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

Sp_146820_ahao.t1

Common Name

SOVF_146820

Organism

Spinacia oleracea

Taxonomic ID

3562

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Chenopodiaceae; Chenopodioideae; Anserineae; Spinacia

Family

ARF

Protein Properties

Length: 880aa MW: 97053 Da PI: 5.3433

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sp_146820_ahao.t1	genome	TBVR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	75.3	7.1e-24	150	251	1	99
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 f+k+lt sd++++g +++p++ ae+ ++++ + +l+++d++ ++W++++iyr++++r++lt+GW+ Fv +++L++gD v+F + Sp_146820_ahao.t1 150 FCKTLTASDTSTHGGFSVPRRAAEKLfppldyTMQPPFQ-ELVVKDLHDNTWTFRHIYRGQPKRHLLTTGWSVFVGSKRLRAGDAVLFI--R 238 99*******************999996666664.9********************************************..5 PP SSEE..EEEEE-S CS B3 87 rsefelvvkvfrk 99 +++++l+++v+r+ Sp_146820_ahao.t1 239 DEKGQLMIGVRRA 251 69999****97 PP
2	Auxin_resp	110.7	1.5e-36	276	359	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa+++++F+v+YnPra+++eFv+++ +++ka++ ++vs+GmRf m+fet++s +rr++Gt+vg+sdldp+rWp+SkWrsL+ Sp_146820_ahao.t1 276 AAHAAANRTPFTVFYNPRACPTEFVIPAGNFRKAVYgTQVSAGMRFGMMFETDESGKRRYMGTIVGISDLDPLRWPGSKWRSLQ 359 79********************************9*******************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	3.79E-46	137	279	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.4E-40	143	264	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	3.08E-22	149	250	No hit	No description
PROSITE profile	PS50863	12.943	150	252	IPR003340	B3 DNA binding domain
SMART	SM01019	5.3E-24	150	252	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.1E-21	150	251	IPR003340	B3 DNA binding domain
Pfam	PF06507	5.6E-32	276	359	IPR010525	Auxin response factor
SuperFamily	SSF54277	7.19E-10	767	851	No hit	No description
Pfam	PF02309	8.6E-10	770	858	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	26.011	772	856	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:0009734	Biological Process	auxin-activated signaling pathway
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: 880 aa Download sequence Send to blast
MAAASVEEKV KTGVGNCGPP STTLLEEMKL LKEMQEHSGA RKPLHSELWH ACAGPLVSLP 60 QVGSLVYYFP QGHIEQVAIS TKRPATSQIP NYPNLPSQLM CQVHNVTLHA DKDTDEIFAQ 120 MSLQPVKTEK DVFPIPDFGL KAGKHPTEFF CKTLTASDTS THGGFSVPRR AAEKLFPPLD 180 YTMQPPFQEL VVKDLHDNTW TFRHIYRGQP KRHLLTTGWS VFVGSKRLRA GDAVLFIRDE 240 KGQLMIGVRR ANRQTTTLPS SVLSADSMHI GVLAAAAHAA ANRTPFTVFY NPRACPTEFV 300 IPAGNFRKAV YGTQVSAGMR FGMMFETDES GKRRYMGTIV GISDLDPLRW PGSKWRSLQV 360 EWDEPGCGDK QSRVSAWEIE TPESLFLFPS LTQGFKRPFH PGFFGGELEW GNSIKRPFIQ 420 LPDIGAANLS YASLPNVWSE QLVKALIRPE SMSYPSMLAS CPPPSILQET KAKVEAAMLH 480 KPHILSSHNV SVQNYPSQQL NQRDVGNVSG MEQASKANQP SMDADKTRPE PLCEPNQLSQ 540 HASAGHCNEE RETSNPSNPP SLQNIETRDI NQKLMQPPAM SSVFQSQLTD APPSDLSNLN 600 GLFPYLDTSD WLPYSSATNS ELIDHSLPSI GQDLWDQNQN LRYPAQSDQF GSYSQLSDET 660 NNQSGIYSCI DLDVGNGGNA IVDASISNAV LNKLCPSKEA SLQYSSDCLL GNFGSSQDLQ 720 SQITSASLAD SQAFLQDFPD NNSGGTSSSN VDFDESSLLQ NNSWQQVVPP MRTYTKVQKS 780 GSVGRSIDVT SYKDYDELRS AIERMFGLEG LLNDPRGSGW KLVYVDFEND VLLVGDDPWE 840 EFVSCVRCIR ILSPAEVQQM SEEGMQLLNS NAIPRISGAA

Sequence ? help Back to Top

Protein Sequence Length: 880 aa Download sequence Send to blast

MAAASVEEKV KTGVGNCGPP STTLLEEMKL LKEMQEHSGA RKPLHSELWH ACAGPLVSLP  60
QVGSLVYYFP QGHIEQVAIS TKRPATSQIP NYPNLPSQLM CQVHNVTLHA DKDTDEIFAQ  120
MSLQPVKTEK DVFPIPDFGL KAGKHPTEFF CKTLTASDTS THGGFSVPRR AAEKLFPPLD  180
YTMQPPFQEL VVKDLHDNTW TFRHIYRGQP KRHLLTTGWS VFVGSKRLRA GDAVLFIRDE  240
KGQLMIGVRR ANRQTTTLPS SVLSADSMHI GVLAAAAHAA ANRTPFTVFY NPRACPTEFV  300
IPAGNFRKAV YGTQVSAGMR FGMMFETDES GKRRYMGTIV GISDLDPLRW PGSKWRSLQV  360
EWDEPGCGDK QSRVSAWEIE TPESLFLFPS LTQGFKRPFH PGFFGGELEW GNSIKRPFIQ  420
LPDIGAANLS YASLPNVWSE QLVKALIRPE SMSYPSMLAS CPPPSILQET KAKVEAAMLH  480
KPHILSSHNV SVQNYPSQQL NQRDVGNVSG MEQASKANQP SMDADKTRPE PLCEPNQLSQ  540
HASAGHCNEE RETSNPSNPP SLQNIETRDI NQKLMQPPAM SSVFQSQLTD APPSDLSNLN  600
GLFPYLDTSD WLPYSSATNS ELIDHSLPSI GQDLWDQNQN LRYPAQSDQF GSYSQLSDET  660
NNQSGIYSCI DLDVGNGGNA IVDASISNAV LNKLCPSKEA SLQYSSDCLL GNFGSSQDLQ  720
SQITSASLAD SQAFLQDFPD NNSGGTSSSN VDFDESSLLQ NNSWQQVVPP MRTYTKVQKS  780
GSVGRSIDVT SYKDYDELRS AIERMFGLEG LLNDPRGSGW KLVYVDFEND VLLVGDDPWE  840
EFVSCVRCIR ILSPAEVQQM SEEGMQLLNS NAIPRISGAA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	0.0	22	384	31	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

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021858877.1	0.0	auxin response factor 5
Swissprot	P93024	0.0	ARFE_ARATH; Auxin response factor 5
TrEMBL	A0A0K9QSD3	0.0	A0A0K9QSD3_SPIOL; Auxin response factor
STRING	XP_010692716.1	0.0	(Beta vulgaris)

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]