PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

ARF

Protein Properties

Length: 663aa MW: 73786.1 Da PI: 6.433

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.004G228800.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	70.8	1.8e-22	128	228	1	98
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 f+k+lt sd++++g +++ +++a+++ +++ ++l+ +d++g++W +++i+r++++r++lt+GW+ Fv++++L +gD ++F Potri.004G228800.2 128 FCKTLTASDTSTHGGFSVLRRHADDClppldmsQQP--PWQELVATDLHGNEWHFRHIFRGQPRRHLLTTGWSVFVSSKKLVAGDAFIFL- 215 99**************************964333..4459********************************************. PP -SSSEE..EEEEE- CS B3 85 dgrsefelvvkvfr 98 + +++el+v+v+r Potri.004G228800.2 216 -RGENGELRVGVRR 228 .449999***97 PP
2	Auxin_resp	107.5	1.5e-35	254	336	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha++t++ F+v+Y+Pr+s+seF+v+++k+++ ++k+svGmRfkm+fe+e+++err+sGt+vgv d ++ W +S WrsLk Potri.004G228800.2 254 ASHAIATGTLFSVFYKPRTSRSEFIVSLNKYLEVRNHKLSVGMRFKMRFEGEEVPERRFSGTIVGVGDNISSGWADSDWRSLK 336 789******************************************************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	5.76E-44	118	257	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	6.9E-41	125	243	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	7.20E-21	126	228	No hit	No description
SMART	SM01019	1.0E-21	128	230	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.6E-20	128	228	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.279	128	230	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.3E-33	254	336	IPR010525	Auxin response factor
Pfam	PF02309	8.2E-7	530	574	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	26.256	538	631	IPR000270	PB1 domain
SuperFamily	SSF54277	3.14E-9	541	615	No hit	No description
Pfam	PF02309	5.0E-6	582	628	IPR033389	AUX/IAA domain

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: 663 aa Download sequence Send to blast
MAFAAMNHTS GGNPHAGGCN DALYKELWHA CAGPLVTLPR EGELVYYFPQ GHMEQLEASM 60 HQGMEPQMPL FNLPSKILCK VVNVQRRAEP ETDEVYAQIT LLPEPDQSEV TSPDPPLPEP 120 ERCTVHSFCK TLTASDTSTH GGFSVLRRHA DDCLPPLDMS QQPPWQELVA TDLHGNEWHF 180 RHIFRGQPRR HLLTTGWSVF VSSKKLVAGD AFIFLRGENG ELRVGVRRLM RQQTNMPSSV 240 ISSQSMHLGV LATASHAIAT GTLFSVFYKP RTSRSEFIVS LNKYLEVRNH KLSVGMRFKM 300 RFEGEEVPER RFSGTIVGVG DNISSGWADS DWRSLKVQWD EPSSIMRPER VSHWELEPLV 360 ATTPSNSQPV QRNKRARPYV IPSPTADLSA LGMWKSPVES SALSYGDSQR GRDLYSSPNF 420 STTAKVNSLG FRGNSQVASV SHNSMHWPNR VESVTDSFAP VVNKDSGERR QGTGIGYKLF 480 GIQLVENSNT EGTSPVVVSG TVVNDLPVLS LEAESDQHSE PEKSCLRSSQ ELQSRQIRSC 540 TKVHMQGVAV GRAVDLTQFK RYEDLLRKLE EMFDIEGELS GSTKKWQVVY TDNEDDMMKV 600 GDDPWNEFCG MVKKIFIYTS EEVKRLSPKI KLLAEEEVKG IGDNADAAVN TEDRSSTIGP 660 GC*

Sequence ? help Back to Top

Protein Sequence Length: 663 aa Download sequence Send to blast

MAFAAMNHTS GGNPHAGGCN DALYKELWHA CAGPLVTLPR EGELVYYFPQ GHMEQLEASM  60
HQGMEPQMPL FNLPSKILCK VVNVQRRAEP ETDEVYAQIT LLPEPDQSEV TSPDPPLPEP  120
ERCTVHSFCK TLTASDTSTH GGFSVLRRHA DDCLPPLDMS QQPPWQELVA TDLHGNEWHF  180
RHIFRGQPRR HLLTTGWSVF VSSKKLVAGD AFIFLRGENG ELRVGVRRLM RQQTNMPSSV  240
ISSQSMHLGV LATASHAIAT GTLFSVFYKP RTSRSEFIVS LNKYLEVRNH KLSVGMRFKM  300
RFEGEEVPER RFSGTIVGVG DNISSGWADS DWRSLKVQWD EPSSIMRPER VSHWELEPLV  360
ATTPSNSQPV QRNKRARPYV IPSPTADLSA LGMWKSPVES SALSYGDSQR GRDLYSSPNF  420
STTAKVNSLG FRGNSQVASV SHNSMHWPNR VESVTDSFAP VVNKDSGERR QGTGIGYKLF  480
GIQLVENSNT EGTSPVVVSG TVVNDLPVLS LEAESDQHSE PEKSCLRSSQ ELQSRQIRSC  540
TKVHMQGVAV GRAVDLTQFK RYEDLLRKLE EMFDIEGELS GSTKKWQVVY TDNEDDMMKV  600
GDDPWNEFCG MVKKIFIYTS EEVKRLSPKI KLLAEEEVKG IGDNADAAVN TEDRSSTIGP  660
GC*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	0.0	3	359	1	355	Auxin response factor 1
4ldw_A	0.0	3	359	1	355	Auxin response factor 1
4ldw_B	0.0	3	359	1	355	Auxin response factor 1
4ldx_A	0.0	3	359	1	355	Auxin response factor 1
4ldx_B	0.0	3	359	1	355	Auxin response factor 1
Search in ModeBase

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	Potri.004G228800.2

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	KM113035	0.0	KM113035.1 Populus davidiana x Populus alba var. pyramidalis auxin response factor 1 family protein mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006385087.1	0.0	auxin response factor 1 isoform X1
Refseq	XP_024455395.1	0.0	auxin response factor 1 isoform X1
Refseq	XP_024455396.1	0.0	auxin response factor 1 isoform X1
Swissprot	Q8L7G0	0.0	ARFA_ARATH; Auxin response factor 1
TrEMBL	B9N0I3	0.0	B9N0I3_POPTR; Auxin response factor
STRING	POPTR_0003s00890.1	0.0	(Populus trichocarpa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G59750.4	0.0	auxin response factor 1

Link Out ? help Back to Top
Phytozome	Potri.004G228800.2
Entrez Gene	18098365

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]