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

GSMUA_Achr6P36980_001

Organism

Musa acuminata

Taxonomic ID

4641

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Zingiberales; Musaceae; Musa

Family

ARF

Protein Properties

Length: 858aa MW: 95343.9 Da PI: 5.1474

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSMUA_Achr6P36980_001	genome	CIRAD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	67.5	1.9e-21	142	230	1	84
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 f+k+lt sd++++g +++p++ ae+ ++++++ ++l+++d++ + W++++iyr++++r++lt+GW+ Fv a++Lk+gD+++F GSMUA_Achr6P36980_001 142 FCKILTASDTSTHGGFSVPRRAAEKLfpqldySMQPPN-QELIVRDLHDNLWTFRHIYRGQPKRHLLTTGWSLFVGAKRLKAGDSILF 228 99*******************999*9555555.49********************************************* PP EE CS B3 83 kl 84 + GSMUA_Achr6P36980_001 229 IR 230 84 PP
2	Auxin_resp	115.8	3.7e-38	291	373	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aaha+s++s+F+v+YnPra++s+Fv+++ k++ka +++v +GmRf m++ete+ss+rr++Gt+vg+sd+dpv+WpnSkWr+L+ GSMUA_Achr6P36980_001 291 AAHATSSRSPFTVYYNPRACPSDFVIPLTKYHKAAYTQVPIGMRFGMMIETEESSKRRYMGTIVGISDCDPVKWPNSKWRNLQ 373 79*******************************************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	6.97E-40	130	293	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	4.2E-35	136	279	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	3.95E-20	141	228	No hit	No description
Pfam	PF02362	2.0E-19	142	230	IPR003340	B3 DNA binding domain
SMART	SM01019	1.0E-18	142	243	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	10.969	142	247	IPR003340	B3 DNA binding domain
Pfam	PF06507	6.1E-34	291	373	IPR010525	Auxin response factor
PROSITE profile	PS51745	23.873	758	842	IPR000270	PB1 domain
Pfam	PF02309	1.3E-10	759	846	IPR033389	AUX/IAA domain
SuperFamily	SSF54277	2.29E-8	777	837	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: 858 aa Download sequence Send to blast
MSSIQENVGP VGLNSAAVLQ DEMKLLGEAP SGRKVINSEL WHACAGSFVS LPQPGSLVYY 60 FPQGHSEQVT ASTRKIANSQ IPAYTDLPSQ LMCQVHNVAL HADKETDEIY AQMTLQPVNS 120 ESDVLHIPDL GYTKCKHPTE IFCKILTASD TSTHGGFSVP RRAAEKLFPQ LDYSMQPPNQ 180 ELIVRDLHDN LWTFRHIYRG QPKRHLLTTG WSLFVGAKRL KAGDSILFIR KSLRRKDKLC 240 SFPETNETCG MYRDEKSQLL LGIRRAFRKQ IAQPSSVLST DSMHIGVLAA AAHATSSRSP 300 FTVYYNPRAC PSDFVIPLTK YHKAAYTQVP IGMRFGMMIE TEESSKRRYM GTIVGISDCD 360 PVKWPNSKWR NLQVEWDEHG YGERPDRVSL WEIETPESLF AFPSITSSLK RQCLPGYVGP 420 AINIQFGNLK PFPKPAKNGN PNSEHLIAGV GSENLLNILN KPTSHDGLLG CHQSIYSISP 480 AEPEQKFQDH NTGNENGINL RRTENASLDE SSAQQSEMDS VVLPIDPNKQ SDDMIKTISH 540 DILAENLDQL PNHQNQSDPT GAQSPGLEAT QSSDVCNLNN LLPCQDYLHH NLDHDEWIPQ 600 HSYSLYLSAA ENAATFTSDI SSLAKPHSFE PIETYQLSCI SDSDTGQHCT TNIQEYLGTQ 660 LNSLDDELLG MPNSCGTMDL SEESNTQSET IGNLHLDPSN ESMDMGLIPS VTIEGLNSES 720 SLQDIPDCSA GTSSGSIAAN DYRLYRGSRK QVCQQPLRTY TKVQKLGSVG RSIDVTRFSN 780 YHELRSAVAC MFGLEGQLDD ARGSEWKLVY VDYENDVLLV GDDPWEEFIN CVRCIRILSA 840 SEVQQMSQEG MQVMEGLV

Sequence ? help Back to Top

Protein Sequence Length: 858 aa Download sequence Send to blast

MSSIQENVGP VGLNSAAVLQ DEMKLLGEAP SGRKVINSEL WHACAGSFVS LPQPGSLVYY  60
FPQGHSEQVT ASTRKIANSQ IPAYTDLPSQ LMCQVHNVAL HADKETDEIY AQMTLQPVNS  120
ESDVLHIPDL GYTKCKHPTE IFCKILTASD TSTHGGFSVP RRAAEKLFPQ LDYSMQPPNQ  180
ELIVRDLHDN LWTFRHIYRG QPKRHLLTTG WSLFVGAKRL KAGDSILFIR KSLRRKDKLC  240
SFPETNETCG MYRDEKSQLL LGIRRAFRKQ IAQPSSVLST DSMHIGVLAA AAHATSSRSP  300
FTVYYNPRAC PSDFVIPLTK YHKAAYTQVP IGMRFGMMIE TEESSKRRYM GTIVGISDCD  360
PVKWPNSKWR NLQVEWDEHG YGERPDRVSL WEIETPESLF AFPSITSSLK RQCLPGYVGP  420
AINIQFGNLK PFPKPAKNGN PNSEHLIAGV GSENLLNILN KPTSHDGLLG CHQSIYSISP  480
AEPEQKFQDH NTGNENGINL RRTENASLDE SSAQQSEMDS VVLPIDPNKQ SDDMIKTISH  540
DILAENLDQL PNHQNQSDPT GAQSPGLEAT QSSDVCNLNN LLPCQDYLHH NLDHDEWIPQ  600
HSYSLYLSAA ENAATFTSDI SSLAKPHSFE PIETYQLSCI SDSDTGQHCT TNIQEYLGTQ  660
LNSLDDELLG MPNSCGTMDL SEESNTQSET IGNLHLDPSN ESMDMGLIPS VTIEGLNSES  720
SLQDIPDCSA GTSSGSIAAN DYRLYRGSRK QVCQQPLRTY TKVQKLGSVG RSIDVTRFSN  780
YHELRSAVAC MFGLEGQLDD ARGSEWKLVY VDYENDVLLV GDDPWEEFIN CVRCIRILSA  840
SEVQQMSQEG MQVMEGLV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	0.0	15	398	29	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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009411346.1	0.0	PREDICTED: auxin response factor 11-like isoform X5
Swissprot	P93024	0.0	ARFE_ARATH; Auxin response factor 5
TrEMBL	M0TDD8	0.0	M0TDD8_MUSAM; Auxin response factor
STRING	GSMUA_Achr6P36980_001	0.0	(Musa acuminata)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP8673	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]