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

Sopen12g021160.1

Organism

Solanum pennellii

Taxonomic ID

28526

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

ARF

Protein Properties

Length: 829aa MW: 92517.3 Da PI: 6.9159

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sopen12g021160.1	genome	spenn	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	71.6	1e-22	128	229	1	99
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 f+k+lt sd++++g +++ +++a+e+ + + + +++l+ +d++ ++W++++i+r++++r++l++GW+ Fv++++L +gD ++F + Sopen12g021160.1 128 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHANEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RG 217 99***************************7333.34459********************************************..44 PP SEE..EEEEE-S CS B3 88 sefelvvkvfrk 99 +++el+v+v+r+ Sopen12g021160.1 218 ENGELRVGVRRA 229 9999***996 PP
2	Auxin_resp	117.6	1e-38	254	336	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha++tk+ F+v+Y+Pr+s++eF+v++++++++lk+++s+GmRfkm+fe+e+++e+r++Gt+vg++++d rWp+SkWr+Lk Sopen12g021160.1 254 AWHAIQTKTLFTVYYKPRTSPAEFIVPYDQYMESLKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIENADLKRWPESKWRCLK 336 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	1.4E-40	124	243	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	4.19E-40	124	257	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.37E-20	126	228	No hit	No description
Pfam	PF02362	1.4E-20	128	229	IPR003340	B3 DNA binding domain
SMART	SM01019	4.1E-22	128	230	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.42	128	230	IPR003340	B3 DNA binding domain
Pfam	PF06507	5.7E-36	254	336	IPR010525	Auxin response factor
Pfam	PF02309	2.6E-10	696	787	IPR033389	AUX/IAA domain
SuperFamily	SSF54277	1.62E-12	700	780	No hit	No description
PROSITE profile	PS51745	24.419	703	796	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: 829 aa Download sequence Send to blast
MATSENCRNA AGAGKVDAEK ALYTELWRAC AGPLVTVPCE GELVFYFPQG HIEQVEASTN 60 QASDQQMPVY NLPSKILCRV INVLLKAEPD TDEVYAQVTL LPEPNQDENV VSKEPMPSPP 120 PRFHVHSFCK TLTASDTSTH GGFSVLRRHA DECLPPLDMS RQPPTQELVA KDLHANEWRF 180 RHIFRGQPRR HLLQSGWSVF VSSKRLVAGD AFIFLRGENG ELRVGVRRAM RQQGNAPSSV 240 ISSHSMHLGV LATAWHAIQT KTLFTVYYKP RTSPAEFIVP YDQYMESLKN NYSIGMRFKM 300 RFEGEEAPEQ RFTGTIVGIE NADLKRWPES KWRCLKVRWD ETSAIPRPDR VSPWKVEPAL 360 SPPALNPLPI PRQKRPRSNV LPSSPDSSVL TREGSSKVAV DTSQASGFSR VLQGQEISTL 420 RGNFVENNES DSSEKPPIWQ PLLDDEKADV HSASRKCISD KRLPLGRPES SFTDLLSGFG 480 GQSSSSHGFH SPTGGQTAPA SWVKRQALDK ETDFSLLGKQ WSLVSSGLSL NLMESGLKGA 540 DTLYQMRGTS RLNGFNEYPT LPGHRPDNQQ GNWLMPPSVL PYIQMSAHSG EIMPKPMVSP 600 QPEAMKPKEG NCKLFGIPLV SKCATIDPVM LRKNSPIHST SNMHFGIHPH QFPIIESDQR 660 SEQSKGSKLP DDGFIVHDQE EQFQTSHPGT RDREGKGLVH STRSCTKVHK QGTALGRSVD 720 LAKFNNYEEL IAELDHIFDF NGELKARNKN WLVVYTDDEG DMMLVGDDPW QEFCGMVRKI 780 FIYTKDEVKR MNPGTLNSKG EDDSSVAEGS DAKEVKNLQL HIDSSPEDS

Sequence ? help Back to Top

Protein Sequence Length: 829 aa Download sequence Send to blast

MATSENCRNA AGAGKVDAEK ALYTELWRAC AGPLVTVPCE GELVFYFPQG HIEQVEASTN  60
QASDQQMPVY NLPSKILCRV INVLLKAEPD TDEVYAQVTL LPEPNQDENV VSKEPMPSPP  120
PRFHVHSFCK TLTASDTSTH GGFSVLRRHA DECLPPLDMS RQPPTQELVA KDLHANEWRF  180
RHIFRGQPRR HLLQSGWSVF VSSKRLVAGD AFIFLRGENG ELRVGVRRAM RQQGNAPSSV  240
ISSHSMHLGV LATAWHAIQT KTLFTVYYKP RTSPAEFIVP YDQYMESLKN NYSIGMRFKM  300
RFEGEEAPEQ RFTGTIVGIE NADLKRWPES KWRCLKVRWD ETSAIPRPDR VSPWKVEPAL  360
SPPALNPLPI PRQKRPRSNV LPSSPDSSVL TREGSSKVAV DTSQASGFSR VLQGQEISTL  420
RGNFVENNES DSSEKPPIWQ PLLDDEKADV HSASRKCISD KRLPLGRPES SFTDLLSGFG  480
GQSSSSHGFH SPTGGQTAPA SWVKRQALDK ETDFSLLGKQ WSLVSSGLSL NLMESGLKGA  540
DTLYQMRGTS RLNGFNEYPT LPGHRPDNQQ GNWLMPPSVL PYIQMSAHSG EIMPKPMVSP  600
QPEAMKPKEG NCKLFGIPLV SKCATIDPVM LRKNSPIHST SNMHFGIHPH QFPIIESDQR  660
SEQSKGSKLP DDGFIVHDQE EQFQTSHPGT RDREGKGLVH STRSCTKVHK QGTALGRSVD  720
LAKFNNYEEL IAELDHIFDF NGELKARNKN WLVVYTDDEG DMMLVGDDPW QEFCGMVRKI  780
FIYTKDEVKR MNPGTLNSKG EDDSSVAEGS DAKEVKNLQL HIDSSPEDS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	1e-173	1	358	1	354	Auxin response factor 1
4ldw_A	1e-173	1	358	1	354	Auxin response factor 1
4ldw_B	1e-173	1	358	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_015060604.1	0.0	auxin response factor 2B isoform X1
Swissprot	K4DF01	0.0	ARF2B_SOLLC; Auxin response factor 2B
TrEMBL	M1B5E8	0.0	M1B5E8_SOLTU; Auxin response factor
STRING	Solyc12g042070.1.1	0.0	(Solanum lycopersicum)

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]