PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Chenopodiaceae; Betoideae; Beta

Family

ARF

Protein Properties

Length: 1142aa MW: 127712 Da PI: 6.5907

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Bv8_190650_zzhs.t1	genome	TBVR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	72.1	7e-23	125	226	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 f+k+lt sd++++g +++p++ ae++ + +++ ++l+ +d++++ W++++iyr++++r++lt+GW+ Fv++++L +gD+v+F Bv8_190650_zzhs.t1 125 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfsM-QPPA-QELMAKDLHSQAWTFRHIYRGQPKRHLLTTGWSVFVSSKRLFAGDSVLFI- 212 99***************************954.5444.48**********************************************. PP -SSSEE..EEEEE-S CS B3 85 dgrsefelvvkvfrk 99 ++++ +l+++++r+ Bv8_190650_zzhs.t1 213 -RDEKSHLLLGIRRA 226 .55778889999997 PP
2	Auxin_resp	123.6	1.4e-40	251	333	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa+++s+F+++YnPras++eFvv+++k++ka++++vs+GmRf+m+fete++ rr++Gt++g+sdldpvrW+nS+Wr+L+ Bv8_190650_zzhs.t1 251 AAHAAANNSPFTIFYNPRASPAEFVVPLAKYNKAMYTQVSLGMRFRMMFETEECGVRRYMGTITGISDLDPVRWKNSQWRNLQ 333 79*******************************************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.31E-43	114	254	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	6.0E-42	116	240	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	7.66E-19	124	225	No hit	No description
PROSITE profile	PS50863	12.28	125	227	IPR003340	B3 DNA binding domain
Pfam	PF02362	4.7E-21	125	226	IPR003340	B3 DNA binding domain
SMART	SM01019	1.8E-22	125	227	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.4E-35	251	333	IPR010525	Auxin response factor
Pfam	PF02309	2.7E-8	1015	1102	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	24.801	1017	1110	IPR000270	PB1 domain
SuperFamily	SSF54277	9.16E-8	1033	1096	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009723	Biological Process	response to ethylene
GO:0009733	Biological Process	response to auxin
GO:0010311	Biological Process	lateral root formation
GO:0048366	Biological Process	leaf development
GO:0005634	Cellular Component	nucleus
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 1142 aa Download sequence Send to blast
MKAPSNGLMA NSGEEGRVIN SELWHACAGP LVAVPPVGSL VVYFPQGHSE QVAASMQKET 60 DGIPSYPNLP SKLICMLHNV TLHADPETDE VYAQMTLQPV NKYDRDALLA SEMALKQSRQ 120 PTEFFCKTLT ASDTSTHGGF SVPRRAAEKI FPPLDFSMQP PAQELMAKDL HSQAWTFRHI 180 YRGQPKRHLL TTGWSVFVSS KRLFAGDSVL FIRDEKSHLL LGIRRANRQQ PALASSVISS 240 DSMHIGILAA AAHAAANNSP FTIFYNPRAS PAEFVVPLAK YNKAMYTQVS LGMRFRMMFE 300 TEECGVRRYM GTITGISDLD PVRWKNSQWR NLQVGWDEST AGERPSRVSI WDIEPVVTPF 360 YICPPPFFRP KFPKQPGMPD DESDMESIFK RGMPWLGDDF GMKDVPNSIF PGLSLVQWMS 420 MQQNNQFPGA QSAGFPSMLT ASALHGGLGT DDPSKLLNFQ APSLSVPNFQ FNKAVQQNQV 480 GQLQQQPAAW SQQQQLQQLL QNNSQQQQQP LQQQLQKQQL QQQQQQQQLQ QQQQQQLQQQ 540 QQQQQQQLQQ QQQQQVHQQQ QQQQQQQQQQ QPQQPPAPQK QQIPQLTSVN SGLVSPNQNL 600 NPNLSQSPMY SQLHHQQMVG GNNQAPQNVS ANKDPVHITS LPPDMQFQQQ TEQQSNVLQR 660 LQQQHQHQQQ AQLQQSSQQL FQESLSQRPP VLQNLSEHQL QFQLMQKLQQ QPQTQQQQAQ 720 QHQHQPQQSH PLLSPVTSQV QHQVTTQQHA GQQNQVLQQR SLSQYQPQVS VSTISTTQLM 780 SSPPMSAVQL QGMQKTSGIA RSLSGPTDGD APSCSTSPST NNCQIPHSSF LNRNQQVRNM 840 LVEHSVVEPN SNMLQDVQEK SDIRIKHEIP SSKVIEPSRI NGIITDPLEA SSSVTSYGLD 900 ASGLQQNLSL PSFGLDGDVQ SHPRNSIPLS TAMDGLTPDT LLSRDFDSGK ELHNLLSNYN 960 GAPRDIETEL SAAAMSSQSF GVPNMPFKTG CSNDVAAIND PAVLGGGMWP SQTQRMRTYT 1020 KVQKRGSVGR SIDVTRYKEY DELRRDLARM FGIEGQLEDP QRTDWKLVYV DHENDILLVG 1080 DDPWDEFVNC VQSIKILSSI EVQQMSLDGD LGSGPIPNQA SSGSDSGNAW RYDDHSAASF 1140 NR

