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.001G314400.1

Common Name

POPTR_0001s32160g

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: 410aa MW: 46164.8 Da PI: 4.729

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.001G314400.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	38.1	2.9e-12	210	261	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +r++h ++Er+RR+++N+ + Lr+l+P + + ++ + a+i A+e++++L+ Potri.001G314400.1 210 QRMTHIAVERNRRKQMNEHLRVLRSLMPGS---YVQRGDQASIIGGAIEFVRELE 261 79**************************...9***************9995 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	1.05E-12	208	265	No hit	No description
Gene3D	G3DSA:4.10.280.10	1.4E-13	208	264	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.428	209	260	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.31E-16	209	278	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.3E-9	210	261	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	3.4E-9	215	266	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS51671	8.872	335	409	IPR002912	ACT domain
SuperFamily	SSF55021	3.75E-5	335	399	No hit	No description
CDD	cd04873	7.44E-4	335	399	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010377	Biological Process	guard cell fate commitment
GO:0045597	Biological Process	positive regulation of cell differentiation
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0051782	Biological Process	negative regulation of cell division
GO:0005634	Cellular Component	nucleus
GO:0016597	Molecular Function	amino acid binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 410 aa Download sequence Send to blast
MDKEENYSGS FTELDYSLDH HHQQQDHLGL MKQRIGGTSG DDDCNNGMID YMLNNPQQHQ 60 QQMSSGFCTS TSFDKLSFAD VMQFADFGPK LALNQNKISE EETGIDPVYF LKFPVLNDKI 120 EEQSIRVPQL GGENIEEMFT GVSSGENRAG MVGEERGIGE DEEARISDNN SVQLQFLGDQ 180 DLQNKNPIPE AKNKRKRPRT IKTSEEVESQ RMTHIAVERN RRKQMNEHLR VLRSLMPGSY 240 VQRGDQASII GGAIEFVREL EQLLQCLESQ KRRRLMDDSS LAIQQPAQPA FFSPMPLPND 300 QMKLVDFETG LREETAENKS CLADVEVKLL GFDAMIKILS RRRPGQLIKA IAALEDLQLN 360 ILHTNITTID QTVLYSFNVK IASDSGFTAE DIASSVQQIF NFIHANSSI*

Sequence ? help Back to Top

Protein Sequence Length: 410 aa Download sequence Send to blast

MDKEENYSGS FTELDYSLDH HHQQQDHLGL MKQRIGGTSG DDDCNNGMID YMLNNPQQHQ  60
QQMSSGFCTS TSFDKLSFAD VMQFADFGPK LALNQNKISE EETGIDPVYF LKFPVLNDKI  120
EEQSIRVPQL GGENIEEMFT GVSSGENRAG MVGEERGIGE DEEARISDNN SVQLQFLGDQ  180
DLQNKNPIPE AKNKRKRPRT IKTSEEVESQ RMTHIAVERN RRKQMNEHLR VLRSLMPGSY  240
VQRGDQASII GGAIEFVREL EQLLQCLESQ KRRRLMDDSS LAIQQPAQPA FFSPMPLPND  300
QMKLVDFETG LREETAENKS CLADVEVKLL GFDAMIKILS RRRPGQLIKA IAALEDLQLN  360
ILHTNITTID QTVLYSFNVK IASDSGFTAE DIASSVQQIF NFIHANSSI*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	210	221	RMTHIAVERNRR
2	270	274	KRRRL

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Not expressed in meristemoids, but strongly expressed in guard mother cells (GMCs) and in young guard cells (at protein level) (PubMed:17088607). Expressed at the transition to terminal stomatal differentiation, just before and after the symmetric division of stomatal differentiation, being confined to late-stage GMC and to young, still differentiating guard cells (PubMed:24571519). {ECO:0000269\|PubMed:17088607, ECO:0000269\|PubMed:24571519}.
Uniprot	TISSUE SPECIFICITY: Resctricted to stomatal cell lineages (at protein level). Expressed in roots, leaves, stems, and flowers. {ECO:0000269\|PubMed:12679534, ECO:0000269\|PubMed:17088607}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription activator (PubMed:17088607, PubMed:17183265, PubMed:17183267). Together with MYB88 and MYB124, ensures that stomata contain just two guard cells (GCs) by enforcing a single symmetric precursor cell division before stomatal maturity (PubMed:24571519). Together with SPCH and MUTE, regulates the stomata formation. Required to promote differentiation and morphogenesis of stomatal guard cells and to halt proliferative divisions in their immediate precursors. Mediates the formation of stomata (PubMed:17088607, PubMed:17183265, PubMed:17183267). Prevents histone H3K27me3 marks and derepresses stem cell gene expression (PubMed:24654956). {ECO:0000269\|PubMed:17088607, ECO:0000269\|PubMed:17183265, ECO:0000269\|PubMed:17183267, ECO:0000269\|PubMed:24571519, ECO:0000269\|PubMed:24654956}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Potri.001G314400.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Inhibited by low relative humidity (LRH) via epigenetic CG methylation, thus leading to a reduced stomatal index. {ECO:0000269\|PubMed:22442411}.

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_002300174.2	0.0	transcription factor FAMA isoform X2
Swissprot	Q56YJ8	1e-147	FAMA_ARATH; Transcription factor FAMA
TrEMBL	B9GFX7	0.0	B9GFX7_POPTR; Uncharacterized protein
STRING	POPTR_0001s32160.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF10489	33	40
Representative plant	OGRP253	15	131

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G24140.1	1e-138	bHLH family protein

Link Out ? help Back to Top
Phytozome	Potri.001G314400.1
Entrez Gene	7461668

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] Matos JL, et al. Irreversible fate commitment in the Arabidopsis stomatal lineage requires a FAMA and RETINOBLASTOMA-RELATED module. Elife, 2015. [PMID:25303364] Chen L, et al. NRPB3, the third largest subunit of RNA polymerase II, is essential for stomatal patterning and differentiation in Arabidopsis. Development, 2016. 143(9): p. 1600-11 [PMID:26989174] Lee JH,Jung JH,Park CM Light Inhibits COP1-Mediated Degradation of ICE Transcription Factors to Induce Stomatal Development in Arabidopsis. Plant Cell, 2017. 29(11): p. 2817-2830 [PMID:29070509] Han X, et al. Jasmonate Negatively Regulates Stomatal Development in Arabidopsis Cotyledons. Plant Physiol., 2018. 176(4): p. 2871-2885 [PMID:29496884] Li X,Yang R,Chen H The Arabidopsis thaliana Mediator subunit MED8 regulates plant immunity to Botrytis Cinerea through interacting with the basic helix-loop-helix (bHLH) transcription factor FAMA. PLoS ONE, 2018. 13(3): p. e0193458 [PMID:29513733]