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

Vang0112s00200.1

Common Name

LR48_Vigan04g147400

Organism

Vigna angularis

Taxonomic ID

3914

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: 875aa MW: 97713.3 Da PI: 6.9564

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Vang0112s00200.1	genome	SNU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	74.7	1e-23	174	275	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 +++ +++a+e+ + k++ +++l +d++g++W++k+i+r++++r++l++GW+ Fv++++L +gD ++F + Vang0112s00200.1 174 FCKTLTASDTSTHGGFSVLRRHADEClppldmS-KQPPTQELAAKDLHGNEWRFKHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RG 263 99***************************63.4445569********************************************..44 PP SEE..EEEEE-S CS B3 88 sefelvvkvfrk 99 +++el+v+v+r+ Vang0112s00200.1 264 ENGELRVGVRRA 275 9999***996 PP
2	Auxin_resp	119	3.7e-39	300	382	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha+ t+++F+v+Y+Pr+s++eF+v++++++++lk+++s+GmRfkm+fe+e+++e+r++Gt+vg++d+dp rW++SkWr+Lk Vang0112s00200.1 300 AWHAILTGTMFTVYYKPRTSPAEFIVPYDQYMESLKNSYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDSDPKRWRESKWRCLK 382 79*******************************************************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	8.5E-40	170	303	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	5.5E-41	171	289	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	6.00E-21	172	274	No hit	No description
SMART	SM01019	8.9E-23	174	276	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.843	174	276	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.3E-21	174	275	IPR003340	B3 DNA binding domain
Pfam	PF06507	2.5E-36	300	382	IPR010525	Auxin response factor
Pfam	PF02309	1.2E-12	736	834	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	24.428	746	828	IPR000270	PB1 domain
SuperFamily	SSF54277	2.45E-11	747	823	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:0009734	Biological Process	auxin-activated signaling pathway
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: 875 aa Download sequence Send to blast
MPFSVPSRLY LWILFTPYAR TVADERSVVR SVEMASSEVT MKGNCLNHND GGAVEAQAPA 60 TAKDAEAALF RELWHACADL RRASLVAFLG VKLWRCWWIG VEASTNQVAD QHMPVYDLPP 120 KILCRVINVQ LKAEPDTDEV FAQVTLLPEP NQNENDVEKE PPLPPPPRFH VHSFCKTLTA 180 SDTSTHGGFS VLRRHADECL PPLDMSKQPP TQELAAKDLH GNEWRFKHIF RGQPRRHLLQ 240 SGWSVFVSSK RLVAGDAFIF LRGENGELRV GVRRAMRQQG NVPSSVISSH SMHLGVLATA 300 WHAILTGTMF TVYYKPRTSP AEFIVPYDQY MESLKNSYSI GMRFKMRFEG EEAPEQRFTG 360 TIVGIEDSDP KRWRESKWRC LKVRWDETSN TPRPERVSPW KIEPALAPPA LNPLSMPRPK 420 RPRSNAVPSS PDSSVLTREA ASSKVSVDPS PANGFPRVLQ GQEFSTLRGN LGESNDSDAA 480 EKSVVWPPAA LDDEKIDAST SRRYGTESWM SMGRNEPTYS DLLSSFGAGG DLSHSSLMDQ 540 ISPVVYPTRK QSSDHEGKLH MPQPWPVMPS SLSLNILDSN TKVPAHGGDP TYQARVNLRY 600 SAFGEYPSLH HKVEHSHGKL MPPPPAPLNQ YQTPCSREVM SKPVSTKTFE AVKSKNGDCK 660 LFGFSLISGP VVPEPSVSQR NVNEPTGQMH LTPHQQRTSE NDEKSDHSKG SKTGDDLIVD 720 DHDRPLQTSQ LHVKDGQAKP HSSSARSCTK VHKKGIALGR SVDLTKYTGY DELVTELDQL 780 FEFEGELLST KKDWLIVYTD NEGDMMLVGD DPWQEFCAMV RKIYIYPKEE IQKMSPGTLS 840 SKNEENLSGS EGADAKDVKR LPLQKFNYEY CLDA*

