PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna

Family

ARF

Protein Properties

Length: 945aa MW: 104525 Da PI: 5.8551

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Vang01g16270.1	genome	SNU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	75.4	6.3e-24	159	260	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 +++p++ ae+ +++++ ++l+++d++ ++W++++iyr++++r++lt+GW+ Fv +++L++gD+v+F ++++ Vang01g16270.1 159 FCKTLTASDTSTHGGFSVPRRAAEKLfppldyTIQPPT-QELVVRDLHDNTWTFRHIYRGQPKRHLLTTGWSLFVGSKRLRAGDSVLFI--RDEK 250 99*******************999*9555555.49********************************************..4577 PP E..EEEEE-S CS B3 90 felvvkvfrk 99 +l+v+v+r Vang01g16270.1 251 SQLRVGVRRV 260 778**985 PP
2	Auxin_resp	96	5.6e-32	285	380	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserr............lsGtvvgvsdldpvrWpnSkWrsL 82 aahaa+++s+F+++YnPra++seFv++++k++ka+ ++vsvGmRf m+fete+s +rr ++Gt+vg+sd+dp+rWp+S+Wr++ Vang01g16270.1 285 AAHAAANRSPFTIFYNPRACPSEFVIPLAKYRKAVLgTQVSVGMRFGMMFETEESGKRRhenlthaspfcrYMGTIVGISDVDPLRWPDSRWRNI 379 79******************************988*************9988644444444432269******************98 PP Auxin_resp 83 k 83 + Vang01g16270.1 380 Q 380 6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	5.62E-47	147	288	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	5.0E-41	152	273	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	5.99E-23	158	259	No hit	No description
Pfam	PF02362	2.5E-21	159	260	IPR003340	B3 DNA binding domain
SMART	SM01019	8.5E-25	159	261	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	12.872	159	261	IPR003340	B3 DNA binding domain
Pfam	PF06507	2.8E-27	285	380	IPR010525	Auxin response factor
Pfam	PF02309	4.7E-10	835	924	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	23.628	838	922	IPR000270	PB1 domain
SuperFamily	SSF54277	4.61E-8	840	917	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:0009733	Biological Process	response to auxin
GO:0009908	Biological Process	flower development
GO:0009942	Biological Process	longitudinal axis specification
GO:0010305	Biological Process	leaf vascular tissue pattern formation
GO:0048364	Biological Process	root development
GO:0048507	Biological Process	meristem development
GO:0005634	Cellular Component	nucleus
GO:0016020	Cellular Component	membrane
GO:0042802	Molecular Function	identical protein binding
GO:0044212	Molecular Function	transcription regulatory region DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 945 aa Download sequence Send to blast
MMASVEEKLK TGGVGVGVGA GAGGGMVVGS QTLMAEMKLL KEMQEHSGVR KTLNSELWHA 60 CAGPLVSLPQ VGSLVFYFPQ GHSEQVAAST RRTATSQIPN YPNLPSQLLC QVQNVTLHAD 120 KETDEIYAQM SLQPLNSEKE AFPISDFGLK PSKHPTEFFC KTLTASDTST HGGFSVPRRA 180 AEKLFPPLDY TIQPPTQELV VRDLHDNTWT FRHIYRGQPK RHLLTTGWSL FVGSKRLRAG 240 DSVLFIRDEK SQLRVGVRRV NRQQTTLPSS VLSADSMHIG VLAAAAHAAA NRSPFTIFYN 300 PRACPSEFVI PLAKYRKAVL GTQVSVGMRF GMMFETEESG KRRHENLTHA SPFCRYMGTI 360 VGISDVDPLR WPDSRWRNIQ VEWDEPGCGD KQNRVSVWEI ETPESLFIFP SLTSSLKRPL 420 QSGFYGKRPF MRVPENGTME LPNSMPNLYS EHLMKMLFKP QIINNNGALF SAMQQESAAA 480 RGPLQEMKTT LAADSMPLRN LHTQSIPDQP IPLNMQSLLK SDQPEKLHTL AKIELPSGIV 540 ADKPKLEPEV LPPDHMLDYA STSMEGCNME KVPTNPVNQQ GLANQLTFHN QNQTPLTQST 600 PWPMQAQIES SLPHPQMIDM AQAETAMVNS LLPQLDIDEW MAYASSGPFA TPNRPTGPLP 660 ELQEHTSLQP QVVNPPLPNH EVWDHYVKSL KFLSQTDQLA SICQPGTFNG INGLPSPNSL 720 RGLSAESNNQ SEICVNVDVS NSVGTTVVDP STSSTILDEF CTMKEREFQN PNDCMMGNLS 780 SNQDVQSQIT SASLTESHAF SFRDIPDNSG GTSSSHVDFD ENSFLQNNSW QQVPAPIRTY 840 TKVQKAGSVG RSIDVTTFKN YEELIRAIEC MFGLDGLLND TKGSGWKLVY VDYESDVLLV 900 GDDPWEEFVG CVRCIRILSP TEVQQMSEEG MKLLNSGALQ GMNV*