Sequence ? help Back to Top

Protein Sequence Length: 1142 aa Download sequence Send to blast

MKAPSNGLMA NSGEEGRVIN SELWHACAGP LVAVPPVGSL VVYFPQGHSE QVAASMQKET  60
DGIPSYPNLP SKLICMLHNV TLHADPETDE VYAQMTLQPV NKYDRDALLA SEMALKQSRQ  120
PTEFFCKTLT ASDTSTHGGF SVPRRAAEKI FPPLDFSMQP PAQELMAKDL HSQAWTFRHI  180
YRGQPKRHLL TTGWSVFVSS KRLFAGDSVL FIRDEKSHLL LGIRRANRQQ PALASSVISS  240
DSMHIGILAA AAHAAANNSP FTIFYNPRAS PAEFVVPLAK YNKAMYTQVS LGMRFRMMFE  300
TEECGVRRYM GTITGISDLD PVRWKNSQWR NLQVGWDEST AGERPSRVSI WDIEPVVTPF  360
YICPPPFFRP KFPKQPGMPD DESDMESIFK RGMPWLGDDF GMKDVPNSIF PGLSLVQWMS  420
MQQNNQFPGA QSAGFPSMLT ASALHGGLGT DDPSKLLNFQ APSLSVPNFQ FNKAVQQNQV  480
GQLQQQPAAW SQQQQLQQLL QNNSQQQQQP LQQQLQKQQL QQQQQQQQLQ QQQQQQLQQQ  540
QQQQQQQLQQ QQQQQVHQQQ QQQQQQQQQQ QPQQPPAPQK QQIPQLTSVN SGLVSPNQNL  600
NPNLSQSPMY SQLHHQQMVG GNNQAPQNVS ANKDPVHITS LPPDMQFQQQ TEQQSNVLQR  660
LQQQHQHQQQ AQLQQSSQQL FQESLSQRPP VLQNLSEHQL QFQLMQKLQQ QPQTQQQQAQ  720
QHQHQPQQSH PLLSPVTSQV QHQVTTQQHA GQQNQVLQQR SLSQYQPQVS VSTISTTQLM  780
SSPPMSAVQL QGMQKTSGIA RSLSGPTDGD APSCSTSPST NNCQIPHSSF LNRNQQVRNM  840
LVEHSVVEPN SNMLQDVQEK SDIRIKHEIP SSKVIEPSRI NGIITDPLEA SSSVTSYGLD  900
ASGLQQNLSL PSFGLDGDVQ SHPRNSIPLS TAMDGLTPDT LLSRDFDSGK ELHNLLSNYN  960
GAPRDIETEL SAAAMSSQSF GVPNMPFKTG CSNDVAAIND PAVLGGGMWP SQTQRMRTYT  1020
KVQKRGSVGR SIDVTRYKEY DELRRDLARM FGIEGQLEDP QRTDWKLVYV DHENDILLVG  1080
DDPWDEFVNC VQSIKILSSI EVQQMSLDGD LGSGPIPNQA SSGSDSGNAW RYDDHSAASF  1140
NR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-172	12	354	44	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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Involved in ethylene responses. Regulates lateral root formation through direct regulation of LBD16 and/or LBD29. Functionally redundant with ARF7. {ECO:0000269\|PubMed:12036261, ECO:0000269\|PubMed:16461383, ECO:0000269\|PubMed:17259263}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin and ethylene. {ECO:0000269\|PubMed:16461383}.

