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

Kalax.0155s0044.1.p

Organism

Kalanchoe marnieriana

Taxonomic ID

80907

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Saxifragales; Crassulaceae; Kalanchoe

Family

ARF

Protein Properties

Length: 953aa MW: 105004 Da PI: 5.8199

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Kalax.0155s0044.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	79	5.1e-25	147	248	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 f+k+lt sd++++g +++p++ ae+ ++++ + ++l+++d++ ++W++++iyr++++r++lt+GW+ Fv+ ++L++gD+v+F Kalax.0155s0044.1.p 147 FCKTLTASDTSTHGGFSVPRRAAEKLfptldytMQPP-T-QELVVRDLHENTWTFRHIYRGQPKRHLLTTGWSLFVSTKRLRQGDSVLFI 234 99*******************999*954444.4.38******************************************** PP E-SSSEE..EEEEE-S CS B3 84 ldgrsefelvvkvfrk 99 ++++ +l+v+++r+ Kalax.0155s0044.1.p 235 --RDEKSQLMVGIRRA 248 ..4577778***97 PP
2	Auxin_resp	108.6	6.6e-36	273	356	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa+++s+F+++YnPr+++s+Fv++++k++ka+ +++s+GmRf m+fete+s +rr++Gt+v v+dldp+rWp+SkWr+++ Kalax.0155s0044.1.p 273 AAHAAANRSPFTIFYNPRQCPSDFVIPMAKFRKAVFgTQISMGMRFGMMFETEESGKRRYMGTIVNVTDLDPLRWPGSKWRNIQ 356 79******************************988******************************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	3.27E-46	135	276	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.1E-41	140	261	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	6.08E-23	146	247	No hit	No description
PROSITE profile	PS50863	13.155	147	249	IPR003340	B3 DNA binding domain
SMART	SM01019	1.6E-25	147	249	IPR003340	B3 DNA binding domain
Pfam	PF02362	8.8E-23	147	248	IPR003340	B3 DNA binding domain
Pfam	PF06507	7.4E-31	273	356	IPR010525	Auxin response factor
PROSITE profile	PS51745	25.747	831	915	IPR000270	PB1 domain
SuperFamily	SSF54277	1.57E-8	835	910	No hit	No description
Pfam	PF02309	1.0E-6	876	917	IPR033389	AUX/IAA domain

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: 953 aa Download sequence Send to blast
MGSVVEEKIR PGGLPDGAST NLLEEMKMLK ELQDQSGAAK IMNSELWHAC AGPLVSLPQI 60 GGLVYYFPQG HSEQVAVSTK RSATSQIPNY PSLPSQLLCQ VHNVTLHADK ETDEIYAQMS 120 LQPVNTEKDI IPVPEFGRPS KHPSEFFCKT LTASDTSTHG GFSVPRRAAE KLFPTLDYTM 180 QPPTQELVVR DLHENTWTFR HIYRGQPKRH LLTTGWSLFV STKRLRQGDS VLFIRDEKSQ 240 LMVGIRRANR QQTTLPSSVL SADSMHIGVL AAAAHAAANR SPFTIFYNPR QCPSDFVIPM 300 AKFRKAVFGT QISMGMRFGM MFETEESGKR RYMGTIVNVT DLDPLRWPGS KWRNIQVEWD 360 EAGCSDKPNR VSSWDIETPE SLFIFPSLTS GYKRPLTPGF LGVETDWGSL IKRPFVRMPD 420 NGFGNLHPMA SPCSEQLMKM LMKSQMVNHP SNFPAIPVDS SYNRAPVPDG RAMEAVTKQN 480 PDQPMFSRNT LAQIQSSTQP CPAQSAPANS KALPQVTHQE KTLQVVKSEL ASSEPVAQDH 540 GNKLKSGPHT VENFAPSSMN PPTSVTQPAS LNQQTTQRIL PNPSQAQFQQ VNPWQPHQPM 600 DSSIFQSQPM EAPQADLSSI NSLLPYLETD EWMLNPPSSY QQLPGVFRSP ASLPIYGYQD 660 SSVVFPEVVN PVMSSIGRDV SEHQLNNVQS LSESDQLIPL PLQGQVNVNS SGFKDLSSGN 720 NPSNSRGVYG CLNYDGCNTS TALVDHSVPS TFSDGFCKMD DPGFQNASDC LVSSSQDLQS 780 QITSASLADS HAFSRQDFPD NSGGTSSSNV EFDDSSLLQT NTWQQVAPPM RTYTKVQKTG 840 SVGRSIDVTS FRNYEELRSA IERMFGLEGL LTDPRGSAWK LVYVDYEKDV LLVGDDPWEE 900 FVGCVRCIRI LSPTEVQQMS EEGMKLLNST AAMQGLRGAL PEGGGSAWDA LA*

