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

Lus10034276

Organism

Linum usitatissimum

Taxonomic ID

4006

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum

Family

Protein Properties

Length: 219aa MW: 24571.9 Da PI: 10.6829

Description

B3 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lus10034276	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	101.7	4.3e-32	47	150	1	90
EEEE-..-HHHHTT-EE--HHH.HTT............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld. 85 f+k+ tpsdv+k++rlv+pk++ae+h g+ +++++ l +ed+ g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v F+++ Lus10034276 47 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqfggaaaggGSGSTKGVLLNFEDPGGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDTVSFHRSv 144 89*******************************9996667799************************************************653 PP .SSSEE CS B3 86 .grsef 90 g++++ Lus10034276 145 tGQDQK 150 233555 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	4.6E-40	43	167	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.96E-27	46	143	No hit	No description
SuperFamily	SSF101936	1.44E-30	46	143	IPR015300	DNA-binding pseudobarrel domain
Pfam	PF02362	5.2E-29	47	155	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	13.888	47	160	IPR003340	B3 DNA binding domain
SMART	SM01019	7.8E-25	47	160	IPR003340	B3 DNA binding domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 219 aa Download sequence Send to blast
MLRKHTYNDE LQQSRRGRHH NHHRGKQSGT LDSSDNIAAR GAREQLFEKA VTPSDVGKLN 60 RLVIPKQHAE KHFPLQFGGA AAGGGSGSTK GVLLNFEDPG GKVWRFRYSY WNSSQSYVLT 120 KGWSRFVKEK NLKAGDTVSF HRSVTGQDQK QLYIDWKVRS DEGVESSRLV CRVQPVQMVR 180 LFGVNIFKPV DGGCNGKRTM EEMVGFHCSK KQRIIGAL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wid_A	5e-56	44	167	11	125	DNA-binding protein RAV1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Transcriptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences (Probable). Functionally redundant with TEM1. {ECO:0000250, ECO:0000269\|PubMed:18718758, ECO:0000305}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Lus10034276

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_002524409.1	4e-95	AP2/ERF and B3 domain-containing transcription factor RAV1
Swissprot	P82280	5e-75	RAV2_ARATH; AP2/ERF and B3 domain-containing transcription repressor RAV2
TrEMBL	B9SEJ0	1e-93	B9SEJ0_RICCO; DNA-binding protein RAV1, putative
STRING	Lus10034276	1e-162	(Linum usitatissimum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF2920	32	74

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G68840.2	6e-75	related to ABI3/VP1 2

Link Out ? help Back to Top
Phytozome	Lus10034276

Publications ? help Back to Top
Matías-Hernández L,Aguilar-Jaramillo AE,Marín-González E,Suárez-López P,Pelaz S RAV genes: regulation of floral induction and beyond. Ann. Bot., 2014. 114(7): p. 1459-70 [PMID:24812253] Marín-González E, et al. SHORT VEGETATIVE PHASE Up-Regulates TEMPRANILLO2 Floral Repressor at Low Ambient Temperatures. Plant Physiol., 2015. 169(2): p. 1214-24 [PMID:26243615] Sun YW, et al. Attenuation of Histone Methyltransferase KRYPTONITE-mediated transcriptional gene silencing by Geminivirus. Sci Rep, 2015. 5: p. 16476 [PMID:26602265] Mittal A,Jiang Y,Ritchie GL,Burke JJ,Rock CD AtRAV1 and AtRAV2 overexpression in cotton increases fiber length differentially under drought stress and delays flowering. Plant Sci., 2015. 241: p. 78-95 [PMID:26706061] Matías-Hernández L, et al. TEMPRANILLO Reveals the Mesophyll as Crucial for Epidermal Trichome Formation. Plant Physiol., 2016. 170(3): p. 1624-39 [PMID:26802039] Li P, et al. The Arabidopsis UGT87A2, a stress-inducible family 1 glycosyltransferase, is involved in the plant adaptation to abiotic stresses. Physiol Plant, 2017. 159(4): p. 416-432 [PMID:27747895]