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

Achn251751

Organism

Actinidia chinensis

Taxonomic ID

3625

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; Ericales; Actinidiaceae; Actinidia

Family

RAV

Protein Properties

Length: 361aa MW: 39852.3 Da PI: 10.0201

Description

RAV family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Achn251751	genome	IKGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	43.1	1.1e-13	61	109	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s++kGV + +grW A+I++ ++r++lg+f +eeAa+a++ a+++++g Achn251751 61 SRFKGVVPQP-KGRWGAQIYEK-----HQRVWLGTFNEEEEAARAYDVAAQRFRG 109 689*9888.7*****3.....5***********************98 PP
2	B3	99.3	2.4e-31	189	288	1	95
EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS.SEE..EE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr.sefelvv 94 f+k+ tpsdv+k++rlv+pk++ae+h +g++ +++ l ++d g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v F+++ + ++++l++ Achn251751 189 FEKTVTPSDVGKLNRLVIPKQHAERHfplqSGSTSKGVLLNFKDVVGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDVVSFHRSTTvHDKQLFI 287 99**************************888899*************************************************887767776666 PP E CS B3 95 k 95 Achn251751 288 D 288 5 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF00847	3.2E-9	61	109	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	3.47E-17	61	117	IPR016177	DNA-binding domain
CDD	cd00018	1.36E-25	61	116	No hit	No description
SMART	SM00380	4.7E-31	62	123	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	20.297	62	117	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	1.2E-20	62	117	IPR001471	AP2/ERF domain
Gene3D	G3DSA:2.40.330.10	5.2E-39	185	293	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	3.01E-30	188	277	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	6.45E-28	188	277	No hit	No description
SMART	SM01019	1.2E-22	189	284	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.3E-28	189	289	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	13.733	189	293	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: 361 aa Download sequence Send to blast
MESCCIDEST TSDLLSFSPA RTPPATVKSP PESLCRMGSG TSVVLDAEGG IEAESRKLPS 60 SRFKGVVPQP KGRWGAQIYE KHQRVWLGTF NEEEEAARAY DVAAQRFRGR DAVTNFKPLS 120 ENETGDEAEF AFLSAHSKAE IVDMLRKHTY GDELEQSRRS FGGKKQCKEK ISNPSGSDKT 180 IGKATQQLFE KTVTPSDVGK LNRLVIPKQH AERHFPLQSG STSKGVLLNF KDVVGKVWRF 240 RYSYWNSSQS YVLTKGWSRF VKEKNLKAGD VVSFHRSTTV HDKQLFIDWK VRGDGPGVAA 300 FPVQVQPVHM VRLFGVNIFK VPVSGGVVES SGGCGGNKRI REKEMLGFGC SKKQMVIGAL 360 *

Sequence ? help Back to Top

Protein Sequence Length: 361 aa Download sequence Send to blast

MESCCIDEST TSDLLSFSPA RTPPATVKSP PESLCRMGSG TSVVLDAEGG IEAESRKLPS  60
SRFKGVVPQP KGRWGAQIYE KHQRVWLGTF NEEEEAARAY DVAAQRFRGR DAVTNFKPLS  120
ENETGDEAEF AFLSAHSKAE IVDMLRKHTY GDELEQSRRS FGGKKQCKEK ISNPSGSDKT  180
IGKATQQLFE KTVTPSDVGK LNRLVIPKQH AERHFPLQSG STSKGVLLNF KDVVGKVWRF  240
RYSYWNSSQS YVLTKGWSRF VKEKNLKAGD VVSFHRSTTV HDKQLFIDWK VRGDGPGVAA  300
FPVQVQPVHM VRLFGVNIFK VPVSGGVVES SGGCGGNKRI REKEMLGFGC SKKQMVIGAL  360
*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wid_A	6e-53	185	292	10	117	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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK065008	5e-33	AK065008.1 Oryza sativa Japonica Group cDNA clone:J013001E21, full insert sequence.
GenBank	AP002913	5e-33	AP002913.1 Oryza sativa Japonica Group genomic DNA, chromosome 1, PAC clone:P0480E02.
GenBank	AP014957	5e-33	AP014957.1 Oryza sativa Japonica Group DNA, chromosome 1, cultivar: Nipponbare, complete sequence.
GenBank	CT828886	5e-33	CT828886.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCEA058B11, full insert sequence.
GenBank	CU406271	5e-33	CU406271.1 Oryza rufipogon (W1943) cDNA clone: ORW1943C113A09, full insert sequence.
GenBank	CU406451	5e-33	CU406451.1 Oryza rufipogon (W1943) cDNA clone: ORW1943C110I16, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_028117439.1	0.0	AP2/ERF and B3 domain-containing transcription factor RAV1-like
Swissprot	Q9C6M5	1e-145	RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBL	A0A2R6PH46	0.0	A0A2R6PH46_ACTCH; AP2/ERF and B3 domain-containing transcription repressor like
STRING	VIT_01s0011g03070.t01	1e-178	(Vitis vinifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA2958	24	53

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G25560.1	1e-145	RAV family protein

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]