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

Vradi05g01790.1

Organism

Vigna radiata

Taxonomic ID

157791

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna

Family

ARF

Protein Properties

Length: 1142aa MW: 126817 Da PI: 6.5058

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Vradi05g01790.1	genome	SNU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	70.6	2.1e-22	236	337	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 f+k+lt sd++++g +++p++ ae++ + +++ ++++ +d++ +W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F ++ Vradi05g01790.1 236 FCKTLTASDTSTHGGFSVPRRAAEKIfplldfsM-QPPA-QEIVAKDLHDSTWTFRHIYRGQPKRHLLTTGWSVFVSTKRLFAGDSVLFI--RD 325 99***************************954.5444.48**********************************************..55 PP SEE..EEEEE-S CS B3 88 sefelvvkvfrk 99 ++++l++++ r+ Vradi05g01790.1 326 EKQQLLLGIKRA 337 788889988775 PP
2	Auxin_resp	120.3	1.5e-39	362	444	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaas++s+F+++YnPras+seFv++++k++kal+++ s+GmRf+m+fete+s rr +Gt++g+sdldpvrW++S+Wr+L+ Vradi05g01790.1 362 AAHAASNNSPFTIFYNPRASPSEFVIPLAKYNKALYNQASLGMRFRMMFETEESGVRRHMGTITGISDLDPVRWKHSQWRNLQ 444 79*******************************************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.83E-43	226	365	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	9.2E-41	228	351	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	5.74E-19	235	327	No hit	No description
SMART	SM01019	2.4E-22	236	338	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	12.111	236	338	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.0E-20	236	337	IPR003340	B3 DNA binding domain
Pfam	PF06507	9.3E-35	362	444	IPR010525	Auxin response factor
Pfam	PF02309	4.4E-9	1011	1100	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	24.655	1014	1107	IPR000270	PB1 domain
SuperFamily	SSF54277	1.08E-8	1027	1092	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:0009723	Biological Process	response to ethylene
GO:0009733	Biological Process	response to auxin
GO:0010311	Biological Process	lateral root formation
GO:0048366	Biological Process	leaf development
GO:0005634	Cellular Component	nucleus
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 1142 aa Download sequence Send to blast
MVVVLSCDLQ VLASWTSSAS FGFSCKVLVF GFSSVGSGCS RIPLSPWMLA EGIAERGGFV 60 LRELSGRCRR GFCIFLFASG EVLLLFLDYE LELELLLLWK TWKTRLNLVL GRRVLNLFGV 120 ITLTGERKTI NSELWHACAG PLVSLPPVGS LVVYFPQGHS EQVAASMQKE ADFVPSYPNL 180 PSKLICMLHN VALHADPETD EVYAQMTLQP VTKYDKEAIL ASDMGLKQNQ QPTEFFCKTL 240 TASDTSTHGG FSVPRRAAEK IFPLLDFSMQ PPAQEIVAKD LHDSTWTFRH IYRGQPKRHL 300 LTTGWSVFVS TKRLFAGDSV LFIRDEKQQL LLGIKRANRQ QPALSSSVIS SDSMHIGILA 360 AAAHAASNNS PFTIFYNPRA SPSEFVIPLA KYNKALYNQA SLGMRFRMMF ETEESGVRRH 420 MGTITGISDL DPVRWKHSQW RNLQVGWDES TAGERPSRVS IWDIEPVVTP FYICPPPFFR 480 PKFPKQPGMP DDDSDIENAF KRAMPWLGDD LGMKDASSSI FPGLSLVQWM SMQQNNQFST 540 AQSGFMPPSM LSSNTLHGNL PTDDPSKLLN FQAPVLSAPN LQFNKPNIPN QVNQLQQPQT 600 SWPPQHQQQQ KVQSLMPTTL NPLQQQQQRQ QQLPVLQNLS QPQQQQPQMP QQRAQQSQQQ 660 QQQSCQQTII NNEAVSSNQI PNQCVQQPVT YSQLQQQQLL SGNIPPQQKA AATDTVAIIS 720 ITVIATKHVT EDATATTNDT NQLPQLPLSQ CHQPQQLGNN AFSMEKLFNG NNYSSSALMQ 780 TQQFPMNQSQ NTQKSLTNTR APSTLTDGDA PSCSTSPSTN NCQISPSNLI KRNQQLPTTL 840 GGPSVVEPTN HLIQELHRKS EMQIKHELPC VRGPDQLKCK GTIADQMEAS SGTSYSIDPN 900 NIHQNFPLPS FCMDGDVQSH PRNNLPFASN LDGLTPDTLL SRGYDSQKDL QNLLSNYGGA 960 PRDIETELST AAISSQAFGV PDMPFKPGCS SDIAINDPGV LNNGMWASQT QRMRTYTKVQ 1020 KCGSVGRCID VTRYKGYDEL RHDLARMFGI EGQLEDPQRT EWKLVYVDHE NDILLVGDDP 1080 WEEFVSCVQS IKILSSAEVQ QMSLDGDLGH VPVPNQACSG TDNGNAWRGQ YDDNSAASFN 1140 R*