Sequence ? help Back to Top

Protein Sequence Length: 875 aa Download sequence Send to blast

MPFSVPSRLY LWILFTPYAR TVADERSVVR SVEMASSEVT MKGNCLNHND GGAVEAQAPA  60
TAKDAEAALF RELWHACADL RRASLVAFLG VKLWRCWWIG VEASTNQVAD QHMPVYDLPP  120
KILCRVINVQ LKAEPDTDEV FAQVTLLPEP NQNENDVEKE PPLPPPPRFH VHSFCKTLTA  180
SDTSTHGGFS VLRRHADECL PPLDMSKQPP TQELAAKDLH GNEWRFKHIF RGQPRRHLLQ  240
SGWSVFVSSK RLVAGDAFIF LRGENGELRV GVRRAMRQQG NVPSSVISSH SMHLGVLATA  300
WHAILTGTMF TVYYKPRTSP AEFIVPYDQY MESLKNSYSI GMRFKMRFEG EEAPEQRFTG  360
TIVGIEDSDP KRWRESKWRC LKVRWDETSN TPRPERVSPW KIEPALAPPA LNPLSMPRPK  420
RPRSNAVPSS PDSSVLTREA ASSKVSVDPS PANGFPRVLQ GQEFSTLRGN LGESNDSDAA  480
EKSVVWPPAA LDDEKIDAST SRRYGTESWM SMGRNEPTYS DLLSSFGAGG DLSHSSLMDQ  540
ISPVVYPTRK QSSDHEGKLH MPQPWPVMPS SLSLNILDSN TKVPAHGGDP TYQARVNLRY  600
SAFGEYPSLH HKVEHSHGKL MPPPPAPLNQ YQTPCSREVM SKPVSTKTFE AVKSKNGDCK  660
LFGFSLISGP VVPEPSVSQR NVNEPTGQMH LTPHQQRTSE NDEKSDHSKG SKTGDDLIVD  720
DHDRPLQTSQ LHVKDGQAKP HSSSARSCTK VHKKGIALGR SVDLTKYTGY DELVTELDQL  780
FEFEGELLST KKDWLIVYTD NEGDMMLVGD DPWQEFCAMV RKIYIYPKEE IQKMSPGTLS  840
SKNEENLSGS EGADAKDVKR LPLQKFNYEY CLDA*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	1e-155	68	404	18	354	Auxin response factor 1
4ldw_A	1e-155	68	404	18	354	Auxin response factor 1
4ldw_B	1e-155	68	404	18	354	Auxin response factor 1
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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) (By similarity). Could act as transcriptional activator or repressor (PubMed:26959229, PubMed:26716451, PubMed:27645097, PubMed:28167023). Involved in the control of fruit ripening process (PubMed:26959229, PubMed:26716451, PubMed:28167023). Regulates expression of a number of ripening regulators, transcription factors, and ethylene biosynthesis and signaling components (PubMed:26959229, PubMed:26716451). May act as a transcriptional repressor of auxin-responsive genes (PubMed:26716451). Regulates vegetative growth, lateral root formation and flower organ senescence, possibly partially by regulating gene expression of auxin and ethylene response factor (ERF) genes (PubMed:28167023). Plays a negative role in axillary shoot meristem formation (PubMed:27645097). {ECO:0000255\|RuleBase:RU004561, ECO:0000269\|PubMed:26716451, ECO:0000269\|PubMed:26959229, ECO:0000269\|PubMed:27645097, ECO:0000269\|PubMed:28167023}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Vang0112s00200.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By tomato fruit ripening. Expression in tomato fruits is up-regulated by exogenous application of ethylene and down-regulated by inhibition of ethylene receptors with 1-methylcyclopropene (1-MCP) (PubMed:26959229, PubMed:26716451). Up-regulated by plant hormone abscisic acid (ABA) in tomato fruits (PubMed:26959229). Expression is not up-regulated by plant hormone auxin in tomato fruits (PubMed:26716451). Up-regulated by auxin and gibberellic acid (GA), and down-regulated by ethylene in seedlings (PubMed:28167023). Down-regulated during decapitation-induced axillary shoot development and by excision of immature leaves. Down-regulation is inhibited by the application of auxin on the cut surface (PubMed:27645097). {ECO:0000269\|PubMed:26716451, ECO:0000269\|PubMed:26959229, ECO:0000269\|PubMed:27645097, ECO:0000269\|PubMed:28167023}.

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_017421589.1	0.0	PREDICTED: auxin response factor 2-like isoform X1
Swissprot	Q2LAJ3	0.0	ARF2A_SOLLC; Auxin response factor 2A
TrEMBL	A0A0L9UEW9	0.0	A0A0L9UEW9_PHAAN; Auxin response factor
STRING	XP_007137862.1	0.0	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF3281	33	66

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G62000.3	0.0	auxin response factor 2

Publications ? help Back to Top
Tomato Genome Consortium The tomato genome sequence provides insights into fleshy fruit evolution. Nature, 2012. 485(7400): p. 635-41 [PMID:22660326] Yang K, et al. Genome sequencing of adzuki bean (Vigna angularis) provides insight into high starch and low fat accumulation and domestication. Proc. Natl. Acad. Sci. U.S.A., 2015. 112(43): p. 13213-8 [PMID:26460024] Breitel DA, et al. AUXIN RESPONSE FACTOR 2 Intersects Hormonal Signals in the Regulation of Tomato Fruit Ripening. PLoS Genet., 2016. 12(3): p. e1005903 [PMID:26959229] Xu T, et al. SlARF2a plays a negative role in mediating axillary shoot formation. Sci Rep, 2016. 6: p. 33728 [PMID:27645097] Ren Z,Liu R,Gu W,Dong X The Solanum lycopersicum auxin response factor SlARF2 participates in regulating lateral root formation and flower organ senescence. Plant Sci., 2017. 256: p. 103-111 [PMID:28167023]