Sequence ? help Back to Top

Protein Sequence Length: 945 aa Download sequence Send to blast

MMASVEEKLK TGGVGVGVGA GAGGGMVVGS QTLMAEMKLL KEMQEHSGVR KTLNSELWHA  60
CAGPLVSLPQ VGSLVFYFPQ GHSEQVAAST RRTATSQIPN YPNLPSQLLC QVQNVTLHAD  120
KETDEIYAQM SLQPLNSEKE AFPISDFGLK PSKHPTEFFC KTLTASDTST HGGFSVPRRA  180
AEKLFPPLDY TIQPPTQELV VRDLHDNTWT FRHIYRGQPK RHLLTTGWSL FVGSKRLRAG  240
DSVLFIRDEK SQLRVGVRRV NRQQTTLPSS VLSADSMHIG VLAAAAHAAA NRSPFTIFYN  300
PRACPSEFVI PLAKYRKAVL GTQVSVGMRF GMMFETEESG KRRHENLTHA SPFCRYMGTI  360
VGISDVDPLR WPDSRWRNIQ VEWDEPGCGD KQNRVSVWEI ETPESLFIFP SLTSSLKRPL  420
QSGFYGKRPF MRVPENGTME LPNSMPNLYS EHLMKMLFKP QIINNNGALF SAMQQESAAA  480
RGPLQEMKTT LAADSMPLRN LHTQSIPDQP IPLNMQSLLK SDQPEKLHTL AKIELPSGIV  540
ADKPKLEPEV LPPDHMLDYA STSMEGCNME KVPTNPVNQQ GLANQLTFHN QNQTPLTQST  600
PWPMQAQIES SLPHPQMIDM AQAETAMVNS LLPQLDIDEW MAYASSGPFA TPNRPTGPLP  660
ELQEHTSLQP QVVNPPLPNH EVWDHYVKSL KFLSQTDQLA SICQPGTFNG INGLPSPNSL  720
RGLSAESNNQ SEICVNVDVS NSVGTTVVDP STSSTILDEF CTMKEREFQN PNDCMMGNLS  780
SNQDVQSQIT SASLTESHAF SFRDIPDNSG GTSSSHVDFD ENSFLQNNSW QQVPAPIRTY  840
TKVQKAGSVG RSIDVTTFKN YEELIRAIEC MFGLDGLLND TKGSGWKLVY VDYESDVLLV  900
GDDPWEEFVG CVRCIRILSP TEVQQMSEEG MKLLNSGALQ GMNV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	0.0	1	405	1	392	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. Mediates embryo axis formation and vascular tissues differentiation. Functionally redundant with ARF7. May be necessary to counteract AMP1 activity. {ECO:0000269\|PubMed:12036261, ECO:0000269\|PubMed:14973283, ECO:0000269\|PubMed:17553903}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00153	DAP	Transfer from AT1G19850	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Vang01g16270.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP015036	0.0	AP015036.1 Vigna angularis var. angularis DNA, chromosome 3, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_017430734.1	0.0	PREDICTED: auxin response factor 5
Swissprot	P93024	0.0	ARFE_ARATH; Auxin response factor 5
TrEMBL	A0A0S3RQD9	0.0	A0A0S3RQD9_PHAAN; Auxin response factor
STRING	XP_007160683.1	0.0	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF8991	32	41

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G19850.1	0.0	ARF family protein

