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

XP_009798136.1

Organism

Nicotiana sylvestris

Taxonomic ID

4096

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

ARF

Protein Properties

Length: 736aa MW: 82092 Da PI: 7.9911

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009798136.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	70.1	3e-22	62	162	1	98
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 f+k+lt sd++++g +++ +++a+e+ + + + +++l+ +d++ ++W++++i+r++++r++l++GW+ Fv++++L +gD ++F + ++ XP_009798136.1 62 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHANEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RGEN 153 99***************************7333.34459********************************************..4499 PP E..EEEEE- CS B3 90 felvvkvfr 98 +el+v+v+ XP_009798136.1 154 GELRVGVRH 162 999*985 PP
2	Auxin_resp	121.5	6.3e-40	188	270	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha++tk++F+v+Y+Pr+s+++F+v+++++++++k+++s+GmRfkm+fe+e+++e+r++Gt+vg++d dp rWp+SkWr+Lk XP_009798136.1 188 AWHAIQTKTMFTVYYKPRTSPADFIVPYDQYMESVKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDGDPNRWPESKWRCLK 270 89*******************************************************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	3.6E-40	55	177	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	2.62E-40	58	191	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	4.82E-20	60	161	No hit	No description
SMART	SM01019	4.3E-21	62	164	IPR003340	B3 DNA binding domain
Pfam	PF02362	4.4E-20	62	162	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.124	62	164	IPR003340	B3 DNA binding domain
Pfam	PF06507	7.7E-37	188	270	IPR010525	Auxin response factor
Pfam	PF02309	7.8E-10	631	722	IPR033389	AUX/IAA domain
SuperFamily	SSF54277	9.32E-12	636	715	No hit	No description
PROSITE profile	PS51745	21.79	638	722	IPR000270	PB1 domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009725	Biological Process	response to hormone
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0005515	Molecular Function	protein binding

Sequence ? help Back to Top
Protein Sequence Length: 736 aa Download sequence Send to blast
MPVYNLPSKI LCRVINVLLK AEPDTDEVFA QVTLMPEPNQ DESAVTKEPM PPSPPRFHVH 60 SFCKTLTASD TSTHGGFSVL RRHADECLPP LDMSRQPPTQ ELVAKDLHAN EWRFRHIFRG 120 QPRRHLLQSG WSVFVSSKRL VAGDAFIFLR GENGELRVGV RHAMRQQGNA PSSVISSHSM 180 HLGVLATAWH AIQTKTMFTV YYKPRTSPAD FIVPYDQYME SVKNNYSIGM RFKMRFEGEE 240 APEQRFTGTI VGIEDGDPNR WPESKWRCLK VRWDETSAIP RPDRVSPWKI EPALSPPALN 300 PLPIPRPKRP RSNVLPSSPD SSVLTREGSS KRTAGPSQAS GFSRVLQGQE ISTLRGNFVE 360 NNGSDSSEKP IVWPPSLDDE KTDVHSASRR CLSDKWLPLG RPESSFTDLL SGFGVQVSSS 420 HGLHLPAGGQ TALPASLVKR QALDKENDFS LLGKQWSLAS SGLSLNLMDS GLKGADTLYQ 480 MRETSKCSGF NEYPTLPGHR IDNQQGNWLM PQSVLPYIQM STHSGEIMPK PMALLQPEAV 540 KPKEGNCKLF GIPLVSKSAS IDPVKLQNNS LIDSASNMHF GIHPHQFPAT ESDLRSEQSK 600 GSKVLDNGIT VNDQEKQFQT SHLGTRDREG KGLINSTRSC TKVHKHGTAL GRSVDLAKFN 660 NYEELIAELD HLFYFNGELK AQNKNWLVVY TDDEGDMMLV GDDPWQEFCG MVCKIFIYTK 720 EEVQRMNPGS LNSKGS

Sequence ? help Back to Top

Protein Sequence Length: 736 aa Download sequence Send to blast

MPVYNLPSKI LCRVINVLLK AEPDTDEVFA QVTLMPEPNQ DESAVTKEPM PPSPPRFHVH  60
SFCKTLTASD TSTHGGFSVL RRHADECLPP LDMSRQPPTQ ELVAKDLHAN EWRFRHIFRG  120
QPRRHLLQSG WSVFVSSKRL VAGDAFIFLR GENGELRVGV RHAMRQQGNA PSSVISSHSM  180
HLGVLATAWH AIQTKTMFTV YYKPRTSPAD FIVPYDQYME SVKNNYSIGM RFKMRFEGEE  240
APEQRFTGTI VGIEDGDPNR WPESKWRCLK VRWDETSAIP RPDRVSPWKI EPALSPPALN  300
PLPIPRPKRP RSNVLPSSPD SSVLTREGSS KRTAGPSQAS GFSRVLQGQE ISTLRGNFVE  360
NNGSDSSEKP IVWPPSLDDE KTDVHSASRR CLSDKWLPLG RPESSFTDLL SGFGVQVSSS  420
HGLHLPAGGQ TALPASLVKR QALDKENDFS LLGKQWSLAS SGLSLNLMDS GLKGADTLYQ  480
MRETSKCSGF NEYPTLPGHR IDNQQGNWLM PQSVLPYIQM STHSGEIMPK PMALLQPEAV  540
KPKEGNCKLF GIPLVSKSAS IDPVKLQNNS LIDSASNMHF GIHPHQFPAT ESDLRSEQSK  600
GSKVLDNGIT VNDQEKQFQT SHLGTRDREG KGLINSTRSC TKVHKHGTAL GRSVDLAKFN  660
NYEELIAELD HLFYFNGELK AQNKNWLVVY TDDEGDMMLV GDDPWQEFCG MVCKIFIYTK  720
EEVQRMNPGS LNSKGS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	1e-147	1	292	64	354	Auxin response factor 1
4ldw_A	1e-147	1	292	64	354	Auxin response factor 1
4ldw_B	1e-147	1	292	64	354	Auxin response factor 1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Auxin response factors (ARFs) are transcriptional factors that binds specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs) (By similarity). Could act as transcriptional activator or repressor. Involved in the control of fruit ripening process. Regulates expression of a number of ripening regulators, transcription factors, and ethylene biosynthesis and signaling components (PubMed:26716451, PubMed:26959229). May act as a transcriptional repressor of auxin-responsive genes (PubMed:26716451). {ECO:0000255\|RuleBase:RU004561, ECO:0000269\|PubMed:26716451, ECO:0000269\|PubMed:26959229}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By tomato fruit ripening. Expression is up-regulated by plant hormone auxin in tomato fruits. {ECO:0000269\|PubMed:26716451}.

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	HM143940	0.0	HM143940.1 Solanum lycopersicum auxin response factor 11-like (ARF11) mRNA, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009798136.1	0.0	PREDICTED: auxin response factor 2-like isoform X2
Swissprot	K4DF01	0.0	ARF2B_SOLLC; Auxin response factor 2B
TrEMBL	A0A1U7Y875	0.0	A0A1U7Y875_NICSY; Auxin response factor
STRING	XP_009798135.1	0.0	(Nicotiana sylvestris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G62000.3	0.0	auxin response factor 2

Publications ? help Back to Top
Tomato Genome Consortium The tomato genome sequence provides insights into fleshy fruit evolution. Nature, 2012. 485(7400): p. 635-41 [PMID:22660326] Breitel DA, et al. AUXIN RESPONSE FACTOR 2 Intersects Hormonal Signals in the Regulation of Tomato Fruit Ripening. PLoS Genet., 2016. 12(3): p. e1005903 [PMID:26959229]