Q8L7G0 (ARFA_ARATH) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Auxin response factor 1

Gene names

Name:	ARF1
Ordered Locus Names:	At1g59750
ORF Names:	F23H11.7

Organism

Arabidopsis thaliana (Mouse-ear cress)

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis

Protein attributes

Sequence length	665 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Auxin response factors (ARFs) are transcriptional factors that binds 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. Ref.7 Ref.8
Subunit structure	Homo- and heterodimers. Interacts with the auxin-responsive proteins IAA12, IAA13, IAA17 and with ARF2. Ref.5
Subcellular location	Nucleus.
Tissue specificity	Expressed in the whole plant. Ref.5
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. Ref.8
Domain	Interactions between auxin response factors (ARFs) and Aux/IAA proteins occur through their C-terminal dimerization domains III and IV.
Sequence similarities	Belongs to the ARF family. Contains 1 Aux/IAA-ARF domain. Contains 1 TF-B3 DNA-binding domain.

Ontologies

Keywords
Biological process	Auxin signaling pathway Transcription Transcription regulation
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Ligand	DNA-binding
Molecular function	Repressor
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	auxin mediated signaling pathway Inferred from electronic annotation. Source: UniProtKB-KW leaf senescence Inferred from genetic interaction Ref.8. Source: TAIR negative regulation of transcription, DNA-dependent Inferred from expression pattern Ref.8. Source: TAIR transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	DNA binding Inferred from direct assay Ref.5. Source: TAIR protein dimerization activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
F3A4.140	Q9SN12	2	EBI-2324259,EBI-2324225

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q8L7G0-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

Isoform 2 (identifier: Q8L7G0-2)

The sequence of this isoform differs from the canonical sequence as follows:
     390-392: Missing.

Note: May be due to a competing acceptor splice site. No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 665	665	Auxin response factor 1		PRO_0000111505
Regions
	Domain	543 – 625	83	Aux/IAA-ARF
	DNA binding	124 – 226	103	TF-B3
	Compositional bias	344 – 412	69	Pro-rich
Natural variations
	Alternative sequence	390 – 392	3	Missing in isoform 2.		VSP_010077
Experimental info
	Sequence conflict	136	1	H → Q in AAM91657. Ref.4

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified April 13, 2004. Version 2. Checksum: 79DD3180C2091401	FASTA	665	73,668
	10 20 30 40 50 60 MAASNHSSGK PGGVLSDALC RELWHACAGP LVTLPREGER VYYFPEGHME QLEASMHQGL 70 80 90 100 110 120 EQQMPSFNLP SKILCKVINI QRRAEPETDE VYAQITLLPE LDQSEPTSPD APVQEPEKCT 130 140 150 160 170 180 VHSFCKTLTA SDTSTHGGFS VLRRHADDCL PPLDMSQQPP WQELVATDLH NSEWHFRHIF 190 200 210 220 230 240 RGQPRRHLLT TGWSVFVSSK KLVAGDAFIF LRGENEELRV GVRRHMRQQT NIPSSVISSH 250 260 270 280 290 300 SMHIGVLATA AHAITTGTIF SVFYKPRTSR SEFIVSVNRY LEAKTQKLSV GMRFKMRFEG 310 320 330 340 350 360 EEAPEKRFSG TIVGVQENKS SVWHDSEWRS LKVQWDEPSS VFRPERVSPW ELEPLVANST 370 380 390 400 410 420 PSSQPQPPQR NKRPRPPGLP SPATGPSGPV TPDGVWKSPA DTPSSVPLFS PPAKAATFGH 430 440 450 460 470 480 GGNKSFGVSI GSAFWPTNAD SAAESFASAF NNESTEKKQT NGNVCRLFGF ELVENVNVDE 490 500 510 520 530 540 CFSAASVSGA VAVDQPVPSN EFDSGQQSEP LNINQSDIPS GSGDPEKSSL RSPQESQSRQ 550 560 570 580 590 600 IRSCTKVHMQ GSAVGRAIDL TRSECYEDLF KKLEEMFDIK GELLESTKKW QVVYTDDEDD 610 620 630 640 650 660 MMMVGDDPWN EFCGMVRKIF IYTPEEVKKL SPKNKLAVNA RMQLKADAEE NGNTEGRSSS MAGSR
	Isoform 2 [UniParc]. Checksum: 598A0403F161FA54	FASTA	662	73,370
	10 20 30 40 50 60 MAASNHSSGK PGGVLSDALC RELWHACAGP LVTLPREGER VYYFPEGHME QLEASMHQGL 70 80 90 100 110 120 EQQMPSFNLP SKILCKVINI QRRAEPETDE VYAQITLLPE LDQSEPTSPD APVQEPEKCT 130 140 150 160 170 180 VHSFCKTLTA SDTSTHGGFS VLRRHADDCL PPLDMSQQPP WQELVATDLH NSEWHFRHIF 190 200 210 220 230 240 RGQPRRHLLT TGWSVFVSSK KLVAGDAFIF LRGENEELRV GVRRHMRQQT NIPSSVISSH 250 260 270 280 290 300 SMHIGVLATA AHAITTGTIF SVFYKPRTSR SEFIVSVNRY LEAKTQKLSV GMRFKMRFEG 310 320 330 340 350 360 EEAPEKRFSG TIVGVQENKS SVWHDSEWRS LKVQWDEPSS VFRPERVSPW ELEPLVANST 370 380 390 400 410 420 PSSQPQPPQR NKRPRPPGLP SPATGPSGPD GVWKSPADTP SSVPLFSPPA KAATFGHGGN 430 440 450 460 470 480 KSFGVSIGSA FWPTNADSAA ESFASAFNNE STEKKQTNGN VCRLFGFELV ENVNVDECFS 490 500 510 520 530 540 AASVSGAVAV DQPVPSNEFD SGQQSEPLNI NQSDIPSGSG DPEKSSLRSP QESQSRQIRS 550 560 570 580 590 600 CTKVHMQGSA VGRAIDLTRS ECYEDLFKKL EEMFDIKGEL LESTKKWQVV YTDDEDDMMM 610 620 630 640 650 660 VGDDPWNEFC GMVRKIFIYT PEEVKKLSPK NKLAVNARMQ LKADAEENGN TEGRSSSMAG SR

