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; Eutremeae; Eutrema

Family

ARF

Protein Properties

Length: 668aa MW: 74307.4 Da PI: 6.2148

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thhalv10023326m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	68.8	7.6e-22	128	229	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+++ +++ ++l+ +d+++++W +++i+r++++r++lt+GW+ Fv++++L +gD ++F + Thhalv10023326m 128 FCKTLTASDTSTHGGFSVLRRHADDClppldmsQQP--PWQELVATDLHNNEWHFRHIFRGQPRRHLLTTGWSVFVSSKKLVAGDAFIFL--RG 217 99**************************964333..4459********************************************..34 PP SEE..EEEEE-S CS B3 88 sefelvvkvfrk 99 +++el+v+v+r+ Thhalv10023326m 218 ENEELRVGVRRH 229 88889**996 PP
2	Auxin_resp	113	2.7e-37	254	336	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aaha++t+++F+v+Y+Pr+s+seF+v+v+++++a ++k+svGmRfkm+fe+e+++e+r+sGt+vgv++ +++ W++S+WrsLk Thhalv10023326m 254 AAHAITTGTIFSVFYKPRTSRSEFIVSVNRYLEAKNQKLSVGMRFKMKFEGEEAPEKRFSGTIVGVQENKSSVWHDSEWRSLK 336 79*******************************************************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.86E-44	117	257	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	3.9E-40	125	243	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	2.44E-19	126	228	No hit	No description
Pfam	PF02362	1.1E-19	128	229	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	10.588	128	230	IPR003340	B3 DNA binding domain
SMART	SM01019	4.9E-21	128	230	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.5E-34	254	336	IPR010525	Auxin response factor
Pfam	PF02309	6.8E-11	542	634	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	29.039	544	637	IPR000270	PB1 domain
SuperFamily	SSF54277	1.23E-11	546	621	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009734	Biological Process	auxin-activated signaling pathway
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: 668 aa Download sequence Send to blast
MDSQMAASNH SSGKPGGVLS DALYRELWHA CAGPLVTLPR EGERVYYFPE GHMEQLEASM 60 HQGLEQQMPS FNLPSKILCK VINIQRRAES ETDEVYAQIT LLPELDQSEP ISPDAPVQEP 120 EKCTVHSFCK TLTASDTSTH GGFSVLRRHA DDCLPPLDMS QQPPWQELVA TDLHNNEWHF 180 RHIFRGQPRR HLLTTGWSVF VSSKKLVAGD AFIFLRGENE ELRVGVRRHM RQQTNIPSSV 240 ISSHSMHIGV LATAAHAITT GTIFSVFYKP RTSRSEFIVS VNRYLEAKNQ KLSVGMRFKM 300 KFEGEEAPEK RFSGTIVGVQ ENKSSVWHDS EWRSLKVQWD EPSSVFRPER VSPWELEPLV 360 ANSTPSSHPQ PPPRNKRPRP PGLPSPTTGP PTPDGVWKSP ADTPSLVPLF SPPAKIATFG 420 HGGNKLHGGV SIGAAFWPSH AESATESFAS AFNNESTEKK QSNGNVCRLF GFELVENVNV 480 DECFSAASVS GAVAVDQPIP SNEFDSGQQP EPLNINQFDI PSGSGDAEKS SLRSPPESQS 540 RQIRSCTKVH MQGSAVGRAV DLTRSECYDD LFKKLEEMFD IKGELLESNK KWHVVYTDDE 600 DDMMMVGDDP WNEFCGMVRK IFIYTPEEVR KLSPKNKLTV NVRIQPKTDA EENENTEGRS 660 SSMAGSR*

Sequence ? help Back to Top

Protein Sequence Length: 668 aa Download sequence Send to blast

MDSQMAASNH SSGKPGGVLS DALYRELWHA CAGPLVTLPR EGERVYYFPE GHMEQLEASM  60
HQGLEQQMPS FNLPSKILCK VINIQRRAES ETDEVYAQIT LLPELDQSEP ISPDAPVQEP  120
EKCTVHSFCK TLTASDTSTH GGFSVLRRHA DDCLPPLDMS QQPPWQELVA TDLHNNEWHF  180
RHIFRGQPRR HLLTTGWSVF VSSKKLVAGD AFIFLRGENE ELRVGVRRHM RQQTNIPSSV  240
ISSHSMHIGV LATAAHAITT GTIFSVFYKP RTSRSEFIVS VNRYLEAKNQ KLSVGMRFKM  300
KFEGEEAPEK RFSGTIVGVQ ENKSSVWHDS EWRSLKVQWD EPSSVFRPER VSPWELEPLV  360
ANSTPSSHPQ PPPRNKRPRP PGLPSPTTGP PTPDGVWKSP ADTPSLVPLF SPPAKIATFG  420
HGGNKLHGGV SIGAAFWPSH AESATESFAS AFNNESTEKK QSNGNVCRLF GFELVENVNV  480
DECFSAASVS GAVAVDQPIP SNEFDSGQQP EPLNINQFDI PSGSGDAEKS SLRSPPESQS  540
RQIRSCTKVH MQGSAVGRAV DLTRSECYDD LFKKLEEMFD IKGELLESNK KWHVVYTDDE  600
DDMMMVGDDP WNEFCGMVRK IFIYTPEEVR KLSPKNKLTV NVRIQPKTDA EENENTEGRS  660
SSMAGSR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	0.0	5	363	1	359	Auxin response factor 1
4ldw_A	0.0	5	363	1	359	Auxin response factor 1
4ldw_B	0.0	5	363	1	359	Auxin response factor 1
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Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	375	379	KRPRP

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	Thhalv10023326m

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	AY133723	0.0	AY133723.1 Arabidopsis thaliana auxin response factor 1 (At1g59750) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006392242.1	0.0	auxin response factor 1
Refseq	XP_024005380.1	0.0	auxin response factor 1
Swissprot	Q8L7G0	0.0	ARFA_ARATH; Auxin response factor 1
TrEMBL	V4KQC1	0.0	V4KQC1_EUTSA; Auxin response factor
STRING	XP_006392241.1	0.0	(Eutrema salsugineum)

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

Link Out ? help Back to Top
Phytozome	Thhalv10023326m
Entrez Gene	18010272

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]