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

SapurV1A.0025s0600.1.p

Organism

Salix purpurea

Taxonomic ID

77065

Taxonomic Lineage

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

Family

ARF

Protein Properties

Length: 810aa MW: 88836.1 Da PI: 5.151

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
SapurV1A.0025s0600.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	32.4	1.6e-10	70	114	53	99
EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS B3 53 rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 ++++r++lt+GW+ Fv +++Lk+gD+v+F ++++ +l+v+v+r+ SapurV1A.0025s0600.1.p 70 HRQPKRHLLTTGWSLFVGSKRLKAGDSVLFI--RNEKSQLMVGVRRA 114 578899***********************..5678889***97 PP
2	Auxin_resp	109.6	3.3e-36	139	222	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa ++s+F+++YnPra++s+Fv+++ k++ka+ ++vs+GmRf m+fete+s +rr++Gt+vgvsdldp+rWp+SkWr+L+ SapurV1A.0025s0600.1.p 139 AAHAAGNRSPFTIFYNPRACPSDFVIPLIKFRKAVFgTQVSAGMRFGMMFETEESGKRRYMGTIVGVSDLDPLRWPGSKWRNLQ 222 79******************************988*******************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	5.36E-13	63	142	IPR015300	DNA-binding pseudobarrel domain
Pfam	PF02362	7.0E-8	70	114	IPR003340	B3 DNA binding domain
Gene3D	G3DSA:2.40.330.10	1.0E-14	71	127	IPR015300	DNA-binding pseudobarrel domain
PROSITE profile	PS50863	9.009	75	115	IPR003340	B3 DNA binding domain
Pfam	PF06507	2.6E-31	139	222	IPR010525	Auxin response factor
Pfam	PF02309	2.5E-10	687	782	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	26.074	695	779	IPR000270	PB1 domain
SuperFamily	SSF54277	1.08E-8	698	774	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: 810 aa Download sequence Send to blast
MGSVEEKNKP EGIVNGAHTN LLEEMKLLKE FQDQSGIRKA INSELWYACA GPLVSLPQVG 60 SLVYYFPQGH RQPKRHLLTT GWSLFVGSKR LKAGDSVLFI RNEKSQLMVG VRRANRQQTT 120 LPSSVLSADS MHIGVLAAAA HAAGNRSPFT IFYNPRACPS DFVIPLIKFR KAVFGTQVSA 180 GMRFGMMFET EESGKRRYMG TIVGVSDLDP LRWPGSKWRN LQVEWDEPGC SDRQNRVSSW 240 EIETPESLFI FPSMTSGLKR PLQSGFLGDT EWGSLVKKPL AWLPGSGNAN LPYASMSNIY 300 SEQLVNMLMK PQAVNYPEIC GTALPEVSAV KVASLDVTNV QAAVNHTSHL NNSGIMSVEN 360 QNYSQICLDQ SNAMNSSSSK ERVAGKSLYL SKVENQAPVG ILDGKLKAEP EHLPDQLSQL 420 TSTGECIVQK PFSCPMTQQN ATNHLVFQNQ NQGQSQLQTS LWPMQALPES PLLNSQQIHA 480 SLADATPPNC SLPFLDADEW ISHPMSIDSM YRSGPLSMFG LQDPMAVFPD TINPSLPLMN 540 QDAWDHQMSN LRILSQANQL IPLAQQEPCS FNSGAVKDLS DESNDQSGIY GSLNIDTSNG 600 GGSVYDRSVS SAILDEFCTF KDADLKNASD CLVGNLSSSQ DVQSQITSAS LADSQAFSRQ 660 DFPDNSGGTS SSKIEFDNSN LLHNNSWQQV APRMRTYTKV QKTGSVGRSI DVSSLKNYEQ 720 LCSAIERMFG LDGLLNNPKG SGWKLVYVDY ENDVLLIGDD PWEEFIGCVR CIRILSPSEV 780 QQMSEEGMKL LNSANIQGTN APITEDIHA*

Sequence ? help Back to Top

Protein Sequence Length: 810 aa Download sequence Send to blast

MGSVEEKNKP EGIVNGAHTN LLEEMKLLKE FQDQSGIRKA INSELWYACA GPLVSLPQVG  60
SLVYYFPQGH RQPKRHLLTT GWSLFVGSKR LKAGDSVLFI RNEKSQLMVG VRRANRQQTT  120
LPSSVLSADS MHIGVLAAAA HAAGNRSPFT IFYNPRACPS DFVIPLIKFR KAVFGTQVSA  180
GMRFGMMFET EESGKRRYMG TIVGVSDLDP LRWPGSKWRN LQVEWDEPGC SDRQNRVSSW  240
EIETPESLFI FPSMTSGLKR PLQSGFLGDT EWGSLVKKPL AWLPGSGNAN LPYASMSNIY  300
SEQLVNMLMK PQAVNYPEIC GTALPEVSAV KVASLDVTNV QAAVNHTSHL NNSGIMSVEN  360
QNYSQICLDQ SNAMNSSSSK ERVAGKSLYL SKVENQAPVG ILDGKLKAEP EHLPDQLSQL  420
TSTGECIVQK PFSCPMTQQN ATNHLVFQNQ NQGQSQLQTS LWPMQALPES PLLNSQQIHA  480
SLADATPPNC SLPFLDADEW ISHPMSIDSM YRSGPLSMFG LQDPMAVFPD TINPSLPLMN  540
QDAWDHQMSN LRILSQANQL IPLAQQEPCS FNSGAVKDLS DESNDQSGIY GSLNIDTSNG  600
GGSVYDRSVS SAILDEFCTF KDADLKNASD CLVGNLSSSQ DVQSQITSAS LADSQAFSRQ  660
DFPDNSGGTS SSKIEFDNSN LLHNNSWQQV APRMRTYTKV QKTGSVGRSI DVSSLKNYEQ  720
LCSAIERMFG LDGLLNNPKG SGWKLVYVDY ENDVLLIGDD PWEEFIGCVR CIRILSPSEV  780
QQMSEEGMKL LNSANIQGTN APITEDIHA*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-100	1	247	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	SapurV1A.0025s0600.1.p

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_002300719.3	0.0	auxin response factor 5 isoform X1
Swissprot	P93024	0.0	ARFE_ARATH; Auxin response factor 5
TrEMBL	A0A2I4KKT1	0.0	A0A2I4KKT1_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

Link Out ? help Back to Top
Phytozome	SapurV1A.0025s0600.1.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]