PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Amygdaleae; Prunus

Family

RAV

Protein Properties

Length: 315aa MW: 36361.3 Da PI: 8.065

Description

RAV family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Prupe.3G240000.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	39.7	1.2e-12	20	68	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s+ykGV + +grW A+I++ ++r++lg+f +eeAaka++ a k++g Prupe.3G240000.1.p 20 SRYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNAEEEAAKAYDIASIKFRG 68 78**9888.8*****3.....5*******************999987 PP
2	B3	97.9	6.6e-31	152	254	1	98
EEEE-..-HHHHTT-EE--HHH.HTT.....---....--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkke..esktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 f+kv tpsdv++++r+v+pk++ae+h + +e +++ l +ed++g++W+++++y+ +s++yvltkGW +Fvk+++Lk+gD+v F++ Prupe.3G240000.1.p 152 FEKVATPSDVGRLNRMVIPKQHAEKHfplhlS--EElcKGVLLNFEDREGKVWRLRYCYWSSSQSYVLTKGWTRFVKEKKLKAGDVVRFER 240 89*************************652..44448899**********************************************9 PP -SSSEE..EEEEE- CS B3 85 dgrsefelvvkvfr 98 ++ +e+++++ + Prupe.3G240000.1.p 241 SRGEEKKMFIDCRP 254 98899989888776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00018	1.41E-24	20	75	No hit	No description
SuperFamily	SSF54171	1.24E-16	20	77	IPR016177	DNA-binding domain
Pfam	PF00847	5.4E-8	20	68	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	19.796	21	76	IPR001471	AP2/ERF domain
SMART	SM00380	9.3E-25	21	82	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	4.1E-19	21	77	IPR001471	AP2/ERF domain
PRINTS	PR00367	4.1E-5	22	33	IPR001471	AP2/ERF domain
PRINTS	PR00367	4.1E-5	42	58	IPR001471	AP2/ERF domain
Gene3D	G3DSA:2.40.330.10	4.1E-40	146	256	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.26E-31	148	254	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	2.35E-29	150	246	No hit	No description
PROSITE profile	PS50863	14.339	152	255	IPR003340	B3 DNA binding domain
SMART	SM01019	3.0E-25	152	255	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.5E-28	152	255	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:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 315 aa Download sequence Send to blast
MDVLNESTSE AANSNKLPSS RYKGVVPQPN GRWGAQIYEK HQRVWLGTFN AEEEAAKAYD 60 IASIKFRGLE TITNFNQNQL KPYMDGDHET LFLQSHSKAE IVDMLRKHSY TNELEMYKLK 120 LFNAGDDDAA RKRIKCHVNL MEGYDHQREW LFEKVATPSD VGRLNRMVIP KQHAEKHFPL 180 HLSEELCKGV LLNFEDREGK VWRLRYCYWS SSQSYVLTKG WTRFVKEKKL KAGDVVRFER 240 SRGEEKKMFI DCRPRNVEVS GLGDMASRVE VEEPLSRVQE DDGVVRLFGV NIVETCSCIV 300 DNNMCWRLGA RISS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wid_A	1e-48	149	256	11	118	DNA-binding protein RAV1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in leaves. {ECO:0000269\|PubMed:18718758}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences. Functionally redundant with TEM2. {ECO:0000269\|PubMed:18718758}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Prupe.3G240000.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Expressed with a circadian rhythm showing a peak at dawn. {ECO:0000269\|PubMed:18718758}.

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_007216476.2	0.0	AP2/ERF and B3 domain-containing transcription repressor RAV2
Swissprot	Q9C6M5	1e-103	RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBL	M5XF16	0.0	M5XF16_PRUPE; Uncharacterized protein (Fragment)
STRING	EMJ17675	0.0	(Prunus persica)

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
AT1G25560.1	1e-105	RAV family protein

Link Out ? help Back to Top
Phytozome	Prupe.3G240000.1.p
Entrez Gene	18781762

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Choi D, et al. iNID: an analytical framework for identifying network models for interplays among developmental signaling in Arabidopsis. Mol Plant, 2014. 7(5): p. 792-813 [PMID:24380880] Sgamma T,Jackson A,Muleo R,Thomas B,Massiah A TEMPRANILLO is a regulator of juvenility in plants. Sci Rep, 2014. 4: p. 3704 [PMID:24424565] 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] 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]