Publications ? help Back to Top
Chen MK,Wilson RL,Palme K,Ditengou FA,Shpak ED ERECTA family genes regulate auxin transport in the shoot apical meristem and forming leaf primordia. Plant Physiol., 2013. 162(4): p. 1978-91 [PMID:23821653] Huang JB, et al. ROP3 GTPase contributes to polar auxin transport and auxin responses and is important for embryogenesis and seedling growth in Arabidopsis. Plant Cell, 2014. 26(9): p. 3501-18 [PMID:25217509] Qi J, et al. Auxin depletion from leaf primordia contributes to organ patterning. Proc. Natl. Acad. Sci. U.S.A., 2014. 111(52): p. 18769-74 [PMID:25512543] Crawford BC, et al. Plant development. Genetic control of distal stem cell fate within root and embryonic meristems. Science, 2015. 347(6222): p. 655-9 [PMID:25612610] Zhang Y, et al. Regulation of oncogene expression in T-DNA-transformed host plant cells. PLoS Pathog., 2015. 11(1): p. e1004620 [PMID:25615824] Robert HS, et al. Plant embryogenesis requires AUX/LAX-mediated auxin influx. Development, 2015. 142(4): p. 702-11 [PMID:25617434] Krogan NT,Berleth T The identification and characterization of specific ARF-Aux/IAA regulatory modules in plant growth and development. Plant Signal Behav, 2015. 10(4): p. e992748 [PMID:25830553] Ckurshumova W,Berleth T Overcoming recalcitrance - Auxin response factor functions in plant regeneration. Plant Signal Behav, 2015. 10(7): p. e993293 [PMID:26098229] Wendrich JR, et al. A set of domain-specific markers in the Arabidopsis embryo. Plant Reprod, 2015. 28(3-4): p. 153-60 [PMID:26216537] Wu MF, et al. Auxin-regulated chromatin switch directs acquisition of flower primordium founder fate. Elife, 2015. 4: p. e09269 [PMID:26460543] Yamaguchi N,Jeong CW,Nole-Wilson S,Krizek BA,Wagner D AINTEGUMENTA and AINTEGUMENTA-LIKE6/PLETHORA3 Induce LEAFY Expression in Response to Auxin to Promote the Onset of Flower Formation in Arabidopsis. Plant Physiol., 2016. 170(1): p. 283-93 [PMID:26537561] Müller CJ, et al. PHABULOSA Mediates an Auxin Signaling Loop to Regulate Vascular Patterning in Arabidopsis. Plant Physiol., 2016. 170(2): p. 956-70 [PMID:26637548] Herud O,Weijers D,Lau S,Jürgens G Auxin responsiveness of the MONOPTEROS-BODENLOS module in primary root initiation critically depends on the nuclear import kinetics of the Aux/IAA inhibitor BODENLOS. Plant J., 2016. 85(2): p. 269-77 [PMID:26714008] 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] Yamaguchi N,Wu MF,Winter CM,Wagner D LEAFY and Polar Auxin Transport Coordinately Regulate Arabidopsis Flower Development. Plants (Basel), 2014. 3(2): p. 251-65 [PMID:27135503] Krogan NT,Marcos D,Weiner AI,Berleth T The auxin response factor MONOPTEROS controls meristem function and organogenesis in both the shoot and root through the direct regulation of PIN genes. New Phytol., 2016. 212(1): p. 42-50 [PMID:27441727] Fendrych M,Leung J,Friml J TIR1/AFB-Aux/IAA auxin perception mediates rapid cell wall acidification and growth of Arabidopsis hypocotyls. Elife, 2018. [PMID:27627746] Matthes M,Torres-Ruiz RA Boronic acid treatment phenocopies monopteros by affecting PIN1 membrane stability and polar auxin transport in Arabidopsis thaliana embryos. Development, 2016. 143(21): p. 4053-4062 [PMID:27697905] Bhatia N, et al. Auxin Acts through MONOPTEROS to Regulate Plant Cell Polarity and Pattern Phyllotaxis. Curr. Biol., 2016. 26(23): p. 3202-3208 [PMID:27818174] 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] Möller BK, et al. Auxin response cell-autonomously controls ground tissue initiation in the early Arabidopsis embryo. Proc. Natl. Acad. Sci. U.S.A., 2017. 114(12): p. E2533-E2539 [PMID:28265057] Carey NS,Krogan NT The role of AUXIN RESPONSE FACTORs in the development and differential growth of inflorescence stems. Plant Signal Behav, 2017. 12(4): p. e1307492 [PMID:28340328] Guan C, et al. Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis. Curr. Biol., 2017. 27(19): p. 2940-2950.e4 [PMID:28943086] Gaillochet C, et al. Control of plant cell fate transitions by transcriptional and hormonal signals. Elife, 2018. [PMID:29058667] Zheng K, et al. Involvement of PACLOBUTRAZOL RESISTANCE6/KIDARI, an Atypical bHLH Transcription Factor, in Auxin Responses in Arabidopsis. Front Plant Sci, 2017. 8: p. 1813 [PMID:29114256] 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]