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

Gh_D10G1411

Organism

Gossypium hirsutum

Taxonomic ID

3635

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

bHLH

Protein Properties

Length: 409aa MW: 46416.3 Da PI: 5.5826

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_D10G1411	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	38.1	2.8e-12	198	249	1	55
CHHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 1 rrrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +r++h ++Er+RR+++N+ + Lr+l+P + + ++ + a+i A+e++++L+ Gh_D10G1411 198 QRMTHIAVERNRRKQMNEHLRVLRSLMPGS---YVQRGDQASIIGGAIEFVRELE 249 79**************************...9***************9995 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	4.14E-13	196	253	No hit	No description
Gene3D	G3DSA:4.10.280.10	1.4E-13	196	252	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.428	197	248	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.96E-16	197	263	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.3E-9	198	249	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	3.4E-9	203	254	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF55021	1.43E-5	335	396	No hit	No description
PROSITE profile	PS51671	9.254	335	409	IPR002912	ACT domain
CDD	cd04873	4.58E-4	335	399	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0008152	Biological Process	metabolic process
GO:0016597	Molecular Function	amino acid binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 409 aa Download sequence Send to blast
MLFCYKLDFL QANFVGLDYS LDHHQHHHQH QQPRIGESCG DNNNGMVDYM LNNPQQHQHI 60 SSSSGFYTTP ASFDKLSFAD VMQFADFGPK LALNQTRIPE DETGIDPSGY FLRFPVLNDK 120 LEAESLMVPP SGIENVEELV EDKHGEDEAR VSDNAAVQLR FFGEDDVHNK NPIVPTDAAK 180 NKRKRPRTIK TSEEVESQRM THIAVERNRR KQMNEHLRVL RSLMPGSYVQ RGDQASIIGG 240 AIEFVRELEQ LLQCLESQKR RRLYGEASRQ MGDTSMAAIQ QQQQQQQQPV FPPMSTLPND 300 QMKVMEYETG LREETAENKS CLADVEVKLL GFDAMIKILC RRRPGQLVKT IAALEDLQLN 360 ILHTNITTIE QTVLYSFNVK VTGESGFSAE DIASSVQQIF SFIHANSSM

Sequence ? help Back to Top

Protein Sequence Length: 409 aa Download sequence Send to blast

MLFCYKLDFL QANFVGLDYS LDHHQHHHQH QQPRIGESCG DNNNGMVDYM LNNPQQHQHI  60
SSSSGFYTTP ASFDKLSFAD VMQFADFGPK LALNQTRIPE DETGIDPSGY FLRFPVLNDK  120
LEAESLMVPP SGIENVEELV EDKHGEDEAR VSDNAAVQLR FFGEDDVHNK NPIVPTDAAK  180
NKRKRPRTIK TSEEVESQRM THIAVERNRR KQMNEHLRVL RSLMPGSYVQ RGDQASIIGG  240
AIEFVRELEQ LLQCLESQKR RRLYGEASRQ MGDTSMAAIQ QQQQQQQQPV FPPMSTLPND  300
QMKVMEYETG LREETAENKS CLADVEVKLL GFDAMIKILC RRRPGQLVKT IAALEDLQLN  360
ILHTNITTIE QTVLYSFNVK VTGESGFSAE DIASSVQQIF SFIHANSSM

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	198	209	RMTHIAVERNRR
2	258	262	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}.

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012457506.1	0.0	PREDICTED: transcription factor FAMA isoform X1
Swissprot	Q56YJ8	1e-150	FAMA_ARATH; Transcription factor FAMA
TrEMBL	A0A0D2T8T8	0.0	A0A0D2T8T8_GOSRA; Uncharacterized protein
STRING	Gorai.011G159100.1	0.0	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5548	26	49

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G24140.1	1e-140	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]