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

CCG002348.1

Organism

Populus euphratica

Taxonomic ID

75702

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

ARF

Protein Properties

Length: 942aa MW: 103019 Da PI: 5.5223

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
CCG002348.1	genome	LZU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	75	8.6e-24	147	247	1	98
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 f+k+lt sd++++g +++p++ ae+ ++++++ ++l+++d++ ++W++++iyr++++r++lt+GW+ Fv +++Lk+gD+v+F ++++ +l CCG002348.1 147 FCKALTASDTSTHGGFSVPRRAAEKLfppldySMQPPS-QELVVRDLHDNTWTFRHIYRGQPKRHLLTTGWSLFVGSKRLKAGDSVLFI--RNEKSHL 241 99*******************999*9666554.59********************************************..5688889 PP EEEEE- CS B3 93 vvkvfr 98 +v+v+ CCG002348.1 242 MVGVRH 247 9986 PP
2	Auxin_resp	109.3	4e-36	273	356	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aaha++++s+F+++YnPra++s+Fv+++ k++k++ ++vsvGmRf m+fete+s +rr++Gt+vg+sd+dp+rWp+SkWr+L+ CCG002348.1 273 AAHATANRSPFTIFYNPRACPSDFVIPLIKFRKTVFgTQVSVGMRFGMMFETEESGKRRYMGTIVGISDSDPLRWPGSKWRNLQ 356 79*****************************9987*******************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.24E-46	134	276	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	3.5E-41	140	261	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	2.48E-22	146	246	No hit	No description
PROSITE profile	PS50863	12.901	147	249	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.7E-21	147	248	IPR003340	B3 DNA binding domain
SMART	SM01019	6.7E-23	147	249	IPR003340	B3 DNA binding domain
Pfam	PF06507	5.5E-31	273	356	IPR010525	Auxin response factor
Pfam	PF02309	2.3E-10	821	915	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	25.647	828	912	IPR000270	PB1 domain
SuperFamily	SSF54277	2.89E-8	841	907	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:0009725	Biological Process	response to hormone
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0005515	Molecular Function	protein binding

Sequence ? help Back to Top
Protein Sequence Length: 942 aa Download sequence Send to blast
MGSAEEKIKT GGIINGAQTN LLEEMKLLKE FQDQSGTRKA INSELWYACA GPLVSLPQVG 60 SLVYYFPQGH SEQVAVSTKR SATSQIPNYP NLPSQLLCQV HNVTLHADRD TDEIHAQMSL 120 QPVNSEKDVF PVPDFGLKPS KHPSEFFCKA LTASDTSTHG GFSVPRRAAE KLFPPLDYSM 180 QPPSQELVVR DLHDNTWTFR HIYRGQPKRH LLTTGWSLFV GSKRLKAGDS VLFIRNEKSH 240 LMVGVRHANR QQTTLPSSVL SADSMHIGVL AAAAHATANR SPFTIFYNPR ACPSDFVIPL 300 IKFRKTVFGT QVSVGMRFGM MFETEESGKR RYMGTIVGIS DSDPLRWPGS KWRNLQVEWD 360 EPGYSDKQNR VSSWEIETPE SLFIFPSLTS GLKRPLQSGF LGDTEWGGLV KKPLALLPGS 420 GNASLPYASM SNIYSEQLIN MLMKPQANYP GICGTALPEV SAVKVASLDV KNMQAATNQT 480 PQLNQSGITP IENQNYSRIC LDQSNAMNSS SSKANVAGKS LSLSKVENQA SVGIVDGKFK 540 AKPEHLPDQL SQATLTGECI VQKPISCPMT QQDATNHLVC QNQNQGQSQL QASLWPMQAL 600 TESSLLNSQQ IRASLADATT PNCSLPFLDA GEWISHPMSI DSMYRSGQLS MFGLQDPSAV 660 SPEAANPSLP FMHQDAWDHQ LSNLRILSEA NQLIPLAQQE PCSFNSGAVK DSSDESNDQS 720 GIYGSLNIDA SNGGGSMYDR SVSSAILDEF CTLKDADLQN ASDCLVGNLS SSQDVQSQIT 780 SASLADSQAL SRQDFPDNSG GTSSSNIEFD NSNLLQNNSW QQVAPRVRTY TKVQKTGSVG 840 RSIDVSSFKN YEELCSAIEC MFGLDGLLNN PKGSGWKLVY VDYENDVLLI GDDPWEEFVG 900 CVRCIRILSP SEVQQMSEEG MKLLNSVNIQ GINAPITEGI HA

Sequence ? help Back to Top

Protein Sequence Length: 942 aa Download sequence Send to blast

MGSAEEKIKT GGIINGAQTN LLEEMKLLKE FQDQSGTRKA INSELWYACA GPLVSLPQVG  60
SLVYYFPQGH SEQVAVSTKR SATSQIPNYP NLPSQLLCQV HNVTLHADRD TDEIHAQMSL  120
QPVNSEKDVF PVPDFGLKPS KHPSEFFCKA LTASDTSTHG GFSVPRRAAE KLFPPLDYSM  180
QPPSQELVVR DLHDNTWTFR HIYRGQPKRH LLTTGWSLFV GSKRLKAGDS VLFIRNEKSH  240
LMVGVRHANR QQTTLPSSVL SADSMHIGVL AAAAHATANR SPFTIFYNPR ACPSDFVIPL  300
IKFRKTVFGT QVSVGMRFGM MFETEESGKR RYMGTIVGIS DSDPLRWPGS KWRNLQVEWD  360
EPGYSDKQNR VSSWEIETPE SLFIFPSLTS GLKRPLQSGF LGDTEWGGLV KKPLALLPGS  420
GNASLPYASM SNIYSEQLIN MLMKPQANYP GICGTALPEV SAVKVASLDV KNMQAATNQT  480
PQLNQSGITP IENQNYSRIC LDQSNAMNSS SSKANVAGKS LSLSKVENQA SVGIVDGKFK  540
AKPEHLPDQL SQATLTGECI VQKPISCPMT QQDATNHLVC QNQNQGQSQL QASLWPMQAL  600
TESSLLNSQQ IRASLADATT PNCSLPFLDA GEWISHPMSI DSMYRSGQLS MFGLQDPSAV  660
SPEAANPSLP FMHQDAWDHQ LSNLRILSEA NQLIPLAQQE PCSFNSGAVK DSSDESNDQS  720
GIYGSLNIDA SNGGGSMYDR SVSSAILDEF CTLKDADLQN ASDCLVGNLS SSQDVQSQIT  780
SASLADSQAL SRQDFPDNSG GTSSSNIEFD NSNLLQNNSW QQVAPRVRTY TKVQKTGSVG  840
RSIDVSSFKN YEELCSAIEC MFGLDGLLNN PKGSGWKLVY VDYENDVLLI GDDPWEEFVG  900
CVRCIRILSP SEVQQMSEEG MKLLNSVNIQ GINAPITEGI HA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	0.0	1	381	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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011028974.1	0.0	PREDICTED: auxin response factor 5-like isoform X1
Refseq	XP_011028975.1	0.0	PREDICTED: auxin response factor 5-like isoform X1
Swissprot	P93024	0.0	ARFE_ARATH; Auxin response factor 5
TrEMBL	A0A2I4KKT1	0.0	A0A2I4KKT1_POPTR; Auxin response factor
TrEMBL	A0A2K2BCD3	0.0	A0A2K2BCD3_POPTR; Auxin response factor
STRING	POPTR_0002s02630.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF8991	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]