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

OGLUM05G29000.1

Organism

Oryza glumaepatula

Taxonomic ID

40148

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

bHLH

Protein Properties

Length: 513aa MW: 54578.3 Da PI: 6.1064

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OGLUM05G29000.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	40.4	5.4e-13	277	328	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +r++h ++Er+RR+++N+ + Lr+l+P + + ++ + a+i A+e+I++L+ OGLUM05G29000.1 277 QRMTHIAVERNRRRQMNEYLRVLRSLMPGS---YVQRGDQASIIGGAIEFIRELE 328 79**************************...9****************996 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.280.10	1.6E-13	275	331	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	3.91E-14	275	332	No hit	No description
PROSITE profile	PS50888	15.897	276	327	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	9.16E-17	276	345	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.3E-10	277	328	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.0E-9	282	333	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS51671	10.103	439	513	IPR002912	ACT domain
CDD	cd04873	0.0016	439	497	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: 513 aa Download sequence Send to blast
MGRKPACGDG PGRLLPLFRD HRLQAPHSHS HKGIEAAAAS SSFRPCALTQ GAAAAIFCAS 60 VAASPLLWSF ATAREHSSVQ FRNSYSLRLA TMHTYDVQQR SHLERFAALD EAPPPAPEET 120 VVTGGEMVDY MLGQPPPTTP GPQSQVSFDK LTFSDVLQFA DFGPKLALNQ PAASDNGGGG 180 GDDGDDDDDS YFLRFQSLPS LPAVPPPRGG AGAAHQVVDE QEGSKQTVDA GGVSESTTLV 240 QQADGGGGRA EKAGEQGKSG RRKRPRTVKT SEEVESQRMT HIAVERNRRR QMNEYLRVLR 300 SLMPGSYVQR GDQASIIGGA IEFIRELEQL IQCLESQKRR RLYGGDAPAP PARPVADGAV 360 LPAPMQQPPP ATPPFFPPSI PFPASSGAGD GTGAGVAKVA LDLDASGGGE VGGGVREEMA 420 ENKSCVADIE VRVVGVDAMI KILSRRRPGQ LIKTVAALEE MHMSILHTNI TTIDQTVLYS 480 FNVKIAGDAR FSAEDIAGAV HQILSFIDVN YTL

Sequence ? help Back to Top

Protein Sequence Length: 513 aa Download sequence Send to blast

MGRKPACGDG PGRLLPLFRD HRLQAPHSHS HKGIEAAAAS SSFRPCALTQ GAAAAIFCAS  60
VAASPLLWSF ATAREHSSVQ FRNSYSLRLA TMHTYDVQQR SHLERFAALD EAPPPAPEET  120
VVTGGEMVDY MLGQPPPTTP GPQSQVSFDK LTFSDVLQFA DFGPKLALNQ PAASDNGGGG  180
GDDGDDDDDS YFLRFQSLPS LPAVPPPRGG AGAAHQVVDE QEGSKQTVDA GGVSESTTLV  240
QQADGGGGRA EKAGEQGKSG RRKRPRTVKT SEEVESQRMT HIAVERNRRR QMNEYLRVLR  300
SLMPGSYVQR GDQASIIGGA IEFIRELEQL IQCLESQKRR RLYGGDAPAP PARPVADGAV  360
LPAPMQQPPP ATPPFFPPSI PFPASSGAGD GTGAGVAKVA LDLDASGGGE VGGGVREEMA  420
ENKSCVADIE VRVVGVDAMI KILSRRRPGQ LIKTVAALEE MHMSILHTNI TTIDQTVLYS  480
FNVKIAGDAR FSAEDIAGAV HQILSFIDVN YTL

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	277	288	RMTHIAVERNRR
2	337	341	KRRRL

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}.

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC137608	0.0	AC137608.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OSJNBa0009C07, complete sequence.
GenBank	AP014961	0.0	AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015638786.1	0.0	transcription factor FAMA
Swissprot	Q56YJ8	1e-108	FAMA_ARATH; Transcription factor FAMA
TrEMBL	A0A0E0A3F1	0.0	A0A0E0A3F1_9ORYZ; Uncharacterized protein
STRING	OGLUM05G29000.1	0.0	(Oryza glumipatula)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP9502	33	40

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G24140.1	1e-54	bHLH family protein

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]