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Q8L7G0

- ARFA_ARATH

UniProt

Q8L7G0 - ARFA_ARATH

Protein

Auxin response factor 1

Gene

ARF1

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 100 (01 Oct 2014)
      Sequence version 2 (13 Apr 2004)
      Previous versions | rss
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    Functioni

    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 IAA7.2 Publications

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    DNA bindingi124 – 226103TF-B3PROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. DNA binding Source: TAIR
    2. protein binding Source: IntAct
    3. sequence-specific DNA binding transcription factor activity Source: TAIR

    GO - Biological processi

    1. auxin-activated signaling pathway Source: UniProtKB-KW
    2. leaf senescence Source: TAIR
    3. negative regulation of transcription, DNA-templated Source: TAIR
    4. response to auxin Source: TAIR
    5. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Molecular functioni

    Repressor

    Keywords - Biological processi

    Auxin signaling pathway, Transcription, Transcription regulation

    Keywords - Ligandi

    DNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Auxin response factor 1
    Gene namesi
    Name:ARF1
    Ordered Locus Names:At1g59750
    ORF Names:F23H11.7
    OrganismiArabidopsis thaliana (Mouse-ear cress)
    Taxonomic identifieri3702 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
    ProteomesiUP000006548: Chromosome 1

    Organism-specific databases

    TAIRiAT1G59750.

    Subcellular locationi

    GO - Cellular componenti

    1. nucleus Source: TAIR

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 665665Auxin response factor 1PRO_0000111505Add
    BLAST

    Proteomic databases

    PRIDEiQ8L7G0.

    Expressioni

    Tissue specificityi

    Expressed in the whole plant.1 Publication

    Developmental stagei

    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.1 Publication

    Gene expression databases

    GenevestigatoriQ8L7G0.

    Interactioni

    Subunit structurei

    Homodimers and heterodimers. Interacts with the auxin-responsive proteins IAA12, IAA13, IAA17 and with ARF2.

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    F3A4.140Q9SN122EBI-2324259,EBI-2324225

    Protein-protein interaction databases

    BioGridi27493. 10 interactions.
    IntActiQ8L7G0. 16 interactions.
    MINTiMINT-7712748.
    STRINGi3702.AT1G59750.1-P.

    Structurei

    Secondary structure

    1
    665
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi17 – 2812
    Beta strandi40 – 434
    Helixi45 – 528
    Beta strandi54 – 563
    Beta strandi71 – 8414
    Beta strandi86 – 883
    Beta strandi91 – 999
    Beta strandi121 – 1277
    Helixi130 – 1334
    Beta strandi134 – 1374
    Beta strandi139 – 1413
    Helixi143 – 1497
    Beta strandi157 – 1593
    Beta strandi161 – 1677
    Beta strandi173 – 1819
    Turni182 – 1854
    Beta strandi186 – 1894
    Helixi193 – 1997
    Beta strandi207 – 2137
    Beta strandi218 – 2214
    Helixi239 – 25618
    Beta strandi260 – 2645
    Turni266 – 2683
    Beta strandi274 – 2763
    Helixi277 – 2859
    Beta strandi293 – 2975
    Beta strandi301 – 3044
    Beta strandi307 – 31610
    Beta strandi321 – 3233
    Beta strandi331 – 3377
    Beta strandi345 – 3473
    Helixi349 – 3513

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4LDVX-ray1.45A1-355[»]
    4LDWX-ray2.67A/B1-355[»]
    4LDXX-ray2.90A/B1-355[»]
    4LDYX-ray2.30A/B1-355[»]
    ProteinModelPortaliQ8L7G0.
    SMRiQ8L7G0. Positions 15-355, 545-627.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini543 – 62583Aux/IAA-ARFPROSITE-ProRule annotationAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi344 – 41269Pro-richAdd
    BLAST

    Domaini

    Interactions between auxin response factors (ARFs) and Aux/IAA proteins occur through their C-terminal dimerization domains III and IV.

    Sequence similaritiesi

    Belongs to the ARF family.Curated
    Contains 1 Aux/IAA-ARF domain.PROSITE-ProRule annotation
    Contains 1 TF-B3 DNA-binding domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiNOG257828.
    HOGENOMiHOG000241141.
    InParanoidiQ8L7G0.
    KOiK14486.
    OMAiQYLPMFN.
    PhylomeDBiQ8L7G0.

    Family and domain databases

    Gene3Di2.40.330.10. 1 hit.
    InterProiIPR003311. AUX_IAA.
    IPR011525. AuxIAA_ARF_dimer.
    IPR010525. Auxin_resp.
    IPR003340. B3_DNA-bd.
    IPR015300. DNA-bd_pseudobarrel.
    [Graphical view]
    PfamiPF02309. AUX_IAA. 1 hit.
    PF06507. Auxin_resp. 1 hit.
    PF02362. B3. 1 hit.
    [Graphical view]
    SMARTiSM01019. B3. 1 hit.
    [Graphical view]
    SUPFAMiSSF101936. SSF101936. 1 hit.
    PROSITEiPS50863. B3. 1 hit.
    PS50962. IAA_ARF. 1 hit.
    [Graphical view]

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: Q8L7G0-1) [UniParc]FASTAAdd to Basket

    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.

