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

Achn095921

Organism

Actinidia chinensis

Taxonomic ID

3625

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; Ericales; Actinidiaceae; Actinidia

Family

ARF

Protein Properties

Length: 1125aa MW: 125462 Da PI: 6.3806

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Achn095921	genome	IKGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	77.1	2e-24	158	259	1	99
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 f+k+lt sd++++g +++p++ ae+ ++++++ ++l+++d++ ++W++++iyr++++r++lt+GW+ Fv a++L++gD+v+F ++++ +l+ Achn095921 158 FCKTLTASDTSTHGGFSVPRRAAEKLfppldySMQPPT-QELVVRDLHENTWTFRHIYRGQPKRHLLTTGWSMFVGAKRLRAGDSVLFI--RDEKSQLL 253 99*******************999*9555554.49**********************************************..45677789 PP EEEE-S CS B3 94 vkvfrk 99 ++v+r+ Achn095921 254 LGVRRA 259 999997 PP
2	Auxin_resp	114.7	8.4e-38	284	367	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaas++s+F+++YnPra++seFvv++ k++k ++ +++svGmRf m+feteds +rr++Gt++g+sdldp+rWp+SkWr+L+ Achn095921 284 AAHAASNRSPFTIFYNPRACPSEFVVPLTKYRKYVYgTQLSVGMRFGMMFETEDSGKRRYMGTIMGISDLDPLRWPGSKWRNLQ 367 79******************************999*******************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.57E-46	145	287	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.1E-41	151	272	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	4.12E-22	157	258	No hit	No description
PROSITE profile	PS50863	13.07	158	260	IPR003340	B3 DNA binding domain
SMART	SM01019	4.5E-24	158	260	IPR003340	B3 DNA binding domain
Pfam	PF02362	6.6E-22	158	259	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.8E-32	284	367	IPR010525	Auxin response factor
PROSITE profile	PS51745	24.728	704	787	IPR000270	PB1 domain
SuperFamily	SSF54277	4.12E-8	723	782	No hit	No description
Pfam	PF02309	8.9E-7	748	790	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: 1125 aa Download sequence Send to blast
MTPCSVCVNY FYLSSIVSIS LEISFIDLFL EPSQTVSDLG LGLFFLGVRK PMNSELWHAC 60 AGPLVNLPQV GSLVYYFPQG HSEQVAVSTN RTATSQIPNY PNLPSQLLCQ VHNVTLHAEK 120 DTDEIYTQMS LQPVSSEKDV FPIPDFGLKP SKHPSEFFCK TLTASDTSTH GGFSVPRRAA 180 EKLFPPLDYS MQPPTQELVV RDLHENTWTF RHIYRGQPKR HLLTTGWSMF VGAKRLRAGD 240 SVLFIRDEKS QLLLGVRRAT RQQTALPSSV LSADSMHIGV LAAAAHAASN RSPFTIFYNP 300 RACPSEFVVP LTKYRKYVYG TQLSVGMRFG MMFETEDSGK RRYMGTIMGI SDLDPLRWPG 360 SKWRNLQVEW DETGCGEKHN RVSPWEIETP ESLFIFPSLT SSFKRPLQTG FLGEQNEWEN 420 LIKRPFVRVP ENLNGDFSYP SISSLWSEQL IKMLIKPQSV NNSATVTPVQ DSAGKGALSQ 480 EARTLTQTVM KQKPEITLQE SENRLQNQLN QPNSVKPNFS QQTELPRTLQ APDNHRNNSL 540 LGANTEMSKG ESVIAVDQLS QLTSNVGSED KLVNQLTFLN QNHCLSQLQT SPWLAQSQLD 600 SLVVHPQQLD AHQLESPNFN GLLPFSDTND WNTNQATYQS LAGILSSSQD VQSQITSASL 660 ADSRAFPLQE FPDSSGGASS SNVDFDDSSL LQNSTWQQAA PPVRTYTKIQ KAGSVGRSID 720 VSGFKNYKEL RSAIECMFGL EGLLNDRSSG WKLVYVDFEN DVLLVGDDPW GEFISCVRCI 780 RILSPSEVQK MSEEGMQLLN STTIPGTNGL QCFGIVLENP TCEGTAIPPN FQGLLSHLGY 840 SIVELFFMAE KGGASWVEFL RGYVKCCGRT SASTSFNGLF RIFEMALAKA GLPDKLQFES 900 DDDAVVELNP WDCDILSMGV QLPAAKIHMW ALKTVPSLSD CLSGYVHGKL EKSFTSEAPQ 960 KVWSYKKIKR WLILRSFYTG EVDLSLSLVH THTGSSLRGK VLNRFRLNVE GYNGPMLILI 1020 AASSGDAHDD NGNVRRWILG ALAHRAFENR DMFYGSSGSL YAISPVFNVF LSSERRTFTD 1080 QRHKVTIGRS NSTYASEFAF FEDSPEKMMM DMVSDPNRVQ REDR*

