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

XP_009141976.1

Organism

Brassica rapa

Taxonomic ID

3711

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: 238aa MW: 26562.2 Da PI: 6.901

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009141976.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	56.5	4.9e-18	63	115	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 ++ +hn+ Er RR++iN f+ Lr++lP+ + +skKls ++++ +A eYI +Lq XP_009141976.1 63 KKLNHNASERGRRKKINAMFSALRSCLPStN---QSKKLSVSATVSQALEYIPELQ 115 6789***********************66...*****************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	9.96E-16	61	117	No hit	No description
PROSITE profile	PS50888	15.002	62	114	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.8E-15	63	131	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.7E-15	63	115	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	2.09E-18	63	133	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.6E-12	68	120	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: 238 aa Download sequence Send to blast
MCALVPPLFP NFGWPCGDQG FYVNDDVANT FLDFPLPDLE VAHQNVSSER HRTSGLENPV 60 VMKKLNHNAS ERGRRKKINA MFSALRSCLP STNQSKKLSV SATVSQALEY IPELQEQFNM 120 LIKKKDELSF RISGQKDLLN TNQNAKPEKG VTGYASTVSA TNLGETGLMV QISSLQTVKC 180 SFGNVLSGLE EDGLVLVDAS SSRSQGERLF YTLHLQMDNC NLNFEELRSR LLYLYEKC

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed constitutively in roots, leaves, and stems. {ECO:0000269\|PubMed:12679534}.

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009141976.1

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_009141976.1	1e-178	PREDICTED: transcription factor bHLH100
Swissprot	Q9ZVB5	1e-129	BH100_ARATH; Transcription factor bHLH100
TrEMBL	M4DKB7	1e-177	M4DKB7_BRARP; Uncharacterized protein
STRING	Bra016946.1-P	1e-177	(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-122	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]