    « Hide

    MAASNHSSGK PGGVLSDALC RELWHACAGP LVTLPREGER VYYFPEGHME    50
    QLEASMHQGL EQQMPSFNLP SKILCKVINI QRRAEPETDE VYAQITLLPE 100
    LDQSEPTSPD APVQEPEKCT VHSFCKTLTA SDTSTHGGFS VLRRHADDCL 150
    PPLDMSQQPP WQELVATDLH NSEWHFRHIF RGQPRRHLLT TGWSVFVSSK 200
    KLVAGDAFIF LRGENEELRV GVRRHMRQQT NIPSSVISSH SMHIGVLATA 250
    AHAITTGTIF SVFYKPRTSR SEFIVSVNRY LEAKTQKLSV GMRFKMRFEG 300
    EEAPEKRFSG TIVGVQENKS SVWHDSEWRS LKVQWDEPSS VFRPERVSPW 350
    ELEPLVANST PSSQPQPPQR NKRPRPPGLP SPATGPSGPV TPDGVWKSPA 400
    DTPSSVPLFS PPAKAATFGH GGNKSFGVSI GSAFWPTNAD SAAESFASAF 450
    NNESTEKKQT NGNVCRLFGF ELVENVNVDE CFSAASVSGA VAVDQPVPSN 500
    EFDSGQQSEP LNINQSDIPS GSGDPEKSSL RSPQESQSRQ IRSCTKVHMQ 550
    GSAVGRAIDL TRSECYEDLF KKLEEMFDIK GELLESTKKW QVVYTDDEDD 600
    MMMVGDDPWN EFCGMVRKIF IYTPEEVKKL SPKNKLAVNA RMQLKADAEE 650
    NGNTEGRSSS MAGSR 665
    Length:665
    Mass (Da):73,668
    Last modified:April 13, 2004 - v2
    Checksum:i79DD3180C2091401
    GO
    Isoform 2 (identifier: Q8L7G0-2) [UniParc]FASTAAdd to Basket

    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.

    Show »
    Length:662
    Mass (Da):73,370
    Checksum:i598A0403F161FA54
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti136 – 1361H → Q in AAM91657. (PubMed:14593172)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei390 – 3923Missing in isoform 2. 1 PublicationVSP_010077

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    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.
    PIRiD96621.
    RefSeqiNP_001031208.1. NM_001036131.2. [Q8L7G0-1]
    NP_176184.1. NM_104668.3. [Q8L7G0-1]
    NP_849830.1. NM_179499.2. [Q8L7G0-2]
    UniGeneiAt.74832.

    Genome annotation databases

    EnsemblPlantsiAT1G59750.1; AT1G59750.1; AT1G59750. [Q8L7G0-1]
    AT1G59750.3; AT1G59750.3; AT1G59750. [Q8L7G0-1]
    GeneIDi842268.
    KEGGiath:AT1G59750.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    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 .
    PIRi D96621.
    RefSeqi NP_001031208.1. NM_001036131.2. [Q8L7G0-1 ]
    NP_176184.1. NM_104668.3. [Q8L7G0-1 ]
    NP_849830.1. NM_179499.2. [Q8L7G0-2 ]
    UniGenei At.74832.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    4LDV X-ray 1.45 A 1-355 [» ]
    4LDW X-ray 2.67 A/B 1-355 [» ]
    4LDX X-ray 2.90 A/B 1-355 [» ]
    4LDY X-ray 2.30 A/B 1-355 [» ]
    ProteinModelPortali Q8L7G0.
    SMRi Q8L7G0. Positions 15-355, 545-627.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 27493. 10 interactions.
    IntActi Q8L7G0. 16 interactions.
    MINTi MINT-7712748.
    STRINGi 3702.AT1G59750.1-P.

    Proteomic databases

    PRIDEi Q8L7G0.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblPlantsi AT1G59750.1 ; AT1G59750.1 ; AT1G59750 . [Q8L7G0-1 ]
    AT1G59750.3 ; AT1G59750.3 ; AT1G59750 . [Q8L7G0-1 ]
    GeneIDi 842268.
    KEGGi ath:AT1G59750.

    Organism-specific databases

    GeneFarmi 3363. 345.
    TAIRi AT1G59750.

    Phylogenomic databases

    eggNOGi NOG257828.
    HOGENOMi HOG000241141.
    InParanoidi Q8L7G0.
    KOi K14486.
    OMAi QYLPMFN.
    PhylomeDBi Q8L7G0.

    Gene expression databases

    Genevestigatori Q8L7G0.

    Family and domain databases

    Gene3Di 2.40.330.10. 1 hit.
    InterProi IPR003311. AUX_IAA.
    IPR011525. AuxIAA_ARF_dimer.
    IPR010525. Auxin_resp.
    IPR003340. B3_DNA-bd.
    IPR015300. DNA-bd_pseudobarrel.
    [Graphical view ]
    Pfami PF02309. AUX_IAA. 1 hit.
    PF06507. Auxin_resp. 1 hit.
    PF02362. B3. 1 hit.
    [Graphical view ]
    SMARTi SM01019. B3. 1 hit.
    [Graphical view ]
    SUPFAMi SSF101936. SSF101936. 1 hit.
    PROSITEi PS50863. B3. 1 hit.
    PS50962. IAA_ARF. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "ARF1, a transcription factor that binds to auxin response elements."
      Ulmasov T., Hagen G., Guilfoyle T.J.
      Science 276:1865-1868(1997) [PubMed] [Europe PMC] [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] [Europe PMC] [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] [Europe PMC] [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] [Europe PMC] [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] [Europe PMC] [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] [Europe PMC] [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] [Europe PMC] [Abstract]
      Cited for: FUNCTION, DEVELOPMENTAL STAGE.
    9. Cited for: GENE FAMILY.

    Entry informationi

    Entry nameiARFA_ARATH
    AccessioniPrimary (citable) accession number: Q8L7G0
    Secondary accession number(s): O23664
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 13, 2004
    Last sequence update: April 13, 2004
    Last modified: October 1, 2014
    This is version 100 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programPlant Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. Arabidopsis thaliana
      Arabidopsis thaliana: entries and gene names
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3