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

Pbr013715.1

Organism

Pyrus bretschneideri

Taxonomic ID

225117

Taxonomic Lineage

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

Family

RAV

Protein Properties

Length: 322aa MW: 36732.8 Da PI: 8.5341

Description

RAV family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pbr013715.1	genome	CPETR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	39.8	1.1e-12	30	78	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s+ykGV + +grW A+I++ ++r++lg+f +eeAak ++ a +k++g Pbr013715.1 30 SRYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEEEAAKTYDIALLKFRG 78 78**9888.8*****3.....5**********************997 PP
2	B3	96.5	1.8e-30	161	264	1	99
EEEE-..-HHHHTT-EE--HHH.HTT....---......--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkke....esktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 f+kv tpsdv++++r+v+pk+ ae+h + +++ l +ede+g++W+++++y+ +s++yvltkGW +Fvk+++Lk+gD+v F+++ r+++ Pbr013715.1 161 FEKVATPSDVGRLNRMVIPKQQAEKHfqvhQ---SvelcKGVLLNFEDEEGNVWRFRYCYWSSSQSYVLTKGWTRFVKEKKLKAGDVVRFQRSVREDK 255 89**********************87662...133458899**********************************************9988999 PP ..EEEEE-S CS B3 91 elvvkvfrk 99 +l++ + + Pbr013715.1 256 KLFIECRPR 264 999987765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00018	1.88E-24	30	85	No hit	No description
Pfam	PF00847	1.2E-7	30	78	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	5.82E-16	30	86	IPR016177	DNA-binding domain
SMART	SM00380	8.6E-24	31	92	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	9.7E-19	31	87	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	19.625	31	86	IPR001471	AP2/ERF domain
Gene3D	G3DSA:2.40.330.10	1.3E-36	156	265	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.96E-28	159	260	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.15E-26	160	263	No hit	No description
SMART	SM01019	2.7E-22	161	265	IPR003340	B3 DNA binding domain
Pfam	PF02362	6.9E-28	161	264	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	14.113	161	265	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:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 322 aa Download sequence Send to blast
MDVMDCLNES TSDSSNNGVK DASSNKLPSS RYKGVVPQPN GRWGAQIYEK HQRVWLGTFN 60 EEEEAAKTYD IALLKFRGLD AITNFCQSQI KPYIEDGNEA IFLESHSKAE IVDMLRKHSY 120 VNELEMYKHK LLNAGVRDGG RKRSKCHVDP IDACYERELL FEKVATPSDV GRLNRMVIPK 180 QQAEKHFQVH QSVELCKGVL LNFEDEEGNV WRFRYCYWSS SQSYVLTKGW TRFVKEKKLK 240 AGDVVRFQRS VREDKKLFIE CRPRNVDSLG FREMPAGRVA EPSAAVQDDG VVRLFGVNIM 300 KTCKSCIVDN SGCWRLGASL R*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1wid_A	2e-45	158	269	11	122	DNA-binding protein RAV1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Transcriptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences (Probable). Functionally redundant with TEM1. {ECO:0000250, ECO:0000269\|PubMed:18718758, ECO:0000305}.
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	Pbr013715.1

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_009349279.1	0.0	PREDICTED: AP2/ERF and B3 domain-containing transcription repressor RAV2-like
Refseq	XP_009371009.1	0.0	PREDICTED: AP2/ERF and B3 domain-containing transcription repressor RAV2-like
Swissprot	P82280	1e-104	RAV2_ARATH; AP2/ERF and B3 domain-containing transcription repressor RAV2
Swissprot	Q9C6M5	1e-104	RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBL	A0A498H9U5	0.0	A0A498H9U5_MALDO; Uncharacterized protein
STRING	XP_009349279.1	0.0	(Pyrus x bretschneideri)
STRING	XP_009371009.1	0.0	(Pyrus x bretschneideri)

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
AT1G68840.2	1e-106	related to ABI3/VP1 2

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] Sun YW, et al. Attenuation of Histone Methyltransferase KRYPTONITE-mediated transcriptional gene silencing by Geminivirus. Sci Rep, 2015. 5: p. 16476 [PMID:26602265] Mittal A,Jiang Y,Ritchie GL,Burke JJ,Rock CD AtRAV1 and AtRAV2 overexpression in cotton increases fiber length differentially under drought stress and delays flowering. Plant Sci., 2015. 241: p. 78-95 [PMID:26706061] 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] Li P, et al. The Arabidopsis UGT87A2, a stress-inducible family 1 glycosyltransferase, is involved in the plant adaptation to abiotic stresses. Physiol Plant, 2017. 159(4): p. 416-432 [PMID:27747895]