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

Gorai.001G273500.2

Common Name

B456_001G273500, LOC105769826

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

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

Family

Protein Properties

Length: 309aa MW: 34217.4 Da PI: 6.0987

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.001G273500.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	61.2	1.8e-19	118	210	1	90
EEEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS.-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesg.rsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldg 86 f+k+l++sdv++++r++lpk+ ae+h ++++e++ +++ d++g +W++k+++ +++s++yvl+ ++ eFv+ +gL+ gDf++ + Gorai.001G273500.2 118 FQKELKNSDVSSLRRMILPKRAAEAHlpVLESKEGILISMDDLDGlHVWSFKYRFwpNNNSRMYVLE-NTGEFVSTHGLQLGDFIMVYQ-- 205 99************************55666899*****9***99899999999.****************9993.. PP S.SEE CS B3 87 r.sef 90 + ++ Gorai.001G273500.2 206 DsLNQ 210 32444 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	2.6E-27	108	226	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	6.08E-21	116	215	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	6.29E-25	116	218	No hit	No description
PROSITE profile	PS50863	9.446	118	220	IPR003340	B3 DNA binding domain
SMART	SM01019	4.6E-18	118	220	IPR003340	B3 DNA binding domain
Pfam	PF02362	3.2E-16	118	213	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0008284	Biological Process	positive regulation of cell proliferation
GO:0009733	Biological Process	response to auxin
GO:0010116	Biological Process	positive regulation of abscisic acid biosynthetic process
GO:0010262	Biological Process	somatic embryogenesis
GO:0010373	Biological Process	negative regulation of gibberellin biosynthetic process
GO:0048573	Biological Process	photoperiodism, flowering
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0044212	Molecular Function	transcription regulatory region DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 309 aa Download sequence Send to blast
MMAAATAAGA ATAATPSVHE KPEAFALVAG VEGVTVEGDN IHQHPSGPSG LTRDLVAAVP 60 SFGFNRKKRM ARQRRSSSTI KLLSFTNNSS SSSSSSSHVP SPPLPTRVID PKRLRFLFQK 120 ELKNSDVSSL RRMILPKRAA EAHLPVLESK EGILISMDDL DGLHVWSFKY RFWPNNNSRM 180 YVLENTGEFV STHGLQLGDF IMVYQDSLNQ NYVIQAKKAS DEDVYSDIAR NGVNDLFLHD 240 YEATKSSNYY YPMMEDNGMS FIYDTTLSFS NDCPLDFLGG SMTNYSRMGS LESFGSVENL 300 SLDEFYQL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6j9b_A	1e-63	114	223	1	110	B3 domain-containing transcription factor FUS3
6j9b_D	1e-63	114	223	1	110	B3 domain-containing transcription factor FUS3
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in developing embryo. At globular stage, expressed in all cells of the embryo proper. At heart stage, preferentially expressed in the protodermal tissue. In mature embryo, expressed in the provascular tissue, root cap and mature epidermis. Expressed in the aleurone layer in mature seed. Expressed in leaf primordia and shoot apical meristem (PubMed:22026387). {ECO:0000269\|PubMed:14675433, ECO:0000269\|PubMed:22026387, ECO:0000269\|PubMed:9807814}.
Uniprot	TISSUE SPECIFICITY: Expressed in cotyledons and hypocotyls. {ECO:0000269\|PubMed:22026387}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription regulator involved in gene regulation during late embryogenesis. Its expression to the epidermis is sufficient to control foliar organ identity by regulating positively the synthesis abscisic acid (ABA) and negatively gibberellin production. Negatively regulates TTG1 in the embryo. Positively regulates the abundance of the ABI3 protein in the seed. Cooperates with KIN10 to regulate developmental phase transitions and lateral organ development and act both as positive regulators of abscisic acid (ABA) signaling during germination (PubMed:22026387, PubMed:22902692). {ECO:0000269\|PubMed:14675433, ECO:0000269\|PubMed:15363412, ECO:0000269\|PubMed:22026387, ECO:0000269\|PubMed:22902692}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00382	DAP	Transfer from AT3G26790	Download

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	JX614484	1e-131	JX614484.1 Gossypium hirsutum clone NBRI_GE57891 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012446172.1	0.0	PREDICTED: B3 domain-containing transcription factor FUS3
Swissprot	Q9LW31	1e-100	FUS3_ARATH; B3 domain-containing transcription factor FUS3
TrEMBL	A0A0D2QWP1	0.0	A0A0D2QWP1_GOSRA; Uncharacterized protein
STRING	Gorai.001G273500.1	0.0	(Gossypium raimondii)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G26790.1	1e-100	B3 family protein

