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

AT1G74500.1

Common Name

ATBS1, bHLH135, BS1, EN67, F1M20.18, PRE3, TMO7

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 93aa MW: 10580.9 Da PI: 9.3967

Description

activation-tagged BRI1(brassinosteroid-insensitive 1)-suppressor 1

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT1G74500.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	29.9	1e-09	20	61	14	54
HHHHHHHHHHHCTSCCC....TTS-STCHHHHHHHHHHHHHH CS HLH 14 driNsafeeLrellPkas.kapskKlsKaeiLekAveYIksL 54 d+iN+ + +L++llP++ + +s K+s a +L+ +++YI++L AT1G74500.1 20 DQINDLIIKLQQLLPELRdSRRSDKVSAARVLQDTCNYIRNL 61 79************55599*****************99 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	11.712	6	61	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.96E-10	20	79	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.8E-9	20	75	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	4.74E-5	20	65	No hit	No description
Pfam	PF00010	4.6E-7	20	61	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009740	Biological Process	gibberellic acid mediated signaling pathway
GO:0009742	Biological Process	brassinosteroid mediated signaling pathway
GO:0010086	Biological Process	embryonic root morphogenesis
GO:0040008	Biological Process	regulation of growth
GO:0005634	Cellular Component	nucleus
GO:0005737	Cellular Component	cytoplasm
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0005515	Molecular Function	protein binding
GO:0046983	Molecular Function	protein dimerization activity

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000045	anatomy	embryo root
PO:0009005	anatomy	root
PO:0020109	anatomy	embryo hypophysis
PO:0001185	developmental stage	plant embryo globular stage

Sequence ? help Back to Top
Protein Sequence Length: 93 aa Download sequence Send to blast
MSGRRSRSRQ SSGTSRISED QINDLIIKLQ QLLPELRDSR RSDKVSAARV LQDTCNYIRN 60 LHREVDDLSE RLSELLANSD TAQAALIRSL LTQ

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.43100	1e-159	root

Expression -- Microarray ? help Back to Top
Source	ID	E-value
Genevisible	260230_at	1e-153
Expression Atlas	AT1G74500	-
AtGenExpress	AT1G74500	-
ATTED-II	AT1G74500	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: At the globular stage, expressed in cells adjacent to the hypophysis and at later embryonic stages, restricted to the future root stem cells. {ECO:0000269\|PubMed:20220754}.
Uniprot	TISSUE SPECIFICITY: Expressed in root and shoot meristems, and young siliques. Low levels detected in all aerial tissues. {ECO:0000269\|PubMed:16527868, ECO:0000269\|PubMed:20023194, ECO:0000269\|PubMed:22339648}.

Functional Description ? help Back to Top
Source	Description
TAIR	Encodes a basic helixloophelix transcription factor that acts downstream of MP in root initiation. TMO7 protein moves to the hypophysis and to vascular cells, contributing to MP-dependent root formation. Promotes the correct definition of the hypophysis cell division plane.
UniProt	Atypical and probable non DNA-binding bHLH transcription factor required for MONOPTEROS-dependent root initiation in embryo. Promotes the correct definition of the hypophysis cell division plane. Transcriptionally controlled by MONOPTEROS. Moves from its site of synthesis in pro-embryos cells into the hypophysis. Regulates brassinosteroid (BR) signaling by sequestering negative BR signaling components. May function as positive regulator of gibberellin signaling. May play a role in the regulation of light signaling and possibly auxin signaling. {ECO:0000269\|PubMed:16527868, ECO:0000269\|PubMed:20023194, ECO:0000269\|PubMed:20220754, ECO:0000269\|PubMed:22339648}.

Function -- GeneRIF ? help Back to Top
Plants use atypical Basic helix-loop-helix (bHLH) proteins to regulate BR signaling. [ATBS1] [PMID: 20023194] TARGET OF MP, TMO5 and TMO7 encode basic helix-loop-helix (bHLH) transcription factors that are expressed in the hypophysis-adjacent embryo cells, and are required and partially sufficient for MONOPTEROS-dependent root initiation. [TMO7] [PMID: 20220754] TMO7 is involved in the regulation of light signaling. [PMID: 22339648] In the post-embryonic root, TMO7 and its close relatives are transported into the root cap through plasmodesmata in a sequence-dependent manner. Nuclear residence is crucial for TMO7 transport, and we postulate that modification, potentially phosphorylation, labels TMO7 for transport. [PMID: 29358212] involved in the formation of new lateral roots from secondary growth taproot [PMID: 29450949]

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT1G74500.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Not induced by exogenous gibberellin. {ECO:0000269\|PubMed:16527868}.

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

Interaction ? help Back to Top
Source	Intact With
IntAct	Search Q9CA64

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT1G74500

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK227395	1e-156	AK227395.1 Arabidopsis thaliana mRNA for putative DNA-binding protein, complete cds, clone: RAFL14-05-N07.
GenBank	AY088286	1e-156	AY088286.1 Arabidopsis thaliana clone 519 mRNA, complete sequence.
GenBank	BT003046	1e-156	BT003046.1 Arabidopsis thaliana At1g74500 gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_177590.1	2e-58	activation-tagged BRI1(brassinosteroid-insensitive 1)-suppressor 1
Swissprot	Q9CA64	1e-59	PRE3_ARATH; Transcription factor PRE3
TrEMBL	A0A178WAL8	4e-57	A0A178WAL8_ARATH; TMO7
STRING	AT1G74500.1	7e-58	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM259	28	225
Representative plant	OGRP1877	12	40

Link Out ? help Back to Top
Phytozome	AT1G74500.1
Entrez Gene	843791
iHOP	AT1G74500
wikigenes	AT1G74500

