PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Picea

Family

ARF

Protein Properties

Length: 959aa MW: 106349 Da PI: 6.3928

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
MA_92651g0010	genome	ConGenIE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	73.8	2e-23	222	323	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 f+k+lt sd++++g +++ +++a+e+ +++++ s++l +d++g +W++++i+r++++r++lt+GW+ Fv++++L +gD ++F + +++e MA_92651g0010 222 FCKTLTASDTSTHGGFSVLRRHADEClppldMSQQPPSQELAARDLHGMEWRFRHIFRGQPRRHLLTTGWSVFVSSKRLVAGDAFIFL--RGESGE 315 99***************************55566678*********************************************..449999 PP .EEEEE-S CS B3 92 lvvkvfrk 99 l+v+v+r+ MA_92651g0010 316 LRVGVRRA 323 ***996 PP
2	Auxin_resp	122.1	4.1e-40	348	430	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha+st+++F+v+Y+Pr+s+seF+v+++k+++a+++++svGmRfkm+fe+e+s+err++Gt++g+ ++d+vrWp+SkWrsLk MA_92651g0010 348 ASHAVSTRTIFTVYYKPRTSPSEFIVPYDKYMEAVNSNLSVGMRFKMRFEGEESPERRFTGTITGIGEVDNVRWPDSKWRSLK 430 789******************************************************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	3.92E-44	213	351	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.9E-42	215	337	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	3.01E-20	220	322	No hit	No description
Pfam	PF02362	3.1E-21	222	323	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.857	222	324	IPR003340	B3 DNA binding domain
SMART	SM01019	4.2E-23	222	324	IPR003340	B3 DNA binding domain
Pfam	PF06507	8.9E-38	348	430	IPR010525	Auxin response factor
Pfam	PF02309	3.2E-5	810	864	IPR033389	AUX/IAA domain
SuperFamily	SSF54277	8.83E-12	826	905	No hit	No description
PROSITE profile	PS51745	27.439	828	910	IPR000270	PB1 domain
Pfam	PF02309	1.7E-7	876	918	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: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: 959 aa Download sequence Send to blast
MPAVSPGGQN DYGQGRGVSQ STRHASKAKQ VGTTTGSEQF GEKLYWVIGI RRPEEALWQF 60 WAGSARVFGR DLWLVFSSGL ALVFGVGLSV FGVPMGVVCM MGKGREWAEE HASDALYEEL 120 WHACAGPLVT LPRLGERAFY FPQGHMEQVE ASTNQGVDQH MPLYDLPSKI LCRVINVQFR 180 AEPETDEVFA QITLLPEADQ NESSHDSGTT PPQPRKSNVH SFCKTLTASD TSTHGGFSVL 240 RRHADECLPP LDMSQQPPSQ ELAARDLHGM EWRFRHIFRG QPRRHLLTTG WSVFVSSKRL 300 VAGDAFIFLR GESGELRVGV RRAMRQQTNM PSSVLSSHSM HLGVIATASH AVSTRTIFTV 360 YYKPRTSPSE FIVPYDKYME AVNSNLSVGM RFKMRFEGEE SPERRFTGTI TGIGEVDNVR 420 WPDSKWRSLK VQWDETSVVP RPERVSPWEI ETFVASSAAL NPLPAPRTKK PRPNLVSSSQ 480 ELMMLGGSNK TAADSSQVHR FPRVLQGQEM RTFGGSLGDR EVEIAQKPLI WGSSVDDIKQ 540 DSVGSRGRLA SEYWGSQCRQ DTVYSDHYSG IQGARDTQQL CGPTACQNME MFQRLKLPPK 600 QFQDEESGII DRSGTKLQLS SPWPFMRSDN PHELTESDLK LSVTSNPSHK QAGLGKWSGL 660 DPPPLLSDVG SKESQGNWFV SLISPSQADF SGTHAPGKLE RNPTRSIGTG NTGMAVQQPN 720 LLSREMLEEK GVLSGTRSAD CKLFGFHLIE NSVVGEPSTL RGLAAGEDIH VSVPNITVHE 780 PQSSESDQHS EPSSIAKMDM PAAIIDEEKS SQKSSKETHN RPQSNSTRSC TKVHKQGSAL 840 GRAVDLTKFE GYTELIRELE QMFNIEGELE DPNKGWQVVY TDNEGDMMLV GDDPWQEFCS 900 IVRKIYIYTR EEVEKMTPQT PSAKLKGCSE DLATRETSRC SDRQDSSIAG VTAERSSDA