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"ARF1, a transcription factor that binds to auxin response elements." Ulmasov T., Hagen G., Guilfoyle T.J. Science 276:1865-1868(1997) [PubMed: 9188533] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1). Strain: cv. Columbia.
[2]	"Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana." Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O., Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E., Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K. , Conn L., Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P., Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D., Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J., Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L., Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A., Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A., Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M., Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M., Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P., Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D., Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D., Yu G., Fraser C.M., Venter J.C., Davis R.W. Nature 408:816-820(2000) [PubMed: 11130712] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[3]	The Arabidopsis Information Resource (TAIR) Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: cv. Columbia.
[4]	"Empirical analysis of transcriptional activity in the Arabidopsis genome." Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G. , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R. Science 302:842-846(2003) [PubMed: 14593172] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2). Strain: cv. Columbia.
[5]	"Dimerization and DNA binding of auxin response factors." Ulmasov T., Hagen G., Guilfoyle T.J. Plant J. 19:309-319(1999) [PubMed: 10476078] [Abstract] Cited for: DIMERIZATION, TISSUE SPECIFICITY.
[6]	"Activation and repression of transcription by auxin-response factors." Ulmasov T., Hagen G., Guilfoyle T.J. Proc. Natl. Acad. Sci. U.S.A. 96:5844-5849(1999) [PubMed: 10318972] [Abstract] Cited for: TRANSCRIPTIONAL REPRESSOR.
[7]	"Auxin-responsive gene expression: genes, promoters and regulatory factors." Hagen G., Guilfoyle T.J. Plant Mol. Biol. 49:373-385(2002) [PubMed: 12036261] [Abstract] Cited for: GENE FAMILY, NOMENCLATURE, FUNCTION.
[8]	"AUXIN RESPONSE FACTOR1 and AUXIN RESPONSE FACTOR2 regulate senescence and floral organ abscission in Arabidopsis thaliana." Ellis C.M., Nagpal P., Young J.C., Hagen G., Guilfoyle T.J., Reed J.W. Development 132:4563-4574(2005) [PubMed: 16176952] [Abstract] Cited for: FUNCTION, DEVELOPMENTAL STAGE.
[9]	"The plant B3 superfamily." Swaminathan K., Peterson K., Jack T. Trends Plant Sci. 13:647-655(2008) [PubMed: 18986826] [Abstract] Cited for: GENE FAMILY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	U83245 mRNA. Translation: AAC49751.1. AC007258 Genomic DNA. Translation: AAD39318.1. CP002684 Genomic DNA. Translation: AEE33612.1. CP002684 Genomic DNA. Translation: AEE33613.1. CP002684 Genomic DNA. Translation: AEE33614.1. AY133723 mRNA. Translation: AAM91657.1. BT002748 mRNA. Translation: AAO22577.1.
IPI	IPI00518211. IPI00520405.
PIR	D96621.
RefSeq	NP_001031208.1. NM_001036131.2. NP_176184.1. NM_104668.3. NP_849830.1. NM_179499.2.
UniGene	At.74832.
3D structure databases
ProteinModelPortal	Q8L7G0.
SMR	Q8L7G0. Positions 119-229.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q8L7G0. 3 interactions.
STRING	Q8L7G0.
Proteomic databases
PRIDE	Q8L7G0.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblPlants	AT1G59750.1; AT1G59750.1; AT1G59750. AT1G59750.3; AT1G59750.3; AT1G59750.
GeneID	842268.
GenomeReviews	Gene locus AT1G59750 in contig CT485782_GR.
KEGG	ath:AT1G59750.
NMPDR	fig|3702.1.peg.5361.
Organism-specific databases
GeneFarm	3363. 345.
TAIR	At1g59750.
Phylogenomic databases
GeneTree	EPGT00070000028018.
HOGENOM	HBG746399.
InParanoid	Q8L7G0.
OMA	NEFCGMV.
PhylomeDB	Q8L7G0.
ProtClustDB	CLSN2679699.
Gene expression databases
ArrayExpress	Q8L7G0.
Genevestigator	Q8L7G0.
GermOnline	AT1G59750. Arabidopsis thaliana.
Family and domain databases
InterPro	IPR003311. AUX_IAA. IPR011525. AuxIAA_ARF_dimer. IPR010525. Auxin_resp. IPR003340. B3_DNA-bd. IPR015300. DNA-bd_pseudobarrel. [Graphical view]
Gene3D	G3DSA:2.40.330.10. G3DSA:2.40.330.10. 1 hit.
KO	K14486.
Pfam	PF02309. AUX_IAA. 1 hit. PF06507. Auxin_resp. 1 hit. PF02362. B3. 1 hit. [Graphical view]
SMART	SM01019. B3. 1 hit. [Graphical view]
SUPFAM	SSF101936. Restrict_endonuc_II_EcoRII_N. 1 hit.
PROSITE	PS50863. B3. 1 hit. PS50962. IAA_ARF. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

ARFA_ARATH

Accession

Primary (citable) accession number: Q8L7G0
Secondary accession number(s): O23664

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 13, 2004
Last sequence update:	April 13, 2004
Last modified:	January 25, 2012
This is version 79 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Plant Protein Annotation Program