Sequence ? help Back to Top

Protein Sequence Length: 1142 aa Download sequence Send to blast

MVVVLSCDLQ VLASWTSSAS FGFSCKVLVF GFSSVGSGCS RIPLSPWMLA EGIAERGGFV  60
LRELSGRCRR GFCIFLFASG EVLLLFLDYE LELELLLLWK TWKTRLNLVL GRRVLNLFGV  120
ITLTGERKTI NSELWHACAG PLVSLPPVGS LVVYFPQGHS EQVAASMQKE ADFVPSYPNL  180
PSKLICMLHN VALHADPETD EVYAQMTLQP VTKYDKEAIL ASDMGLKQNQ QPTEFFCKTL  240
TASDTSTHGG FSVPRRAAEK IFPLLDFSMQ PPAQEIVAKD LHDSTWTFRH IYRGQPKRHL  300
LTTGWSVFVS TKRLFAGDSV LFIRDEKQQL LLGIKRANRQ QPALSSSVIS SDSMHIGILA  360
AAAHAASNNS PFTIFYNPRA SPSEFVIPLA KYNKALYNQA SLGMRFRMMF ETEESGVRRH  420
MGTITGISDL DPVRWKHSQW RNLQVGWDES TAGERPSRVS IWDIEPVVTP FYICPPPFFR  480
PKFPKQPGMP DDDSDIENAF KRAMPWLGDD LGMKDASSSI FPGLSLVQWM SMQQNNQFST  540
AQSGFMPPSM LSSNTLHGNL PTDDPSKLLN FQAPVLSAPN LQFNKPNIPN QVNQLQQPQT  600
SWPPQHQQQQ KVQSLMPTTL NPLQQQQQRQ QQLPVLQNLS QPQQQQPQMP QQRAQQSQQQ  660
QQQSCQQTII NNEAVSSNQI PNQCVQQPVT YSQLQQQQLL SGNIPPQQKA AATDTVAIIS  720
ITVIATKHVT EDATATTNDT NQLPQLPLSQ CHQPQQLGNN AFSMEKLFNG NNYSSSALMQ  780
TQQFPMNQSQ NTQKSLTNTR APSTLTDGDA PSCSTSPSTN NCQISPSNLI KRNQQLPTTL  840
GGPSVVEPTN HLIQELHRKS EMQIKHELPC VRGPDQLKCK GTIADQMEAS SGTSYSIDPN  900
NIHQNFPLPS FCMDGDVQSH PRNNLPFASN LDGLTPDTLL SRGYDSQKDL QNLLSNYGGA  960
PRDIETELST AAISSQAFGV PDMPFKPGCS SDIAINDPGV LNNGMWASQT QRMRTYTKVQ  1020
KCGSVGRCID VTRYKGYDEL RHDLARMFGI EGQLEDPQRT EWKLVYVDHE NDILLVGDDP  1080
WEEFVSCVQS IKILSSAEVQ QMSLDGDLGH VPVPNQACSG TDNGNAWRGQ YDDNSAASFN  1140
R*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-166	124	465	44	388	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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Involved in ethylene responses. Regulates lateral root formation through direct regulation of LBD16 and/or LBD29. Functionally redundant with ARF7. {ECO:0000269\|PubMed:12036261, ECO:0000269\|PubMed:16461383, ECO:0000269\|PubMed:17259263}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Vradi05g01790.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin and ethylene. {ECO:0000269\|PubMed:16461383}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP015035	0.0	AP015035.1 Vigna angularis var. angularis DNA, chromosome 2, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_014501198.1	0.0	auxin response factor 19
Refseq	XP_022636161.1	0.0	auxin response factor 19
Swissprot	Q8RYC8	0.0	ARFS_ARATH; Auxin response factor 19
TrEMBL	A0A2P5VXF9	0.0	A0A2P5VXF9_GOSBA; Auxin response factor
STRING	XP_007138629.1	0.0	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4918	33	52

