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_016466718.1

Organism

Nicotiana tabacum

Taxonomic ID

4097

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: 783aa MW: 87231.4 Da PI: 7.127

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_016466718.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	70.8	1.7e-22	82	183	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_016466718.1 82 FCKTLTASDTSTHGGFSVLRRHADEClppldmS-RQPPTQELAAKDLHANQWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RGEN 173 99***************************73.3334459********************************************..4499 PP E..EEEEE-S CS B3 90 felvvkvfrk 99 +el+v+v+r+ XP_016466718.1 174 GELRVGVRRA 183 99***996 PP
2	Auxin_resp	121.7	5.6e-40	208	290	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_016466718.1 208 AWHAIQTKTMFTVYYKPRTSPADFIVPYDQYMKSVKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDGDPKRWPESKWRCLK 290 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	2.9E-40	75	197	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.57E-39	78	211	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	8.25E-20	80	182	No hit	No description
PROSITE profile	PS50863	11.251	82	184	IPR003340	B3 DNA binding domain
Pfam	PF02362	3.0E-20	82	183	IPR003340	B3 DNA binding domain
SMART	SM01019	5.2E-21	82	184	IPR003340	B3 DNA binding domain
Pfam	PF06507	5.9E-37	208	290	IPR010525	Auxin response factor
Pfam	PF02309	4.0E-9	654	733	IPR033389	AUX/IAA domain
SuperFamily	SSF54277	1.28E-11	655	733	No hit	No description
PROSITE profile	PS51745	21.617	657	741	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: 783 aa Download sequence Send to blast
MLPAAPEMVE ASTNQVSDQQ MPVYNLPSKI LCRVINVLLK AEPDTDEVYA QLTLMPEPNQ 60 DESAVTKEPM PPSPPRFHVH SFCKTLTASD TSTHGGFSVL RRHADECLPP LDMSRQPPTQ 120 ELAAKDLHAN QWRFRHIFRG QPRRHLLQSG WSVFVSSKRL VAGDAFIFLR GENGELRVGV 180 RRAMRQQGNA PSSVISSHSM HLGVLATAWH AIQTKTMFTV YYKPRTSPAD FIVPYDQYMK 240 SVKNNYSIGM RFKMRFEGEE APEQRFTGTI VGIEDGDPKR WPESKWRCLK VRWDESSAIP 300 RPDQVSPWKI EPALTPPALN PLPIPRPKRP RSNVLPSSPD SSVLTREGSS KITADPSQAS 360 GFSRVLKGQE MSTLKGNFVE NNGSDSSENP IVWPPPLNDG KTDVHSASRR CLSDKWLPLG 420 RPESSFTDLL SGFGVQVSSS HGLHLPTGGQ TALPASLVKR QAMDRENEFS LLRKHWSLAS 480 SGLSLNLMDS GLKGGDTLYQ MRETSRCSGF NEYPTLPGHR IDNQQGNWLM PQSVLPYTQM 540 STHSGEMMPK PMASLQPEAV KPKEGNCKLF GIPLRSDSAS IVPVKLRNNS PIDSASNMHF 600 GVHHQFPATE SDLRSEQSKG SKVLDDGITV NDQEKQFQTS HLGTRDREGK GLTNSTRSCT 660 KVHKHGTALG RSVDLAKFNN YEELIAELDH LFYFNGELKA QNKNWLVVYT DDEGDMMLVG 720 DDPWQEFCGM VCKIFLYTKE EVQRMNAGSL NSIGEDNSSV AEGSDAKEVK DMQLPFESSP 780 DDS

Sequence ? help Back to Top

Protein Sequence Length: 783 aa Download sequence Send to blast

MLPAAPEMVE ASTNQVSDQQ MPVYNLPSKI LCRVINVLLK AEPDTDEVYA QLTLMPEPNQ  60
DESAVTKEPM PPSPPRFHVH SFCKTLTASD TSTHGGFSVL RRHADECLPP LDMSRQPPTQ  120
ELAAKDLHAN QWRFRHIFRG QPRRHLLQSG WSVFVSSKRL VAGDAFIFLR GENGELRVGV  180
RRAMRQQGNA PSSVISSHSM HLGVLATAWH AIQTKTMFTV YYKPRTSPAD FIVPYDQYMK  240
SVKNNYSIGM RFKMRFEGEE APEQRFTGTI VGIEDGDPKR WPESKWRCLK VRWDESSAIP  300
RPDQVSPWKI EPALTPPALN PLPIPRPKRP RSNVLPSSPD SSVLTREGSS KITADPSQAS  360
GFSRVLKGQE MSTLKGNFVE NNGSDSSENP IVWPPPLNDG KTDVHSASRR CLSDKWLPLG  420
RPESSFTDLL SGFGVQVSSS HGLHLPTGGQ TALPASLVKR QAMDRENEFS LLRKHWSLAS  480
SGLSLNLMDS GLKGGDTLYQ MRETSRCSGF NEYPTLPGHR IDNQQGNWLM PQSVLPYTQM  540
STHSGEMMPK PMASLQPEAV KPKEGNCKLF GIPLRSDSAS IVPVKLRNNS PIDSASNMHF  600
GVHHQFPATE SDLRSEQSKG SKVLDDGITV NDQEKQFQTS HLGTRDREGK GLTNSTRSCT  660
KVHKHGTALG RSVDLAKFNN YEELIAELDH LFYFNGELKA QNKNWLVVYT DDEGDMMLVG  720
DDPWQEFCGM VCKIFLYTKE EVQRMNAGSL NSIGEDNSSV AEGSDAKEVK DMQLPFESSP  780
DDS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	1e-150	7	312	50	354	Auxin response factor 1
4ldw_A	1e-150	7	312	50	354	Auxin response factor 1
4ldw_B	1e-150	7	312	50	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_016466718.1	0.0	PREDICTED: auxin response factor 2-like isoform X3
Swissprot	K4DF01	0.0	ARF2B_SOLLC; Auxin response factor 2B
TrEMBL	A0A1S3ZR34	0.0	A0A1S3ZR34_TOBAC; Auxin response factor
STRING	XP_009592683.1	0.0	(Nicotiana tomentosiformis)

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]