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

Csa04g055660.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 777aa MW: 87588.4 Da PI: 6.5121

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa04g055660.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	50.7	3.3e-16	62	114	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 r+ +hn+ Er RR++iN+ f+ Lr++lP+ + +sk ls ++++ +A +YI +Lq Csa04g055660.1 62 RKLNHNASERDRRKKINTMFSSLRSCLPPnN---QSKQLSVSATVSQALKYIPELQ 114 6889***********************44...8888*************998 PP
2	HLH	50.7	3.3e-16	285	337	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 r+ +hn+ Er RR++iN+ f+ Lr++lP+ + +sk ls ++++ +A +YI +Lq Csa04g055660.1 285 RKLNHNASERDRRKKINTMFSSLRSCLPPnN---QSKQLSVSATVSQALKYIPELQ 337 6889***********************44...8888*************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	3.38E-14	60	117	No hit	No description
PROSITE profile	PS50888	15.085	61	113	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	4.45E-17	62	132	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	2.6E-14	62	129	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.0E-13	62	114	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.7E-14	67	119	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	3.38E-14	283	340	No hit	No description
PROSITE profile	PS50888	15.085	284	336	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	2.6E-14	285	352	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	4.45E-17	285	355	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.0E-13	285	337	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.7E-14	290	342	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: 777 aa Download sequence Send to blast
MCALVPPLYP NFGWPYGDHS LYEIDDATNT FLDFPLPDLT VAHENVLSEK RRILLDNPVV 60 MRKLNHNASE RDRRKKINTM FSSLRSCLPP NNQSKQLSVS ATVSQALKYI PELQEQVKKL 120 MKKKEELSFQ ISGPRDLVYT EQNGKPEKGV TSYASTVSAT RLGETEVMVQ ISSLHTCNCS 180 FGNVLNGVEE DGLVLVDASS SRSQGERLFY TLHLWMDNCK LNSEELSDRL LYLYEKCGNS 240 YHSLYEIDDA TNTFLDFPLP DLTVAHENVL SEKRRILLDN PVVMRKLNHN ASERDRRKKI 300 NTMFSSLRSC LPPNNQSKQL SVSATVSQAL KYIPELQEQV KKLMKKKEEL SFQISGPRDL 360 VYTEQNGKPE KGVTSYASTV SATRLGETEV MVQISSLHTC NCSFGNVLNG VEEDGLVLVD 420 ASSSRSQGER LFYTLHLWMD NCKLNSEELS DRLLYLYEKC GNSLILIRIK QLSVSATVSQ 480 ALKYIPELQE QVKKLMKKKE ELSFQISGPR DLVYTEQNGK PEKGVTSYAS TVSATRLGET 540 EVMVQISSLH TCNCSFGNVL NGVEEDGLVL VDASSSRSQG ERLFYTLHLW MDNCKLNSEE 600 LSDRLLYLYE KCGNSFCDFL KKKNXLLQKQ LSVSATVSQA LKYIPELQEQ VKKLMKKKEE 660 LSFQISGPRD LVYTEQNGKP EKGVTSYAST VSATRLGETE VMVQISSLHT CNCSFGNVLN 720 GVEEDGLVLV DASSSRSQGE RLFYTLHLWM DNCKLNSEEL SDRLLYLYEK CGNSCK*

Sequence ? help Back to Top

Protein Sequence Length: 777 aa Download sequence Send to blast

MCALVPPLYP NFGWPYGDHS LYEIDDATNT FLDFPLPDLT VAHENVLSEK RRILLDNPVV  60
MRKLNHNASE RDRRKKINTM FSSLRSCLPP NNQSKQLSVS ATVSQALKYI PELQEQVKKL  120
MKKKEELSFQ ISGPRDLVYT EQNGKPEKGV TSYASTVSAT RLGETEVMVQ ISSLHTCNCS  180
FGNVLNGVEE DGLVLVDASS SRSQGERLFY TLHLWMDNCK LNSEELSDRL LYLYEKCGNS  240
YHSLYEIDDA TNTFLDFPLP DLTVAHENVL SEKRRILLDN PVVMRKLNHN ASERDRRKKI  300
NTMFSSLRSC LPPNNQSKQL SVSATVSQAL KYIPELQEQV KKLMKKKEEL SFQISGPRDL  360
VYTEQNGKPE KGVTSYASTV SATRLGETEV MVQISSLHTC NCSFGNVLNG VEEDGLVLVD  420
ASSSRSQGER LFYTLHLWMD NCKLNSEELS DRLLYLYEKC GNSLILIRIK QLSVSATVSQ  480
ALKYIPELQE QVKKLMKKKE ELSFQISGPR DLVYTEQNGK PEKGVTSYAS TVSATRLGET  540
EVMVQISSLH TCNCSFGNVL NGVEEDGLVL VDASSSRSQG ERLFYTLHLW MDNCKLNSEE  600
LSDRLLYLYE KCGNSFCDFL KKKNXLLQKQ LSVSATVSQA LKYIPELQEQ VKKLMKKKEE  660
LSFQISGPRD LVYTEQNGKP EKGVTSYAST VSATRLGETE VMVQISSLHT CNCSFGNVLN  720
GVEEDGLVLV DASSSRSQGE RLFYTLHLWM DNCKLNSEEL SDRLLYLYEK CGNSCK*

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	Csa04g055660.1

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB493585	0.0	AB493585.1 Arabidopsis thaliana At2g41240 mRNA for hypothetical protein, partial cds, clone: RAAt2g41240.
GenBank	AY074635	0.0	AY074635.1 Arabidopsis thaliana At2g41240/F13H10.21 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010507675.1	1e-164	PREDICTED: transcription factor bHLH100-like
Refseq	XP_010507676.1	1e-164	PREDICTED: transcription factor bHLH100-like
Swissprot	Q9ZVB5	1e-134	BH100_ARATH; Transcription factor bHLH100
TrEMBL	R0HUL7	1e-141	R0HUL7_9BRAS; Uncharacterized protein
STRING	XP_010507675.1	1e-164	(Camelina sativa)
STRING	XP_010507676.1	1e-164	(Camelina sativa)

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-136	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]