PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

ARF

Protein Properties

Length: 662aa MW: 73478.6 Da PI: 6.3523

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013605280.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	68.8	7.5e-22	124	225	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 f+k+lt sd++++g +++ +++a+++ +++ ++l+ +d+++++W +++i+r++++r++lt+GW+ Fv++++L +gD ++F + + XP_013605280.1 124 FCKTLTASDTSTHGGFSVLRRHADDClppldmsQQP--PWQELVATDLHNNEWHFRHIFRGQPRRHLLTTGWSVFVSSKKLVAGDAFIFL--RGE 214 99**************************964333..4459********************************************..348 PP EE..EEEEE-S CS B3 89 efelvvkvfrk 99 ++el+v+v+r+ XP_013605280.1 215 NEELRVGVRRH 225 8889**996 PP
2	Auxin_resp	112.4	4.4e-37	250	332	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aaha++t+++F+v+Y+Pr+s+seF+v+v+++++a ++k++vGmRfkm+fe+e+++e+r+sGt+vgv++ +++ W++S+WrsLk XP_013605280.1 250 AAHAITTGTIFSVFYKPRTSRSEFIVSVNRYLEAKNQKLAVGMRFKMRFEGEEAPEKRFSGTIVGVQENKSSVWHDSEWRSLK 332 79*******************************************************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.86E-44	113	253	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	3.8E-40	121	239	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.86E-19	122	224	No hit	No description
Pfam	PF02362	1.1E-19	124	225	IPR003340	B3 DNA binding domain
SMART	SM01019	4.9E-21	124	226	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	10.588	124	226	IPR003340	B3 DNA binding domain
Pfam	PF06507	3.0E-34	250	332	IPR010525	Auxin response factor
Pfam	PF02309	8.1E-6	532	575	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	30.558	539	632	IPR000270	PB1 domain
SuperFamily	SSF54277	1.63E-11	541	616	No hit	No description
Pfam	PF02309	3.4E-6	579	629	IPR033389	AUX/IAA domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009733	Biological Process	response to auxin
GO:0010150	Biological Process	leaf senescence
GO:0045892	Biological Process	negative regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0042802	Molecular Function	identical protein binding

Sequence ? help Back to Top
Protein Sequence Length: 662 aa Download sequence Send to blast
MAASNHPSGK PGGALSDALC RELWHACAGP LITLPREGER VYYFPEGHME QLEASMHQGL 60 EQQMPSFNLP SKILCKVINI QRKAEPETDE VYAQITLLPE ADQSEPMSPD APVQEPEKCT 120 VHSFCKTLTA SDTSTHGGFS VLRRHADDCL PPLDMSQQPP WQELVATDLH NNEWHFRHIF 180 RGQPRRHLLT TGWSVFVSSK KLVAGDAFIF LRGENEELRV GVRRHMRQQT NIPSSVISSH 240 SMHIGVLATA AHAITTGTIF SVFYKPRTSR SEFIVSVNRY LEAKNQKLAV GMRFKMRFEG 300 EEAPEKRFSG TIVGVQENKS SVWHDSEWRS LKVQWDEPSS VFRPERVSPW ELEPLVANNT 360 LSAHLPPQRN KRPRPPGLLS PTTAPSTPDG VWKSPADNPS SVPLFSPPAK TAALGLGGNK 420 SFGVSIGSAF WPTHADGAAE SFASALNNES PTEKKQTNGN VCRLFGFELV ENMNVDECFS 480 AASVSGAVAV DQPVPSNEFD SGQQSESLNI NQANLPSGSG DHEKSSLRSP QESQSRQIRS 540 CTKVHMQGSA VGRAVDLTRS ECYEDLFKKL EEMFDIKGEL LESTKKWQVV YTDDEDDMMM 600 VGDDPWNEFC GMVRKIFIYT PEEVKKLSPK NKLTVNVRMQ PKTDADENGN TEGRSSSMAG 660 SR

