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

Lus10017640

Organism

Linum usitatissimum

Taxonomic ID

4006

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum

Family

ARF

Protein Properties

Length: 946aa MW: 104781 Da PI: 6.6778

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lus10017640	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	72.1	7.1e-23	146	246	1	98
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 f+k+lt sd++++g +++p++ ae+ ++ +++ ++l+ +d++ ++W++++ +r++++r++lt+GW+ Fv+a++L +gD+v+F ++++ ++ Lus10017640 146 FCKTLTASDTSTHGGFSVPRRAAEKVfppldySQTPPC-QELIARDLHDNEWKFRHVFRGQPKRHLLTTGWSVFVSAKRLVAGDSVIFI--WNEKNQM 240 99**************************98555666.59**********************************************..8888889 PP EEEEE- CS B3 93 vvkvfr 98 +++++ Lus10017640 241 LLGIRH 246 999886 PP
2	Auxin_resp	91.3	1.7e-30	293	359	18	83
Auxin_resp 18 rastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 ras+seFv++++k++ka++ ++vsvGmRf+m fete+ss rr++Gt++g+sdldpvrW+nS+Wrs+k Lus10017640 293 RASPSEFVIPLAKYVKAVYhTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWQNSHWRSVK 359 89**************9789****************************************985 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	4.58E-48	131	275	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.3E-40	139	261	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	6.88E-22	145	238	No hit	No description
PROSITE profile	PS50863	12.012	146	248	IPR003340	B3 DNA binding domain
SMART	SM01019	3.8E-23	146	248	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.1E-20	146	247	IPR003340	B3 DNA binding domain
Pfam	PF06507	3.1E-25	293	359	IPR010525	Auxin response factor
SuperFamily	SSF54277	1.83E-7	824	906	No hit	No description
Pfam	PF02309	2.5E-6	825	917	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	23.045	832	916	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: 946 aa Download sequence Send to blast
MRLSSPGFNQ QAQEVGDNKC LNSELWHACA GPLVSLPTLG TRVVYFPQGH SEQASFNISS 60 SPIKHLMLAD SASSTNKEVD AHIPNYPSLP PQLICQLHNV TMHSDIETDE VYAQMTLQPL 120 SPQEQKEVYL LPAELGAPSK QPTNYFCKTL TASDTSTHGG FSVPRRAAEK VFPPLDYSQT 180 PPCQELIARD LHDNEWKFRH VFRGQPKRHL LTTGWSVFVS AKRLVAGDSV IFIWNEKNQM 240 LLGIRHANRP QTFMPSSVLS SDSMHIGLLA AAAHAAATNS PCTDPVIRAS QFRASPSEFV 300 IPLAKYVKAV YHTRVSVGMR FRMLFETEES SVRRYMGTIT GISDLDPVRW QNSHWRSVKV 360 GWDESTAGER QPRVSLWEIE PLTTFPMYPS PFPMRLKRPW PSGMPSFGLK DSDLNINSQL 420 MWLQGLGDQG MQSMNFQGFG VNPWLQPRID ASIQALQPDV YQAMAAAALQ EMRAVESSKL 480 GSQSVMQFPP SQIVSNDPGA LLQREMLQPS SNLQHAFLQN FQESQASSQA QLIHQQLQRH 540 PMYNDQQQEQ KQPQHPPPQS RQVQQPQQQH QLSSQHQPSL QHQPSSQHQP SPQHQLSSQH 600 RPSSQHQPSP QHQPPSQHQT SNVVSSLSHH TSINPSQSAS LQSQHPAFSE PVVNPVAAGD 660 VSSMHSVMGS MIRDGAPNNM FNLNGSNGGG VSSTLLSRQV ADGQRFSPGI ADCTLPKVDQ 720 LLQSNASEHA TLLPPFPGRE YSAYQGATDQ QNNTLFGINI DSSSYMLQHG IGNMRNIGNG 780 SDPLSMPFAS AYPNANGSEL PLNSDMTTSS CVDESGYLQS SENVDQVNPP TRTFVKVHKT 840 GSFGRSLDIS TFSSYDELRV ELARLFGLEG QLEDPQRSGW QLVFVDREND VLLLGDDPWQ 900 EFVNNVWYIK ILSPVEVQQM GKEGLSSVAS VPPQKKLRNA NIGDY*