Link Out ? help Back to Top
Phytozome	Gorai.001G273500.2
Entrez Gene	105769826

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] Yang C, et al. VAL- and AtBMI1-mediated H2Aub initiate the switch from embryonic to postgerminative growth in Arabidopsis. Curr. Biol., 2013. 23(14): p. 1324-9 [PMID:23810531] Jia H,McCarty DR,Suzuki M Distinct roles of LAFL network genes in promoting the embryonic seedling fate in the absence of VAL repression. Plant Physiol., 2013. 163(3): p. 1293-305 [PMID:24043445] Kim HU, et al. Ectopic overexpression of castor bean LEAFY COTYLEDON2 (LEC2) in Arabidopsis triggers the expression of genes that encode regulators of seed maturation and oil body proteins in vegetative tissues. FEBS Open Bio, 2013. 4: p. 25-32 [PMID:24363987] Rikiishi K,Maekawa M Seed maturation regulators are related to the control of seed dormancy in wheat (Triticum aestivum L.). PLoS ONE, 2014. 9(9): p. e107618 [PMID:25211528] Yamamoto A, et al. Cell-by-cell developmental transition from embryo to post-germination phase revealed by heterochronic gene expression and ER-body formation in Arabidopsis leafy cotyledon mutants. Plant Cell Physiol., 2014. 55(12): p. 2112-25 [PMID:25282558] Shen Y,Devic M,Lepiniec L,Zhou DX Chromodomain, Helicase and DNA-binding CHD1 protein, CHR5, are involved in establishing active chromatin state of seed maturation genes. Plant Biotechnol. J., 2015. 13(6): p. 811-20 [PMID:25581843] Chen M, et al. TRANSPARENT TESTA GLABRA1 Regulates the Accumulation of Seed Storage Reserves in Arabidopsis. Plant Physiol., 2015. 169(1): p. 391-402 [PMID:26152712] Schneider A, et al. Potential targets of VIVIPAROUS1/ABI3-LIKE1 (VAL1) repression in developing Arabidopsis thaliana embryos. Plant J., 2016. 85(2): p. 305-19 [PMID:26678037] Baud S, et al. Deciphering the Molecular Mechanisms Underpinning the Transcriptional Control of Gene Expression by Master Transcriptional Regulators in Arabidopsis Seed. Plant Physiol., 2016. 171(2): p. 1099-112 [PMID:27208266] Zhang M,Cao X,Jia Q,Ohlrogge J FUSCA3 activates triacylglycerol accumulation in Arabidopsis seedlings and tobacco BY2 cells. Plant J., 2016. 88(1): p. 95-107 [PMID:27288837] Fatihi A, et al. Deciphering and modifying LAFL transcriptional regulatory network in seed for improving yield and quality of storage compounds. Plant Sci., 2016. 250: p. 198-204 [PMID:27457996] Chiu RS,Pan S,Zhao R,Gazzarrini S ABA-dependent inhibition of the ubiquitin proteasome system during germination at high temperature in Arabidopsis. Plant J., 2016. 88(5): p. 749-761 [PMID:27496613] Tang LP, et al. FUSCA3 interacting with LEAFY COTYLEDON2 controls lateral root formation through regulating YUCCA4 gene expression in Arabidopsis thaliana. New Phytol., 2017. 213(4): p. 1740-1754 [PMID:27878992] Duong S,Vonapartis E,Li CY,Patel S,Gazzarrini S The E3 ligase ABI3-INTERACTING PROTEIN2 negatively regulates FUSCA3 and plays a role in cotyledon development in Arabidopsis thaliana. J. Exp. Bot., 2017. 68(7): p. 1555-1567 [PMID:28369580] Han JD, et al. Evolutionary Analysis of the LAFL Genes Involved in the Land Plant Seed Maturation Program. Front Plant Sci, 2017. 8: p. 439 [PMID:28421087] Sun F, et al. Functional Characterization of TaFUSCA3, a B3-Superfamily Transcription Factor Gene in the Wheat. Front Plant Sci, 2017. 8: p. 1133 [PMID:28702045] Horstman A, et al. The BABY BOOM Transcription Factor Activates the LEC1-ABI3-FUS3-LEC2 Network to Induce Somatic Embryogenesis. Plant Physiol., 2017. 175(2): p. 848-857 [PMID:28830937] Chan A, et al. SnRK1 phosphorylation of FUSCA3 positively regulates embryogenesis, seed yield, and plant growth at high temperature in Arabidopsis. J. Exp. Bot., 2017. 68(15): p. 4219-4231 [PMID:28922765] Geilen K,Heilmann M,Hillmer S,Böhmer M WRKY43 regulates polyunsaturated fatty acid content and seed germination under unfavourable growth conditions. Sci Rep, 2017. 7(1): p. 14235 [PMID:29079824] Hanano A,Almousally I,Shaban M,Murphy DJ Arabidopsis plants exposed to dioxin result in a WRINKLED seed phenotype due to 20S proteasomal degradation of WRI1. J. Exp. Bot., 2018. 69(7): p. 1781-1794 [PMID:29394403] Chen N,Veerappan V,Abdelmageed H,Kang M,Allen RD HSI2/VAL1 Silences AGL15 to Regulate the Developmental Transition from Seed Maturation to Vegetative Growth in Arabidopsis. Plant Cell, 2018. 30(3): p. 600-619 [PMID:29475938]