Sequence ? help Back to Top

Protein Sequence Length: 953 aa Download sequence Send to blast

MGSVVEEKIR PGGLPDGAST NLLEEMKMLK ELQDQSGAAK IMNSELWHAC AGPLVSLPQI  60
GGLVYYFPQG HSEQVAVSTK RSATSQIPNY PSLPSQLLCQ VHNVTLHADK ETDEIYAQMS  120
LQPVNTEKDI IPVPEFGRPS KHPSEFFCKT LTASDTSTHG GFSVPRRAAE KLFPTLDYTM  180
QPPTQELVVR DLHENTWTFR HIYRGQPKRH LLTTGWSLFV STKRLRQGDS VLFIRDEKSQ  240
LMVGIRRANR QQTTLPSSVL SADSMHIGVL AAAAHAAANR SPFTIFYNPR QCPSDFVIPM  300
AKFRKAVFGT QISMGMRFGM MFETEESGKR RYMGTIVNVT DLDPLRWPGS KWRNIQVEWD  360
EAGCSDKPNR VSSWDIETPE SLFIFPSLTS GYKRPLTPGF LGVETDWGSL IKRPFVRMPD  420
NGFGNLHPMA SPCSEQLMKM LMKSQMVNHP SNFPAIPVDS SYNRAPVPDG RAMEAVTKQN  480
PDQPMFSRNT LAQIQSSTQP CPAQSAPANS KALPQVTHQE KTLQVVKSEL ASSEPVAQDH  540
GNKLKSGPHT VENFAPSSMN PPTSVTQPAS LNQQTTQRIL PNPSQAQFQQ VNPWQPHQPM  600
DSSIFQSQPM EAPQADLSSI NSLLPYLETD EWMLNPPSSY QQLPGVFRSP ASLPIYGYQD  660
SSVVFPEVVN PVMSSIGRDV SEHQLNNVQS LSESDQLIPL PLQGQVNVNS SGFKDLSSGN  720
NPSNSRGVYG CLNYDGCNTS TALVDHSVPS TFSDGFCKMD DPGFQNASDC LVSSSQDLQS  780
QITSASLADS HAFSRQDFPD NSGGTSSSNV EFDDSSLLQT NTWQQVAPPM RTYTKVQKTG  840
SVGRSIDVTS FRNYEELRSA IERMFGLEGL LTDPRGSAWK LVYVDYEKDV LLVGDDPWEE  900
FVGCVRCIRI LSPTEVQQMS EEGMKLLNST AAMQGLRGAL PEGGGSAWDA LA*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	0.0	3	381	6	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_021285434.1	0.0	auxin response factor 5
Swissprot	P93024	0.0	ARFE_ARATH; Auxin response factor 5
TrEMBL	A0A1R3IY13	0.0	A0A1R3IY13_COCAP; Auxin response factor
STRING	EOY14976	0.0	(Theobroma cacao)

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

Link Out ? help Back to Top
Phytozome	Kalax.0155s0044.1.p

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]