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; Arabideae; Arabis

Family

ARF

Protein Properties

Length: 583aa MW: 65631.4 Da PI: 5.829

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KFK35371.1	genome	MPIPBR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	73.1	3.3e-23	120	220	1	98
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 f+k+lt sd++++g +++ +k+a+e+ + + +++l+ +d++g +W++k+i+r++++r++lt+GW+ Fv++++L +gD +vF + +++ l KFK35371.1 120 FVKILTASDTSTHGGFSVLRKHATEClpgldmtQ--ATPTQELVTRDLHGFEWRFKHIFRGQPRRHLLTTGWSTFVSSKRLVAGDAFVFL--RGENGDL 214 89************************999543..445569********************************************..3488889 PP EEEEE- CS B3 93 vvkvfr 98 +v+v+r KFK35371.1 215 RVGVRR 220 *998 PP
2	Auxin_resp	96.4	4.1e-32	246	325	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha+stk+ F v+Y+Pr s+F+v v+k+++a+k+ +s+G Rf+m+fe+e+s+er ++Gt+vg dl++ +Wp SkWrsL+ KFK35371.1 246 ASHAVSTKTLFVVFYKPRI--SQFIVGVNKYMEAMKHGFSLGIRFRMRFEGEESPERIFTGTIVGSGDLSS-QWPASKWRSLQ 325 789*************8..9******************************************777.*******97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	3.01E-39	106	249	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	8.4E-38	112	235	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	6.13E-20	118	220	No hit	No description
SMART	SM01019	4.1E-21	120	222	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	12.083	120	222	IPR003340	B3 DNA binding domain
Pfam	PF02362	3.0E-21	120	220	IPR003340	B3 DNA binding domain
Pfam	PF06507	7.4E-30	246	325	IPR010525	Auxin response factor
Pfam	PF02309	1.2E-8	467	514	IPR033389	AUX/IAA domain
SuperFamily	SSF54277	3.83E-12	476	554	No hit	No description
PROSITE profile	PS51745	26.82	478	570	IPR000270	PB1 domain
Pfam	PF02309	7.5E-6	518	563	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: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: 583 aa Download sequence Send to blast
MANDDFTSSY DDQLYIELWK ACAGPLVEVP RAEERVFYFP QGHMEQLVAS TNQGIESDQI 60 PDFNLPPKIL CRVLSVMLKA EHETDEVYAQ ITLQPEEDQS EPTSLDPPVD EPIKQVFHSF 120 VKILTASDTS THGGFSVLRK HATECLPGLD MTQATPTQEL VTRDLHGFEW RFKHIFRGQP 180 RRHLLTTGWS TFVSSKRLVA GDAFVFLRGE NGDLRVGVRR LARHQSTMPT SVISSQSMHL 240 GVLATASHAV STKTLFVVFY KPRISQFIVG VNKYMEAMKH GFSLGIRFRM RFEGEESPER 300 IFTGTIVGSG DLSSQWPASK WRSLQVQWDD TATVQRPDKV SPWEIEPVSP TSPVSTPAQQ 360 PQPKCKRSRP IELSVLTPAP PSFMYNFPQC QEPTNASSLK LFQDPSIERN NSFKAETPLP 420 PPTPASSCYR LFGIDLPSNP PAQIPQENQP IDTSSSAKCQ EPITPSSVNE QKKQQTSRTR 480 TKVQMQGIAV GRAVDLTLLK SYEELINELE KMFEIQGQLL PRDKWIVVFT DDEGDMMLAG 540 DDPWNEFCKM AKKIFIYSSD EVKKMTTKLK SSSSLESEDG NDY

Sequence ? help Back to Top

Protein Sequence Length: 583 aa Download sequence Send to blast

MANDDFTSSY DDQLYIELWK ACAGPLVEVP RAEERVFYFP QGHMEQLVAS TNQGIESDQI  60
PDFNLPPKIL CRVLSVMLKA EHETDEVYAQ ITLQPEEDQS EPTSLDPPVD EPIKQVFHSF  120
VKILTASDTS THGGFSVLRK HATECLPGLD MTQATPTQEL VTRDLHGFEW RFKHIFRGQP  180
RRHLLTTGWS TFVSSKRLVA GDAFVFLRGE NGDLRVGVRR LARHQSTMPT SVISSQSMHL  240
GVLATASHAV STKTLFVVFY KPRISQFIVG VNKYMEAMKH GFSLGIRFRM RFEGEESPER  300
IFTGTIVGSG DLSSQWPASK WRSLQVQWDD TATVQRPDKV SPWEIEPVSP TSPVSTPAQQ  360
PQPKCKRSRP IELSVLTPAP PSFMYNFPQC QEPTNASSLK LFQDPSIERN NSFKAETPLP  420
PPTPASSCYR LFGIDLPSNP PAQIPQENQP IDTSSSAKCQ EPITPSSVNE QKKQQTSRTR  480
TKVQMQGIAV GRAVDLTLLK SYEELINELE KMFEIQGQLL PRDKWIVVFT DDEGDMMLAG  540
DDPWNEFCKM AKKIFIYSSD EVKKMTTKLK SSSSLESEDG NDY

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	1e-165	12	352	17	359	Auxin response factor 1
4ldw_A	1e-165	12	352	17	359	Auxin response factor 1
4ldw_B	1e-165	12	352	17	359	Auxin response factor 1
4ldx_A	1e-165	12	352	17	359	Auxin response factor 1
4ldx_B	1e-165	12	352	17	359	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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. {ECO:0000269\|PubMed:12036261}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	KFK35371.1

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	AF334717	0.0	AF334717.1 Arabidopsis thaliana auxin response factor ARF18 (At3g61830) mRNA, complete cds.
GenBank	AY059746	0.0	AY059746.1 Arabidopsis thaliana auxin response factor ARF18 (At3g61830) mRNA, complete cds.
GenBank	AY070463	0.0	AY070463.1 Arabidopsis thaliana AT3g61830/F15G16_220 mRNA, complete cds.
GenBank	AY091392	0.0	AY091392.1 Arabidopsis thaliana putative auxin response factor protein (At3g61830) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_567119.1	0.0	auxin response factor 18
Swissprot	Q9C5W9	0.0	ARFR_ARATH; Auxin response factor 18
TrEMBL	A0A087GZR9	0.0	A0A087GZR9_ARAAL; Auxin response factor
STRING	A0A087GZR9	0.0	(Arabis alpina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7435	18	41

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G61830.1	0.0	auxin response factor 18

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] 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]