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_009592683.1

Organism

Nicotiana tomentosiformis

Taxonomic ID

4098

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: 834aa MW: 92665.4 Da PI: 6.8935

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009592683.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	70.7	1.9e-22	133	234	1	99
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_009592683.1 133 FCKTLTASDTSTHGGFSVLRRHADEClppldmS-RQPPTQELAAKDLHANQWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RGEN 224 99***************************73.3334459********************************************..4499 PP E..EEEEE-S CS B3 90 felvvkvfrk 99 +el+v+v+r+ XP_009592683.1 225 GELRVGVRRA 234 99***996 PP
2	Auxin_resp	121.5	6.1e-40	259	341	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha++tk++F+v+Y+Pr+s+++F+v++++++k++k+++s+GmRfkm+fe+e+++e+r++Gt+vg++d dp rWp+SkWr+Lk XP_009592683.1 259 AWHAIQTKTMFTVYYKPRTSPADFIVPYDQYMKSVKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDGDPKRWPESKWRCLK 341 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	3.2E-40	126	248	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.7E-39	129	262	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	9.28E-20	131	233	No hit	No description
PROSITE profile	PS50863	11.251	133	235	IPR003340	B3 DNA binding domain
Pfam	PF02362	3.2E-20	133	234	IPR003340	B3 DNA binding domain
SMART	SM01019	5.2E-21	133	235	IPR003340	B3 DNA binding domain
Pfam	PF06507	6.4E-37	259	341	IPR010525	Auxin response factor
Pfam	PF02309	4.0E-9	705	784	IPR033389	AUX/IAA domain
SuperFamily	SSF54277	1.37E-11	706	784	No hit	No description
PROSITE profile	PS51745	21.617	708	792	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: 834 aa Download sequence Send to blast
MCTEMAASDS GHNAPGGAGN VDAERALYTE LWRACAGPLV TVPREGQLVF YFPQGHIEQV 60 EASTNQVSDQ QMPVYNLPSK ILCRVINVLL KAEPDTDEVY AQLTLMPEPN QDESAVTKEP 120 MPPSPPRFHV HSFCKTLTAS DTSTHGGFSV LRRHADECLP PLDMSRQPPT QELAAKDLHA 180 NQWRFRHIFR GQPRRHLLQS GWSVFVSSKR LVAGDAFIFL RGENGELRVG VRRAMRQQGN 240 APSSVISSHS MHLGVLATAW HAIQTKTMFT VYYKPRTSPA DFIVPYDQYM KSVKNNYSIG 300 MRFKMRFEGE EAPEQRFTGT IVGIEDGDPK RWPESKWRCL KVRWDESSAI PRPDQVSPWK 360 IEPALTPPAL NPLPIPRPKR PRSNVLPSSP DSSVLTREGS SKITADPSQA SGFSRVLKGQ 420 EMSTLKGNFV ENNGSDSSEN PIVWPPPLND GKTDVHSASR RCLSDKWLPL GRPESSFTDL 480 LSGFGVQVSS SHGLHLPTGG QTALPASLVK RQAMDKENEF SLLRKHWSLA SSGLSLNLMD 540 SGLKGGDTLY QMRETSRCSG FNEYPTLPGH RIDNQQGNWL MPQSVLPYTQ MSTHSGEMMP 600 KPMASLQPEA VKPKEGNCKL FGIPLRSDSA SIVPVKLRNN SPIDSASNMH FGVHHQFPAT 660 ESDLRSEQSK GSKVLDDGIT VNDQEKQFQT SHLGTRDREG KGLTNSTRSC TKVHKHGTAL 720 GRSVDLAKFN NYEELIAELD HLFYFNGELK AQNKNWLVVY TDDEGDMMLV GDDPWQEFCG 780 MVCKIFLYTK EEVQRMNAGS LNSIGEDNSS VAEGSDAKEV KDMQLPFESS PDDS

Sequence ? help Back to Top

Protein Sequence Length: 834 aa Download sequence Send to blast

MCTEMAASDS GHNAPGGAGN VDAERALYTE LWRACAGPLV TVPREGQLVF YFPQGHIEQV  60
EASTNQVSDQ QMPVYNLPSK ILCRVINVLL KAEPDTDEVY AQLTLMPEPN QDESAVTKEP  120
MPPSPPRFHV HSFCKTLTAS DTSTHGGFSV LRRHADECLP PLDMSRQPPT QELAAKDLHA  180
NQWRFRHIFR GQPRRHLLQS GWSVFVSSKR LVAGDAFIFL RGENGELRVG VRRAMRQQGN  240
APSSVISSHS MHLGVLATAW HAIQTKTMFT VYYKPRTSPA DFIVPYDQYM KSVKNNYSIG  300
MRFKMRFEGE EAPEQRFTGT IVGIEDGDPK RWPESKWRCL KVRWDESSAI PRPDQVSPWK  360
IEPALTPPAL NPLPIPRPKR PRSNVLPSSP DSSVLTREGS SKITADPSQA SGFSRVLKGQ  420
EMSTLKGNFV ENNGSDSSEN PIVWPPPLND GKTDVHSASR RCLSDKWLPL GRPESSFTDL  480
LSGFGVQVSS SHGLHLPTGG QTALPASLVK RQAMDKENEF SLLRKHWSLA SSGLSLNLMD  540
SGLKGGDTLY QMRETSRCSG FNEYPTLPGH RIDNQQGNWL MPQSVLPYTQ MSTHSGEMMP  600
KPMASLQPEA VKPKEGNCKL FGIPLRSDSA SIVPVKLRNN SPIDSASNMH FGVHHQFPAT  660
ESDLRSEQSK GSKVLDDGIT VNDQEKQFQT SHLGTRDREG KGLTNSTRSC TKVHKHGTAL  720
GRSVDLAKFN NYEELIAELD HLFYFNGELK AQNKNWLVVY TDDEGDMMLV GDDPWQEFCG  780
MVCKIFLYTK EEVQRMNAGS LNSIGEDNSS VAEGSDAKEV KDMQLPFESS PDDS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	1e-174	5	363	1	354	Auxin response factor 1
4ldw_A	1e-174	5	363	1	354	Auxin response factor 1
4ldw_B	1e-174	5	363	1	354	Auxin response factor 1
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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_009592683.1	0.0	PREDICTED: auxin response factor 2-like isoform X1
Refseq	XP_018624095.1	0.0	PREDICTED: auxin response factor 2-like isoform X1
Refseq	XP_018624096.1	0.0	PREDICTED: auxin response factor 2-like isoform X1
Refseq	XP_018624097.1	0.0	PREDICTED: auxin response factor 2-like isoform X1
Swissprot	K4DF01	0.0	ARF2B_SOLLC; Auxin response factor 2B
TrEMBL	A0A1S3ZQQ9	0.0	A0A1S3ZQQ9_TOBAC; Auxin response factor
STRING	XP_009592683.1	0.0	(Nicotiana tomentosiformis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA2618	24	44

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]