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

Ote100136040141

Organism

Ocimum tenuiflorum

Taxonomic ID

204149

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Lamiales; Lamiaceae; Nepetoideae; Ocimeae; Ocimum

Family

ARF

Protein Properties

Length: 879aa MW: 97464.6 Da PI: 5.4065

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ote100136040141	genome	OteDB	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	76.5	2.9e-24	146	247	1	99
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT-- CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLk 75 f+k+lt sd++++g +++p++ ae+ ++++++ ++l+++d++ ++W++++iyr++++r++lt+GW+ Fv a++L+ Ote100136040141\|100136040141 146 FCKTLTASDTSTHGGFSVPRRAAEKLfpqldySMQPPT-QELVVRDLHDNTWTFRHIYRGQPKRHLLTTGWSMFVGAKRLR 225 99*******************999*9555554.49************************************ PP TT-EEEEEE-SSSEE..EEEEE-S CS B3 76 egDfvvFkldgrsefelvvkvfrk 99 +gD v+F ++++ +l+++v+r+ Ote100136040141\|100136040141 226 AGDAVLFI--RDEKSQLLLGVRRA 247 ******..45677789999997 PP
2	Auxin_resp	29.1	4.2e-11	289	314	58	83
Auxin_resp 58 rlsGtvvgvsdldpvrWpnSkWrsLk 83 r++Gt++g+sd+dp+rWpnSkWrsL+ Ote100136040141\|100136040141 289 RYMGTIIGMSDVDPLRWPNSKWRSLQ 314 68**********************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	9.94E-47	133	269	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	7.1E-42	139	260	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	6.16E-22	145	246	No hit	No description
Pfam	PF02362	1.2E-21	146	247	IPR003340	B3 DNA binding domain
SMART	SM01019	8.9E-23	146	248	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	13.155	146	248	IPR003340	B3 DNA binding domain
Pfam	PF06507	2.5E-7	289	314	IPR010525	Auxin response factor
Pfam	PF02309	2.7E-7	770	857	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	23.7	773	856	IPR000270	PB1 domain
SuperFamily	SSF54277	1.11E-7	786	851	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: 879 aa Download sequence Send to blast
MGSVEEKLKP GGLVSGGNNI IDGMKLLKEM QDHTGVKKPI NSELWHACAG PLVTLPQVGS 60 LVYYFPQGHS EQVAVSTNRT ATTQVPNYPN LPSQLLCQVH NVTLHADKET DEIYAQMSLQ 120 CVNSEKDVFP IPDFGLKPSK HPTEFFCKTL TASDTSTHGG FSVPRRAAEK LFPQLDYSMQ 180 PPTQELVVRD LHDNTWTFRH IYRGQPKRHL LTTGWSMFVG AKRLRAGDAV LFIRDEKSQL 240 LLGVRRANRQ QTTLPSSVLS ADSMHIGILX XXXXXXXNRS PFTIFYNPRY MGTIIGMSDV 300 DPLRWPNSKW RSLQVEWDEP GCGDKQNRVS PWEIETPESL FIFPSLTANL KRPFHSAFIG 360 APTEWDSLIN RPFNSHGEFQ CPSISNMWSE QLLKMLAKPH GMMTPANIQH SMQDMKDVAL 420 QEQKHLMQLA IKQKPELAMQ ESYAQGESNI HGIIGQPNVT NQNILLAGKL TPSPGTGPES 480 PKLESVPVAN LSGHCQSEGQ VSEDKLLAKP QNFNNDFVAT SQISGSIPFQ TSPCGTQSRL 540 DTHGLQNQPV DPSQVESTNA NAMLQYANQV DFSPYPMLCP SPSGSLRNPG SLSMFKKPNQ 600 SSMQSDILYP MSSVGQELWD PQFSNNTKCV SQSNLSVLLS HQDMSNLQYS SNVLKDLSDE 660 NNNQNNIYSC LNLDGSNSGS TVIDPSVSST ILDEYSALKN IDFPNPSDYL VGNICSTQDV 720 QSQITSASLA DSQTFSIQEY ADNSGGASSS NVEFDDNNLL QQSSFQQVTP RFRTYTKIQK 780 AGSVGRSIDV SSFKNYIQLR SEIERMFGLE GLLNEPSSGW KLVYVDFESD VLLVGDDPWE 840 EFVGCVRCIR ILSPCEVKQM GEEGMQLLNT LDAAKDGSK

Sequence ? help Back to Top

Protein Sequence Length: 879 aa Download sequence Send to blast

MGSVEEKLKP GGLVSGGNNI IDGMKLLKEM QDHTGVKKPI NSELWHACAG PLVTLPQVGS  60
LVYYFPQGHS EQVAVSTNRT ATTQVPNYPN LPSQLLCQVH NVTLHADKET DEIYAQMSLQ  120
CVNSEKDVFP IPDFGLKPSK HPTEFFCKTL TASDTSTHGG FSVPRRAAEK LFPQLDYSMQ  180
PPTQELVVRD LHDNTWTFRH IYRGQPKRHL LTTGWSMFVG AKRLRAGDAV LFIRDEKSQL  240
LLGVRRANRQ QTTLPSSVLS ADSMHIGILX XXXXXXXNRS PFTIFYNPRY MGTIIGMSDV  300
DPLRWPNSKW RSLQVEWDEP GCGDKQNRVS PWEIETPESL FIFPSLTANL KRPFHSAFIG  360
APTEWDSLIN RPFNSHGEFQ CPSISNMWSE QLLKMLAKPH GMMTPANIQH SMQDMKDVAL  420
QEQKHLMQLA IKQKPELAMQ ESYAQGESNI HGIIGQPNVT NQNILLAGKL TPSPGTGPES  480
PKLESVPVAN LSGHCQSEGQ VSEDKLLAKP QNFNNDFVAT SQISGSIPFQ TSPCGTQSRL  540
DTHGLQNQPV DPSQVESTNA NAMLQYANQV DFSPYPMLCP SPSGSLRNPG SLSMFKKPNQ  600
SSMQSDILYP MSSVGQELWD PQFSNNTKCV SQSNLSVLLS HQDMSNLQYS SNVLKDLSDE  660
NNNQNNIYSC LNLDGSNSGS TVIDPSVSST ILDEYSALKN IDFPNPSDYL VGNICSTQDV  720
QSQITSASLA DSQTFSIQEY ADNSGGASSS NVEFDDNNLL QQSSFQQVTP RFRTYTKIQK  780
AGSVGRSIDV SSFKNYIQLR SEIERMFGLE GLLNEPSSGW KLVYVDFESD VLLVGDDPWE  840
EFVGCVRCIR ILSPCEVKQM GEEGMQLLNT LDAAKDGSK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	0.0	1	339	5	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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011074654.1	0.0	auxin response factor 5
Refseq	XP_011074656.1	0.0	auxin response factor 5
Refseq	XP_011074657.1	0.0	auxin response factor 5
Swissprot	P93024	0.0	ARFE_ARATH; Auxin response factor 5
TrEMBL	A0A191T8S8	0.0	A0A191T8S8_SALMI; Auxin response factor
STRING	XP_009778804.1	0.0	(Nicotiana sylvestris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA5859	23	34

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]