Sequence ? help Back to Top

Protein Sequence Length: 662 aa Download sequence Send to blast

MAASNHPSGK PGGALSDALC RELWHACAGP LITLPREGER VYYFPEGHME QLEASMHQGL  60
EQQMPSFNLP SKILCKVINI QRKAEPETDE VYAQITLLPE ADQSEPMSPD APVQEPEKCT  120
VHSFCKTLTA SDTSTHGGFS VLRRHADDCL PPLDMSQQPP WQELVATDLH NNEWHFRHIF  180
RGQPRRHLLT TGWSVFVSSK KLVAGDAFIF LRGENEELRV GVRRHMRQQT NIPSSVISSH  240
SMHIGVLATA AHAITTGTIF SVFYKPRTSR SEFIVSVNRY LEAKNQKLAV GMRFKMRFEG  300
EEAPEKRFSG TIVGVQENKS SVWHDSEWRS LKVQWDEPSS VFRPERVSPW ELEPLVANNT  360
LSAHLPPQRN KRPRPPGLLS PTTAPSTPDG VWKSPADNPS SVPLFSPPAK TAALGLGGNK  420
SFGVSIGSAF WPTHADGAAE SFASALNNES PTEKKQTNGN VCRLFGFELV ENMNVDECFS  480
AASVSGAVAV DQPVPSNEFD SGQQSESLNI NQANLPSGSG DHEKSSLRSP QESQSRQIRS  540
CTKVHMQGSA VGRAVDLTRS ECYEDLFKKL EEMFDIKGEL LESTKKWQVV YTDDEDDMMM  600
VGDDPWNEFC GMVRKIFIYT PEEVKKLSPK NKLTVNVRMQ PKTDADENGN TEGRSSSMAG  660
SR

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	0.0	1	355	1	355	Auxin response factor 1
4ldw_A	0.0	1	355	1	355	Auxin response factor 1
4ldw_B	0.0	1	355	1	355	Auxin response factor 1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	370	374	KRPRP

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in the sepals and carpels of young flower buds. At stage 10 of flower development, expression in the carpels becomes restricted to the style. Also expressed in anthers and filaments. At stage 13, expressed in the region at the top of the pedicel, including the abscission zone. {ECO:0000269\|PubMed:16176952}.
Uniprot	TISSUE SPECIFICITY: Expressed in the whole plant. {ECO:0000269\|PubMed:10476078}.

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 repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Promotes flowering, stamen development, floral organ abscission and fruit dehiscence. Acts as repressor of IAA2, IAA3 and IAA7. {ECO:0000269\|PubMed:12036261, ECO:0000269\|PubMed:16176952}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00097	PBM	Transfer from AT1G59750	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013605280.1

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	JN979458	0.0	JN979458.1 Brassica rapa subsp. pekinensis auxin response factor 1 (ARF1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013605280.1	0.0	PREDICTED: auxin response factor 1 isoform X2
Swissprot	Q8L7G0	0.0	ARFA_ARATH; Auxin response factor 1
TrEMBL	A0A0D3AA64	0.0	A0A0D3AA64_BRAOL; Auxin response factor
STRING	Bo1g090350.1	0.0	(Brassica oleracea)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G59750.2	0.0	auxin response factor 1

Publications ? help Back to Top
Montesinos JC,Pastor-Cantizano N,Robinson DG,Marcote MJ,Aniento F Arabidopsis p24δ5 and p24δ9 facilitate Coat Protein I-dependent transport of the K/HDEL receptor ERD2 from the Golgi to the endoplasmic reticulum. Plant J., 2014. 80(6): p. 1014-30 [PMID:25312353] Marais C, et al. The Qb-SNARE Memb11 interacts specifically with Arf1 in the Golgi apparatus of Arabidopsis thaliana. J. Exp. Bot., 2015. 66(21): p. 6665-78 [PMID:26208648] 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] Zhang M,Hu X,Zhu M,Xu M,Wang L Transcription factors NF-YA2 and NF-YA10 regulate leaf growth via auxin signaling in Arabidopsis. Sci Rep, 2017. 7(1): p. 1395 [PMID:28469131]