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_010687536.1	0.0	PREDICTED: auxin response factor 7 isoform X1
Swissprot	Q8RYC8	0.0	ARFS_ARATH; Auxin response factor 19
TrEMBL	A0A4D9A5Y5	0.0	A0A4D9A5Y5_SALSN; Uncharacterized protein
STRING	XP_010687536.1	0.0	(Beta vulgaris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G19220.1	0.0	auxin response factor 19

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Perilli S, et al. RETINOBLASTOMA-RELATED protein stimulates cell differentiation in the Arabidopsis root meristem by interacting with cytokinin signaling. Plant Cell, 2013. 25(11): p. 4469-78 [PMID:24285791] Sun Y, et al. Manipulation of Auxin Response Factor 19 affects seed size in the woody perennial Jatropha curcas. Sci Rep, 2017. 7: p. 40844 [PMID:28102350] 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] Olmo R, et al. Molecular Transducers from Roots Are Triggered in Arabidopsis Leaves by Root-Knot Nematodes for Successful Feeding Site Formation: A Conserved Post-Embryogenic De novo Organogenesis Program? Front Plant Sci, 2017. 8: p. 875 [PMID:28603536] Lee K,Seo PJ High-temperature promotion of callus formation requires the BIN2-ARF-LBD axis in Arabidopsis. Planta, 2017. 246(4): p. 797-802 [PMID:28766014] Ayala-Rodríguez JÁ,Barrera-Ortiz S,Ruiz-Herrera LF,López-Bucio J Folic acid orchestrates root development linking cell elongation with auxin response and acts independently of the TARGET OF RAPAMYCIN signaling in Arabidopsis thaliana. Plant Sci., 2017. 264: p. 168-178 [PMID:28969797] Nakamura M, et al. Auxin and ROP GTPase Signaling of Polar Nuclear Migration in Root Epidermal Hair Cells. Plant Physiol., 2018. 176(1): p. 378-391 [PMID:29084900] Hong L, et al. Alternative polyadenylation is involved in auxin-based plant growth and development. Plant J., 2018. 93(2): p. 246-258 [PMID:29155478] Lee K,Park OS,Seo PJ Arabidopsis ATXR2 deposits H3K36me3 at the promoters of LBD genes to facilitate cellular dedifferentiation. Sci Signal, 2018. [PMID:29184030] Kimura T, et al. Asymmetric Auxin Distribution is Not Required to Establish Root Phototropism in Arabidopsis. Plant Cell Physiol., 2018. 59(4): p. 823-835 [PMID:29401292] Schoenaers S, et al. The Auxin-Regulated CrRLK1L Kinase ERULUS Controls Cell Wall Composition during Root Hair Tip Growth. Curr. Biol., 2018. 28(5): p. 722-732.e6 [PMID:29478854] Huang KL, et al. The ARF7 and ARF19 Transcription Factors Positively Regulate PHOSPHATE STARVATION RESPONSE1 in Arabidopsis Roots. Plant Physiol., 2018. 178(1): p. 413-427 [PMID:30026290]