PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Arecales; Arecaceae; Arecoideae; Cocoseae; Elaeidinae; Elaeis

Family

RAV

Protein Properties

Length: 367aa MW: 40112.3 Da PI: 10.0378

Description

RAV family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_010923453.1	genome	OG	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	52	100	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s++kGV + +grW A+I++ ++r++lg+f + eAa+a++ a+++++g XP_010923453.1 52 SHFKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEESEAARAYDVAAQRFRG 100 789*9788.8*****3.....5******88***********98 PP
2	B3	102.8	1.9e-32	191	291	1	96
EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 f+k+ltpsdv+k++rlv+pk++ae+h g +++ l +ed+ g++W+++++y+++s++yvltkGW++Fvk++ Lk+gD+v+F+++ +++ XP_010923453.1 191 FDKALTPSDVGKLNRLVIPKQHAEKHfpiqiAGAAGKGVLLNFEDSCGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKSLKAGDVVTFQRSTGQDK 285 89**************************97777899************************************************8766777 PP ..EEEE CS B3 91 elvvkv 96 +l++ + XP_010923453.1 286 QLFIDW 291 777766 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00018	9.96E-24	52	107	No hit	No description
SuperFamily	SSF54171	1.05E-16	52	108	IPR016177	DNA-binding domain
Pfam	PF00847	4.8E-8	52	100	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	4.0E-20	53	108	IPR001471	AP2/ERF domain
SMART	SM00380	4.9E-28	53	114	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	19.612	53	108	IPR001471	AP2/ERF domain
Gene3D	G3DSA:2.40.330.10	3.4E-42	186	295	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.7E-31	188	292	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.84E-28	189	280	No hit	No description
Pfam	PF02362	1.3E-29	191	292	IPR003340	B3 DNA binding domain
SMART	SM01019	2.1E-23	191	295	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	14.113	191	294	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:0048573	Biological Process	photoperiodism, flowering
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: 367 aa Download sequence Send to blast
MDSRCIEDVC SIRTEKRPPP GPESLQRVGS GASVVLDPEV GVEAESRKLP SSHFKGVVPQ 60 PNGRWGAQIY EKHQRVWLGT FNEESEAARA YDVAAQRFRG RDAVTNFKPF SETDDDDAAE 120 LSFLASHSKA EIVDMLRKHT YHDEVRQSKR AFGAGKGSDR RSMPAGGYGG GLGLRFLAGS 180 GGGGAQREHL FDKALTPSDV GKLNRLVIPK QHAEKHFPIQ IAGAAGKGVL LNFEDSCGKV 240 WRFRYSYWNS SQSYVLTKGW SRFVKEKSLK AGDVVTFQRS TGQDKQLFID WKPRAAGGCA 300 EARPVQGIRL FGVNLFKIPA VAVGGAGLDG NGGVDHVVGC SRKGIRGMDH QLMPSPQQFK 360 KQKTEAL

Sequence ? help Back to Top

Protein Sequence Length: 367 aa Download sequence Send to blast

MDSRCIEDVC SIRTEKRPPP GPESLQRVGS GASVVLDPEV GVEAESRKLP SSHFKGVVPQ  60
PNGRWGAQIY EKHQRVWLGT FNEESEAARA YDVAAQRFRG RDAVTNFKPF SETDDDDAAE  120
LSFLASHSKA EIVDMLRKHT YHDEVRQSKR AFGAGKGSDR RSMPAGGYGG GLGLRFLAGS  180
GGGGAQREHL FDKALTPSDV GKLNRLVIPK QHAEKHFPIQ IAGAAGKGVL LNFEDSCGKV  240
WRFRYSYWNS SQSYVLTKGW SRFVKEKSLK AGDVVTFQRS TGQDKQLFID WKPRAAGGCA  300
EARPVQGIRL FGVNLFKIPA VAVGGAGLDG NGGVDHVVGC SRKGIRGMDH QLMPSPQQFK  360
KQKTEAL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wid_A	1e-56	188	307	11	130	DNA-binding protein RAV1
Search in ModeBase

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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00024	PBM	Transfer from AT1G25560	Download

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_010923453.1	0.0	AP2/ERF and B3 domain-containing transcription factor RAV1
Swissprot	Q9C6M5	1e-131	RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBL	A0A2H3Y084	0.0	A0A2H3Y084_PHODC; AP2/ERF and B3 domain-containing transcription factor RAV1
STRING	XP_008791228.1	0.0	(Phoenix dactylifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP456	38	203

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G13260.1	1e-130	related to ABI3/VP1 1

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]