMed:18088336}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018482009.1	1e-179	PREDICTED: transcription factor bHLH100 isoform X1
Swissprot	Q9ZVB5	1e-126	BH100_ARATH; Transcription factor bHLH100
TrEMBL	A0A078FR01	1e-160	A0A078FR01_BRANA; BnaC04g47550D protein
STRING	Bra016946.1-P	1e-159	(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
AT2G41240.1	1e-109	basic helix-loop-helix protein 100

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] 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] Wang C,Yao X,Yu D,Liang G Fe-deficiency-induced expression of bHLH104 enhances Fe-deficiency tolerance of Arabidopsis thaliana. Planta, 2017. 246(3): p. 421-431 [PMID:28451750] 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]