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

Eucgr.D00053.1.p

Common Name

EUGRSUZ_D00053

Organism

Eucalyptus grandis

Taxonomic ID

71139

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Myrtales; Myrtaceae; Myrtoideae; Eucalypteae; Eucalyptus

Family

RAV

Protein Properties

Length: 328aa MW: 36612.5 Da PI: 9.9006

Description

RAV family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Eucgr.D00053.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	41.1	4.6e-13	63	111	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s+ykGV + +grW A+I++ ++r+++g+f ++eAa a++ a+k+++g Eucgr.D00053.1.p 63 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWIGTFSEEDEAAMAYDIAAKRFRG 111 89**9888.8*****3.....5******99***********98 PP
2	B3	87.7	9.7e-28	185	289	1	98
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 f+k+ t+sdv+k++r+v+pk++ae+h + +++++ l + d g++W++++ y+++s +yvlt GW++Fvk++ L++gD++ F+ + Eucgr.D00053.1.p 185 FQKEVTRSDVGKLNRFVIPKQHAEKHfplhnrsSPTTPKGTLLNFIDGGGKVWRFRYLYWNSSHSYVLTLGWSRFVKEKSLRAGDIISFHQSA 277 99*************************998755566899***********************************************665 PP SSEE..EEEEE- CS B3 87 rsefelvvkvfr 98 e+++++ r Eucgr.D00053.1.p 278 GPEKQFHINYMR 289 566656766655 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF54171	9.81E-17	63	120	IPR016177	DNA-binding domain
Pfam	PF00847	2.6E-8	63	111	IPR001471	AP2/ERF domain
CDD	cd00018	3.59E-25	63	121	No hit	No description
Gene3D	G3DSA:3.30.730.10	1.8E-19	64	121	IPR001471	AP2/ERF domain
SMART	SM00380	6.3E-27	64	125	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	19.098	64	119	IPR001471	AP2/ERF domain
Gene3D	G3DSA:2.40.330.10	4.3E-35	179	290	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	6.93E-29	182	289	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	8.18E-25	184	285	No hit	No description
Pfam	PF02362	5.3E-24	185	284	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	13.479	185	291	IPR003340	B3 DNA binding domain
SMART	SM01019	9.3E-22	185	289	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: 328 aa Download sequence Send to blast
MDGNIICIDE LSSTSDSNVT PLPSKSWQPP TPPQSLCRLG SGTSVTLDCE GGIKAESRKL 60 NPSKYKGVVP QPNGRWGAQI YEKHQRVWIG TFSEEDEAAM AYDIAAKRFR GQEAVTNFNQ 120 SRFPDFSFQA EIVDMLRKHV YYEELEQCKR KYVNANGDGK RMSMTEALGD PSGPGRAVAA 180 CHLLFQKEVT RSDVGKLNRF VIPKQHAEKH FPLHNRSSPT TPKGTLLNFI DGGGKVWRFR 240 YLYWNSSHSY VLTLGWSRFV KEKSLRAGDI ISFHQSAGPE KQFHINYMRR SGLSQARPVH 300 PVQKVRLFGV DIFQVSGTGG GVNCGGR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wid_A	2e-44	184	292	13	119	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Eucgr.D00053.1.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_010040940.1	0.0	PREDICTED: AP2/ERF and B3 domain-containing transcription repressor TEM1
Swissprot	Q9C6M5	1e-115	RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBL	A0A059CBR5	0.0	A0A059CBR5_EUCGR; Uncharacterized protein
STRING	XP_010040940.1	0.0	(Eucalyptus grandis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM848	27	121

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G25560.1	1e-117	RAV family protein

Link Out ? help Back to Top
Phytozome	Eucgr.D00053.1.p

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]