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G19220.1	0.0	auxin response factor 19

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Perilli S, et al. RETINOBLASTOMA-RELATED protein stimulates cell differentiation in the Arabidopsis root meristem by interacting with cytokinin signaling. Plant Cell, 2013. 25(11): p. 4469-78 [PMID:24285791] Sun Y, et al. Manipulation of Auxin Response Factor 19 affects seed size in the woody perennial Jatropha curcas. Sci Rep, 2017. 7: p. 40844 [PMID:28102350] 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] Olmo R, et al. Molecular Transducers from Roots Are Triggered in Arabidopsis Leaves by Root-Knot Nematodes for Successful Feeding Site Formation: A Conserved Post-Embryogenic De novo Organogenesis Program? Front Plant Sci, 2017. 8: p. 875 [PMID:28603536] Lee K,Seo PJ High-temperature promotion of callus formation requires the BIN2-ARF-LBD axis in Arabidopsis. Planta, 2017. 246(4): p. 797-802 [PMID:28766014] Ayala-Rodríguez JÁ,Barrera-Ortiz S,Ruiz-Herrera LF,López-Bucio J Folic acid orchestrates root development linking cell elongation with auxin response and acts independently of the TARGET OF RAPAMYCIN signaling in Arabidopsis thaliana. Plant Sci., 2017. 264: p. 168-178 [PMID:28969797] Nakamura M, et al. Auxin and ROP GTPase Signaling of Polar Nuclear Migration in Root Epidermal Hair Cells. Plant Physiol., 2018. 176(1): p. 378-391 [PMID:29084900] Hong L, et al. Alternative polyadenylation is involved in auxin-based plant growth and development. Plant J., 2018. 93(2): p. 246-258 [PMID:29155478] Lee K,Park OS,Seo PJ Arabidopsis ATXR2 deposits H3K36me3 at the promoters of LBD genes to facilitate cellular dedifferentiation. Sci Signal, 2018. [PMID:29184030] Kimura T, et al. Asymmetric Auxin Distribution is Not Required to Establish Root Phototropism in Arabidopsis. Plant Cell Physiol., 2018. 59(4): p. 823-835 [PMID:29401292] Schoenaers S, et al. The Auxin-Regulated CrRLK1L Kinase ERULUS Controls Cell Wall Composition during Root Hair Tip Growth. Curr. Biol., 2018. 28(5): p. 722-732.e6 [PMID:29478854] Huang KL, et al. The ARF7 and ARF19 Transcription Factors Positively Regulate PHOSPHATE STARVATION RESPONSE1 in Arabidopsis Roots. Plant Physiol., 2018. 178(1): p. 413-427 [PMID:30026290]