Sequence ? help Back to Top

Protein Sequence Length: 959 aa Download sequence Send to blast

MPAVSPGGQN DYGQGRGVSQ STRHASKAKQ VGTTTGSEQF GEKLYWVIGI RRPEEALWQF  60
WAGSARVFGR DLWLVFSSGL ALVFGVGLSV FGVPMGVVCM MGKGREWAEE HASDALYEEL  120
WHACAGPLVT LPRLGERAFY FPQGHMEQVE ASTNQGVDQH MPLYDLPSKI LCRVINVQFR  180
AEPETDEVFA QITLLPEADQ NESSHDSGTT PPQPRKSNVH SFCKTLTASD TSTHGGFSVL  240
RRHADECLPP LDMSQQPPSQ ELAARDLHGM EWRFRHIFRG QPRRHLLTTG WSVFVSSKRL  300
VAGDAFIFLR GESGELRVGV RRAMRQQTNM PSSVLSSHSM HLGVIATASH AVSTRTIFTV  360
YYKPRTSPSE FIVPYDKYME AVNSNLSVGM RFKMRFEGEE SPERRFTGTI TGIGEVDNVR  420
WPDSKWRSLK VQWDETSVVP RPERVSPWEI ETFVASSAAL NPLPAPRTKK PRPNLVSSSQ  480
ELMMLGGSNK TAADSSQVHR FPRVLQGQEM RTFGGSLGDR EVEIAQKPLI WGSSVDDIKQ  540
DSVGSRGRLA SEYWGSQCRQ DTVYSDHYSG IQGARDTQQL CGPTACQNME MFQRLKLPPK  600
QFQDEESGII DRSGTKLQLS SPWPFMRSDN PHELTESDLK LSVTSNPSHK QAGLGKWSGL  660
DPPPLLSDVG SKESQGNWFV SLISPSQADF SGTHAPGKLE RNPTRSIGTG NTGMAVQQPN  720
LLSREMLEEK GVLSGTRSAD CKLFGFHLIE NSVVGEPSTL RGLAAGEDIH VSVPNITVHE  780
PQSSESDQHS EPSSIAKMDM PAAIIDEEKS SQKSSKETHN RPQSNSTRSC TKVHKQGSAL  840
GRAVDLTKFE GYTELIRELE QMFNIEGELE DPNKGWQVVY TDNEGDMMLV GDDPWQEFCS  900
IVRKIYIYTR EEVEKMTPQT PSAKLKGCSE DLATRETSRC SDRQDSSIAG VTAERSSDA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	0.0	113	460	16	362	Auxin response factor 1
4ldw_A	0.0	113	460	16	362	Auxin response factor 1
4ldw_B	0.0	113	460	16	362	Auxin response factor 1
4ldx_A	0.0	113	460	16	362	Auxin response factor 1
4ldx_B	0.0	113	460	16	362	Auxin response factor 1
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) (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}.

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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT071735	0.0	BT071735.1 Picea sitchensis clone WS0444_F11 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010249209.1	0.0	PREDICTED: auxin response factor 2-like
Swissprot	Q2LAJ3	0.0	ARF2A_SOLLC; Auxin response factor 2A
TrEMBL	A0A0D6QTJ1	0.0	A0A0D6QTJ1_ARACU; Auxin response factor
STRING	XP_010249208.1	0.0	(Nelumbo nucifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Representative plant	OGRP550	15	82

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] 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]