Sequence ? help Back to Top

Protein Sequence Length: 1125 aa Download sequence Send to blast

MTPCSVCVNY FYLSSIVSIS LEISFIDLFL EPSQTVSDLG LGLFFLGVRK PMNSELWHAC  60
AGPLVNLPQV GSLVYYFPQG HSEQVAVSTN RTATSQIPNY PNLPSQLLCQ VHNVTLHAEK  120
DTDEIYTQMS LQPVSSEKDV FPIPDFGLKP SKHPSEFFCK TLTASDTSTH GGFSVPRRAA  180
EKLFPPLDYS MQPPTQELVV RDLHENTWTF RHIYRGQPKR HLLTTGWSMF VGAKRLRAGD  240
SVLFIRDEKS QLLLGVRRAT RQQTALPSSV LSADSMHIGV LAAAAHAASN RSPFTIFYNP  300
RACPSEFVVP LTKYRKYVYG TQLSVGMRFG MMFETEDSGK RRYMGTIMGI SDLDPLRWPG  360
SKWRNLQVEW DETGCGEKHN RVSPWEIETP ESLFIFPSLT SSFKRPLQTG FLGEQNEWEN  420
LIKRPFVRVP ENLNGDFSYP SISSLWSEQL IKMLIKPQSV NNSATVTPVQ DSAGKGALSQ  480
EARTLTQTVM KQKPEITLQE SENRLQNQLN QPNSVKPNFS QQTELPRTLQ APDNHRNNSL  540
LGANTEMSKG ESVIAVDQLS QLTSNVGSED KLVNQLTFLN QNHCLSQLQT SPWLAQSQLD  600
SLVVHPQQLD AHQLESPNFN GLLPFSDTND WNTNQATYQS LAGILSSSQD VQSQITSASL  660
ADSRAFPLQE FPDSSGGASS SNVDFDDSSL LQNSTWQQAA PPVRTYTKIQ KAGSVGRSID  720
VSGFKNYKEL RSAIECMFGL EGLLNDRSSG WKLVYVDFEN DVLLVGDDPW GEFISCVRCI  780
RILSPSEVQK MSEEGMQLLN STTIPGTNGL QCFGIVLENP TCEGTAIPPN FQGLLSHLGY  840
SIVELFFMAE KGGASWVEFL RGYVKCCGRT SASTSFNGLF RIFEMALAKA GLPDKLQFES  900
DDDAVVELNP WDCDILSMGV QLPAAKIHMW ALKTVPSLSD CLSGYVHGKL EKSFTSEAPQ  960
KVWSYKKIKR WLILRSFYTG EVDLSLSLVH THTGSSLRGK VLNRFRLNVE GYNGPMLILI  1020
AASSGDAHDD NGNVRRWILG ALAHRAFENR DMFYGSSGSL YAISPVFNVF LSSERRTFTD  1080
QRHKVTIGRS NSTYASEFAF FEDSPEKMMM DMVSDPNRVQ REDR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	0.0	47	392	45	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_028073068.1	0.0	auxin response factor 5
Refseq	XP_028073069.1	0.0	auxin response factor 5
Swissprot	P93024	0.0	ARFE_ARATH; Auxin response factor 5
TrEMBL	A0A2R6PZL8	0.0	A0A2R6PZL8_ACTCH; Auxin response factor
STRING	XP_010536358.1	0.0	(Tarenaya hassleriana)

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

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]