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Q8L7G0

- ARFA_ARATH

UniProt

Q8L7G0 - ARFA_ARATH

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Protein
Auxin response factor 1
Gene
ARF1, At1g59750, F23H11.7
Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

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-B3
Add
BLAST

GO - Molecular functioni

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

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
Complete GO annotation...

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
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 665665Auxin response factor 1
PRO_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 ARF2.1 Publication

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

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.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini543 – 62583Aux/IAA-ARF
Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi344 – 41269Pro-rich
Add
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.
Contains 1 Aux/IAA-ARF domain.

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

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei390 – 3923Missing in isoform 2.
VSP_010077

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti136 – 1361H → Q in AAM91657. 1 Publication

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...

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

« Hide 'large scale' publications
  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: June 11, 2014
This is version 99 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

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