Sequence ? help Back to Top

Protein Sequence Length: 946 aa Download sequence Send to blast

MRLSSPGFNQ QAQEVGDNKC LNSELWHACA GPLVSLPTLG TRVVYFPQGH SEQASFNISS  60
SPIKHLMLAD SASSTNKEVD AHIPNYPSLP PQLICQLHNV TMHSDIETDE VYAQMTLQPL  120
SPQEQKEVYL LPAELGAPSK QPTNYFCKTL TASDTSTHGG FSVPRRAAEK VFPPLDYSQT  180
PPCQELIARD LHDNEWKFRH VFRGQPKRHL LTTGWSVFVS AKRLVAGDSV IFIWNEKNQM  240
LLGIRHANRP QTFMPSSVLS SDSMHIGLLA AAAHAAATNS PCTDPVIRAS QFRASPSEFV  300
IPLAKYVKAV YHTRVSVGMR FRMLFETEES SVRRYMGTIT GISDLDPVRW QNSHWRSVKV  360
GWDESTAGER QPRVSLWEIE PLTTFPMYPS PFPMRLKRPW PSGMPSFGLK DSDLNINSQL  420
MWLQGLGDQG MQSMNFQGFG VNPWLQPRID ASIQALQPDV YQAMAAAALQ EMRAVESSKL  480
GSQSVMQFPP SQIVSNDPGA LLQREMLQPS SNLQHAFLQN FQESQASSQA QLIHQQLQRH  540
PMYNDQQQEQ KQPQHPPPQS RQVQQPQQQH QLSSQHQPSL QHQPSSQHQP SPQHQLSSQH  600
RPSSQHQPSP QHQPPSQHQT SNVVSSLSHH TSINPSQSAS LQSQHPAFSE PVVNPVAAGD  660
VSSMHSVMGS MIRDGAPNNM FNLNGSNGGG VSSTLLSRQV ADGQRFSPGI ADCTLPKVDQ  720
LLQSNASEHA TLLPPFPGRE YSAYQGATDQ QNNTLFGINI DSSSYMLQHG IGNMRNIGNG  780
SDPLSMPFAS AYPNANGSEL PLNSDMTTSS CVDESGYLQS SENVDQVNPP TRTFVKVHKT  840
GSFGRSLDIS TFSSYDELRV ELARLFGLEG QLEDPQRSGW QLVFVDREND VLLLGDDPWQ  900
EFVNNVWYIK ILSPVEVQQM GKEGLSSVAS VPPQKKLRNA NIGDY*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-144	21	380	51	388	Auxin response factor 5
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Auxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). Seems to act as transcriptional activator. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Regulates both stamen and gynoecium maturation. Promotes jasmonic acid production. Partially redundant with ARF8. {ECO:0000269\|PubMed:12036261, ECO:0000269\|PubMed:16107481}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Lus10017640

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by miR167. {ECO:0000269\|PubMed:17021043}.

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_002307574.2	0.0	auxin response factor 6
Swissprot	Q9ZTX8	0.0	ARFF_ARATH; Auxin response factor 6
TrEMBL	A9PFL0	0.0	A9PFL0_POPTR; Auxin response factor
STRING	Lus10017640	0.0	(Linum usitatissimum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1765	34	88

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G30330.2	0.0	auxin response factor 6

Link Out ? help Back to Top
Phytozome	Lus10017640

Publications ? help Back to Top
Liu N, et al. Down-regulation of AUXIN RESPONSE FACTORS 6 and 8 by microRNA 167 leads to floral development defects and female sterility in tomato. J. Exp. Bot., 2014. 65(9): p. 2507-20 [PMID:24723401] Oh E, et al. Cell elongation is regulated through a central circuit of interacting transcription factors in the Arabidopsis hypocotyl. Elife, 2015. [PMID:24867218] Minato N, et al. The phytoplasmal virulence factor TENGU causes plant sterility by downregulating of the jasmonic acid and auxin pathways. Sci Rep, 2014. 4: p. 7399 [PMID:25492247] Ortega-Amaro MA, et al. Overexpression of AtGRDP2, a novel glycine-rich domain protein, accelerates plant growth and improves stress tolerance. Front Plant Sci, 2014. 5: p. 782 [PMID:25653657] Asahina M,Satoh S Molecular and physiological mechanisms regulating tissue reunion in incised plant tissues. J. Plant Res., 2015. 128(3): p. 381-8 [PMID:25736731] Batista VG,Pinheiro MP,Melo Filho PA,Santos RC,Lima LM Temporal and tissue expression of genes involved in buds of earliness cotton cultivar. Genet. Mol. Res., 2015. 14(3): p. 7386-94 [PMID:26214417] Li P, et al. Ca(2+) -regulated and diurnal rhythm-regulated Na(+) /Ca(2+) exchanger AtNCL affects flowering time and auxin signalling in Arabidopsis. Plant Cell Environ., 2016. 39(2): p. 377-92 [PMID:26296956] Barik S, et al. Coevolution Pattern and Functional Conservation or Divergence of miR167s and their targets across Diverse Plant Species. Sci Rep, 2015. 5: p. 14611 [PMID:26459056] Luo S, et al. Constitutive Expression of OsIAA9 Affects Starch Granules Accumulation and Root Gravitropic Response in Arabidopsis. Front Plant Sci, 2015. 6: p. 1156 [PMID:26734051] Wójcikowska B,Gaj MD Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis. Plant Cell Rep., 2017. 36(6): p. 843-858 [PMID:28255787] Zhang GZ, et al. Ectopic expression of UGT84A2 delayed flowering by indole-3-butyric acid-mediated transcriptional repression of ARF6 and ARF8 genes in Arabidopsis. Plant Cell Rep., 2017. 36(12): p. 1995-2006 [PMID:29027578] Liu Z, et al. ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis. Plant Cell Physiol., 2018. 59(1): p. 179-189 [PMID:29145642]