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

678320099

Organism

Utricularia gibba

Taxonomic ID

13748

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Lamiales; Lentibulariaceae; Utricularia

Family

RAV

Protein Properties

Length: 312aa MW: 35100.9 Da PI: 9.1881

Description

RAV family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
678320099	genome	UGSP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	41.3	3.7e-13	32	80	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s++kGV + +grW A+I++ ++r++lg+f +e Aa+a++ a++k++g 678320099 32 SRFKGVVPQP-NGRWGAQIYEK-----HRRIWLGTFNEEETAARAYDTAAQKFRG 80 689*9788.8*****3.....5***********************98 PP
2	B3	99.5	2e-31	154	253	1	96
EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 f+k+ tpsdv+k++rlv+pk+ ae+h gg + ++ l +ed+ g++W+++++y+++s++yvltkGW++Fvk+++L++gD+v F+++ e++l++ 678320099 154 FEKAVTPSDVGKLNRLVIPKQQAEKHfplqnGG-NLKGLLLNFEDTGGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKDLRAGDIVCFQRSTGPEKQLFID 252 89*************************9644.468889**********************************************876677777776 PP E CS B3 96 v 96 + 678320099 253 W 253 6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF54171	3.92E-17	32	88	IPR016177	DNA-binding domain
CDD	cd00018	5.91E-25	32	90	No hit	No description
Pfam	PF00847	3.5E-8	32	80	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	4.9E-20	33	88	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	20.086	33	88	IPR001471	AP2/ERF domain
SMART	SM00380	8.4E-30	33	94	IPR001471	AP2/ERF domain
Gene3D	G3DSA:2.40.330.10	1.6E-40	150	259	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	2.04E-30	153	242	No hit	No description
SuperFamily	SSF101936	5.23E-30	153	256	IPR015300	DNA-binding pseudobarrel domain
SMART	SM01019	3.6E-25	154	257	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	14.015	154	256	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.7E-27	154	254	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: 312 aa Download sequence Send to blast
MEGSCGEESS SLDSKVSPEN GAEAESRKLP SSRFKGVVPQ PNGRWGAQIY EKHRRIWLGT 60 FNEEETAARA YDTAAQKFRG RDAVTNFKAL SEDEMEAAFL IAHSKDEIVD MLRKHTYHDE 120 LQQSRKTLIA AKNSPLLFPF SAVRPPEDCR EQLFEKAVTP SDVGKLNRLV IPKQQAEKHF 180 PLQNGGNLKG LLLNFEDTGG KVWRFRYSYW NSSQSYVLTK GWSRFVKEKD LRAGDIVCFQ 240 RSTGPEKQLF IDWKPRSSAG NPPAIQMVRL FGVNIFEAPA CDGGGCGGGK RMREMEVLGL 300 ECSKKHRIIN AL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wid_A	5e-55	151	259	11	120	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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	678320099

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_011077234.1	1e-159	AP2/ERF and B3 domain-containing transcription factor RAV1-like
Swissprot	Q9C6M5	1e-133	RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBL	A0A2G9I1N7	1e-156	A0A2G9I1N7_9LAMI; Uncharacterized protein
STRING	Migut.L01094.1.p	1e-150	(Erythranthe guttata)

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-127	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]