Publications ? help Back to Top
Heim MA, et al. The basic helix-loop-helix transcription factor family in plants: a genome-wide study of protein structure and functional diversity. Mol. Biol. Evol., 2003. 20(5): p. 735-47 [PMID:12679534] Toledo-Ortiz G,Huq E,Quail PH The Arabidopsis basic/helix-loop-helix transcription factor family. Plant Cell, 2003. 15(8): p. 1749-70 [PMID:12897250] Yamada K, et al. Empirical analysis of transcriptional activity in the Arabidopsis genome. Science, 2003. 302(5646): p. 842-6 [PMID:14593172] Bailey PC, et al. Update on the basic helix-loop-helix transcription factor gene family in Arabidopsis thaliana. Plant Cell, 2003. 15(11): p. 2497-502 [PMID:14600211] Hoth S, et al. Monitoring genome-wide changes in gene expression in response to endogenous cytokinin reveals targets in Arabidopsis thaliana. FEBS Lett., 2003. 554(3): p. 373-80 [PMID:14623097] Czechowski T,Bari RP,Stitt M,Scheible WR,Udvardi MK Real-time RT-PCR profiling of over 1400 Arabidopsis transcription factors: unprecedented sensitivity reveals novel root- and shoot-specific genes. Plant J., 2004. 38(2): p. 366-79 [PMID:15078338] Wang XJ,Cao XL,Hong Y Isolation and characterization of flower-specific transcripts in Acacia mangium. Tree Physiol., 2005. 25(2): p. 167-78 [PMID:15574398] Branco-Price C,Kawaguchi R,Ferreira RB,Bailey-Serres J Genome-wide analysis of transcript abundance and translation in Arabidopsis seedlings subjected to oxygen deprivation. Ann. Bot., 2005. 96(4): p. 647-60 [PMID:16081496] Lee S, et al. Overexpression of PRE1 and its homologous genes activates Gibberellin-dependent responses in Arabidopsis thaliana. Plant Cell Physiol., 2006. 47(5): p. 591-600 [PMID:16527868] Hyun Y,Lee I KIDARI, encoding a non-DNA Binding bHLH protein, represses light signal transduction in Arabidopsis thaliana. Plant Mol. Biol., 2006. 61(1-2): p. 283-96 [PMID:16786307] Cao D,Cheng H,Wu W,Soo HM,Peng J Gibberellin mobilizes distinct DELLA-dependent transcriptomes to regulate seed germination and floral development in Arabidopsis. Plant Physiol., 2006. 142(2): p. 509-25 [PMID:16920880] Zhang LY, et al. Antagonistic HLH/bHLH transcription factors mediate brassinosteroid regulation of cell elongation and plant development in rice and Arabidopsis. Plant Cell, 2009. 21(12): p. 3767-80 [PMID:20009022] Wang H, et al. Regulation of Arabidopsis brassinosteroid signaling by atypical basic helix-loop-helix proteins. Plant Cell, 2009. 21(12): p. 3781-91 [PMID:20023194] 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] Schlereth A, et al. MONOPTEROS controls embryonic root initiation by regulating a mobile transcription factor. Nature, 2010. 464(7290): p. 913-6 [PMID:20220754] De Rybel B, et al. A versatile set of ligation-independent cloning vectors for functional studies in plants. Plant Physiol., 2011. 156(3): p. 1292-9 [PMID:21562332] Arabidopsis Interactome Mapping Consortium Evidence for network evolution in an Arabidopsis interactome map. Science, 2011. 333(6042): p. 601-7 [PMID:21798944] Koizumi K,Wu S,MacRae-Crerar A,Gallagher KL An essential protein that interacts with endosomes and promotes movement of the SHORT-ROOT transcription factor. Curr. Biol., 2011. 21(18): p. 1559-64 [PMID:21924907] Castelain M,Le Hir R,Bellini C The non-DNA-binding bHLH transcription factor PRE3/bHLH135/ATBS1/TMO7 is involved in the regulation of light signaling pathway in Arabidopsis. Physiol Plant, 2012. 145(3): p. 450-60 [PMID:22339648] Saiga S, et al. Control of embryonic meristem initiation in Arabidopsis by PHD-finger protein complexes. Development, 2012. 139(8): p. 1391-8 [PMID:22378640] Meinke DW A survey of dominant mutations in Arabidopsis thaliana. Trends Plant Sci., 2013. 18(2): p. 84-91 [PMID:22995285] Ikeda M,Fujiwara S,Mitsuda N,Ohme-Takagi M A triantagonistic basic helix-loop-helix system regulates cell elongation in Arabidopsis. Plant Cell, 2012. 24(11): p. 4483-97 [PMID:23161888] Ikeda M,Mitsuda N,Ohme-Takagi M ATBS1 INTERACTING FACTORs negatively regulate Arabidopsis cell elongation in the triantagonistic bHLH system. Plant Signal Behav, 2013. 8(3): p. e23448 [PMID:23333962] Ezer D, et al. The G-Box Transcriptional Regulatory Code in Arabidopsis. Plant Physiol., 2017. 175(2): p. 628-640 [PMID:28864470] Lu KJ,De Rybel B,van Mourik H,Weijers D Regulation of intercellular TARGET OF MONOPTEROS 7 protein transport in the Arabidopsis root. Development, 2018. [PMID:29358212] Baesso B, et al. Transcription factors PRE3 and WOX11 are involved in the formation of new lateral roots from secondary growth taproot in A. thaliana. Plant Biol (Stuttg), 2018. 20(3): p. 426-432 [PMID:29450949]