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

Ciclev10030052m

Common Name

CICLE_v10030052mg

Organism

Citrus clementina

Taxonomic ID

85681

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus

Family

bHLH

Protein Properties

Length: 314aa MW: 34920.4 Da PI: 4.7326

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10030052m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	30.3	7.4e-10	130	172	8	55
HHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS HLH 8 rErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 Er+RR ++++++ Lr l+P+ + K++Ka+i Av Y+++Lq Ciclev10030052m 130 SERKRRGKMKEKLYGLRALVPNiS------KMDKASIIGDAVSYLQELQ 172 6*******************66......****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	3.14E-17	120	188	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	5.91E-12	120	176	No hit	No description
PROSITE profile	PS50888	15.04	122	171	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.2E-16	124	188	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.2E-12	128	177	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.6E-7	130	172	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0034756	Biological Process	regulation of iron ion transport
GO:0071281	Biological Process	cellular response to iron ion
GO:0071369	Biological Process	cellular response to ethylene stimulus
GO:0071732	Biological Process	cellular response to nitric oxide
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 314 aa Download sequence Send to blast
MDEFGNPLTL HAFIDDPNFD QFIDLIRGEN EDPLASFDCD LINGCFADTQ FIGSAQDDVF 60 GHFNGTAAGT MVSDDLTFVL NSSFPDLDGD MKGEHREEEN NGDDSSGATR TATTASTRNK 120 KADRSRTLVS ERKRRGKMKE KLYGLRALVP NISKMDKASI IGDAVSYLQE LQMQVRKLKA 180 EIASLEYSMA GSEKNQEPIQ KPKKTQVLSG NLQPICKKIM QIDVFQVEER RFYLRLVSSG 240 GQGVAVSLYK ALESLTSFDV QNFNFATEPE RLVLTFNLNV KDCEQNMNLP NLRLWVTGAL 300 LNQGFDVVTP FST*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots and inflorescence, and to a lower extent, in leaves and stems. In roots, confined to the outer cell layers, specifically in the differentiation zone. Also detected in the endodermis and inner tissues of the central cylinder. {ECO:0000269\|PubMed:12679534, ECO:0000269\|PubMed:15539473, ECO:0000269\|PubMed:15556641}.

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006424447.1	0.0	transcription factor FER-LIKE IRON DEFICIENCY-INDUCED TRANSCRIPTION FACTOR
Swissprot	Q0V7X4	2e-94	FIT_ARATH; Transcription factor FER-LIKE IRON DEFICIENCY-INDUCED TRANSCRIPTION FACTOR
TrEMBL	A0A2H5Q259	0.0	A0A2H5Q259_CITUN; Uncharacterized protein
TrEMBL	V4SB32	0.0	V4SB32_9ROSI; Uncharacterized protein
STRING	XP_006424447.1	0.0	(Citrus clementina)

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	7e-92	FER-like regulator of iron uptake

Link Out ? help Back to Top
Phytozome	Ciclev10030052m
Entrez Gene	18034799

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]