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

Potri.T107900.1

Organism

Populus trichocarpa

Taxonomic ID

3694

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

bHLH

Protein Properties

Length: 199aa MW: 23046.2 Da PI: 6.5115

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.T107900.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	26.2	1.4e-08	122	162	9	54
HHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS HLH 9 ErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 r RR+ri +++ L++l+P +K++ a++L +A++Y+k L Potri.T107900.1 122 ARLRRERISEKIRILQRLVPGG-----RKMDTASMLDEAIRYVKFL 162 699***************96.....7**************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	14.964	113	162	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.8E-12	119	168	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	3.93E-14	119	175	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	8.09E-11	119	167	No hit	No description
Gene3D	G3DSA:4.10.280.10	9.8E-13	120	175	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	6.6E-6	123	162	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: 199 aa Download sequence Send to blast
MNINQTEFTN HTWNLHVSME DQILHHDRLP FVSICPSYPL QLQQTPIPAP NQVSLPTFLS 60 HDQIGNSTDE AVQDEPEEEL GAMKEMMYRV AAMQPVDIDP VTIHKPKRKN VRISDDPQSV 120 AARLRRERIS EKIRILQRLV PGGRKMDTAS MLDEAIRYVK FLKRQIRSLQ PNHQHQPCNT 180 NGDWQVVYED FYGIFEVY*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	122	127	RLRRER

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: After fertilization, it is expressed in stripes about four cells wide at the margins of developing wild-type fruit. Also expressed in the inner valve layer, which becomes lignified later in fruit development. Detected in roots. {ECO:0000269\|PubMed:12679534, ECO:0000269\|PubMed:15035986}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription regulator required for seed dispersal. Involved in the differentiation of all three cell types required for fruit dehiscence. Acts as the key regulator in a network including SHP and ALC that controls specification of the valve margin. Works with ALC, SHP, and FUL to allow differentiation of the lignified valve layer, the spring-loaded mechanism of fruit that promotes opening. Regulates the expression of the YJ80 marker. {ECO:0000269\|PubMed:15035986}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Potri.T107900.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By FUL, which restrict its expression to the margins.

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	AC213493	0.0	AC213493.1 Populus trichocarpa clone POP014-L13, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024460686.1	1e-137	transcription factor HEC3-like
Swissprot	O81313	6e-45	IND_ARATH; Transcription factor IND
TrEMBL	A0A3N7FH51	1e-137	A0A3N7FH51_POPTR; Uncharacterized protein
STRING	POPTR_0005s06220.1	2e-93	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF651	34	141
Representative plant	OGRP761	15	68

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G00120.1	3e-47	bHLH family protein

Link Out ? help Back to Top
Phytozome	Potri.T107900.1

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] Pabón-Mora N,Wong GK,Ambrose BA Evolution of fruit development genes in flowering plants. Front Plant Sci, 2014. 5: p. 300 [PMID:25018763] Moubayidin L,Ostergaard L Dynamic control of auxin distribution imposes a bilateral-to-radial symmetry switch during gynoecium development. Curr. Biol., 2014. 24(22): p. 2743-8 [PMID:25455035] Jaradat MR,Ruegger M,Bowling A,Butler H,Cutler AJ A comprehensive transcriptome analysis of silique development and dehiscence in Arabidopsis and Brassica integrating genotypic, interspecies and developmental comparisons. GM Crops Food, 2014. 5(4): p. 302-20 [PMID:25523176] van Gelderen K,van Rongen M,Liu A,Otten A,Offringa R An INDEHISCENT-Controlled Auxin Response Specifies the Separation Layer in Early Arabidopsis Fruit. Mol Plant, 2016. 9(6): p. 857-69 [PMID:26995296] Balanzà V,Roig-Villanova I,Di Marzo M,Masiero S,Colombo L Seed abscission and fruit dehiscence required for seed dispersal rely on similar genetic networks. Development, 2016. 143(18): p. 3372-81 [PMID:27510967] Pfannebecker KC,Lange M,Rupp O,Becker A Seed Plant-Specific Gene Lineages Involved in Carpel Development. Mol. Biol. Evol., 2017. 34(4): p. 925-942 [PMID:28087776] He H, et al. CELLULASE6 and MANNANASE7 Affect Cell Differentiation and Silique Dehiscence. Plant Physiol., 2018. 176(3): p. 2186-2201 [PMID:29348141] Simonini S,Stephenson P,Østergaard L A molecular framework controlling style morphology in Brassicaceae. Development, 2018. [PMID:29440299] Li XR,Deb J,Kumar SV,Østergaard L Temperature Modulates Tissue-Specification Program to Control Fruit Dehiscence in Brassicaceae. Mol Plant, 2018. 11(4): p. 598-606 [PMID:29449088]