Auxin response factor 2 - Arabidopsis thaliana (Mouse-ear cress)

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Q94JM3 (ARFB_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 81. History...

Clusters with 100%, 90%, 50% identity |

Documents (2) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Auxin response factor 2

Alternative name(s):
ARF1-binding protein
Short name=ARF1-BP
Protein MEGAINTEGUMENTA

Gene names

Name:	ARF2
Synonyms:	MNT
Ordered Locus Names:	At5g62000
ORF Names:	MTG10.3

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	859 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). 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. Promotes flowering, stamen development, floral organ abscission and fruit dehiscence. Functions independently of ethylene and cytokinin response pathways. May act as a repressor of cell division and organ growth. Ref.9 Ref.10 Ref.11 Ref.12
Subunit structure	Homo- and heterodimers. Interacts with ARF1. Ref.8
Subcellular location	Nucleus.
Tissue specificity	Expressed in the whole plant. Ref.8 Ref.11
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. Expressed in developing siliques. Ref.10 Ref.11
Domain	Interactions between auxin response factors (ARFs) and Aux/IAA proteins occur through their C-terminal dimerization domains III and IV.
Disruption phenotype	Large, dark green rosette leaves, delayed flowering, thick and long inflorescence, abnormal flower morphology and sterility in early formed flowers, but fertility in late-formed flowers. Delayed senescence and abscission. Increased seed size and weight, and extra cell division and expansion in many organs. Ref.11 Ref.12
Sequence similarities	Belongs to the ARF family. Contains 1 Aux/IAA-ARF domain. Contains 1 TF-B3 DNA-binding domain.
Caution	Was originally (Ref.5) erroneously termed IAA26 and IAA30.
Sequence caution	The sequence AAC49752.1 differs from that shown. Reason: Erroneous initiation. The sequence AAK55665.1 differs from that shown. Reason: Frameshift at position 657. The sequence AAN46837.1 differs from that shown. Reason: Frameshift at position 657. The sequence CAD29696.1 differs from that shown. Reason: Erroneous initiation. The sequence CAD30210.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	Auxin signaling pathway Transcription Transcription regulation
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Ligand	DNA-binding
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	auxin mediated signaling pathway Inferred from electronic annotation. Source: UniProtKB-KW floral organ abscission Inferred from mutant phenotype Ref.10. Source: TAIR fruit dehiscence Inferred from mutant phenotype Ref.10. Source: TAIR leaf senescence Inferred from mutant phenotype Ref.10. Source: TAIR negative regulation of cell proliferation Inferred from mutant phenotype Ref.12. Source: TAIR negative regulation of transcription, DNA-dependent Inferred from mutant phenotype. Source: TAIR ovule development Inferred from mutant phenotype Ref.12. Source: TAIR positive regulation of flower development Inferred from mutant phenotype Ref.10. Source: TAIR response to abscisic acid stimulus Inferred from mutant phenotype. Source: TAIR transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	protein dimerization activity Inferred from electronic annotation. Source: InterPro sequence-specific DNA binding Inferred from direct assay. Source: TAIR
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
ASK7	Q39011	3	EBI-1799262,EBI-1798250

Alternative products

This entry describes 1 isoform produced by alternative splicing. [Select] Note: A number of isoforms are produced. According to EST sequences.

Isoform 1 (identifier: Q94JM3-1) 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.

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 859

859

Auxin response factor 2

PRO_0000111506

Regions

Domain

734 – 816

Aux/IAA-ARF

DNA binding

164 – 266

103

TF-B3

Experimental info

Sequence conflict

491 – 492

RR → KK in AAC49752. Ref.6

Sequence conflict

491 – 492

RR → KK in CAD29696. Ref.7

Sequence conflict

491 – 492

RR → KK in CAD30210. Ref.7

Sequence conflict

520

D → E in AAC49752. Ref.6

Sequence conflict

520

D → E in CAD29696. Ref.7

Sequence conflict

520

D → E in CAD30210. Ref.7

Sequence conflict

596

V → A in BAD93968. Ref.5

Sequence conflict

675

R → K in AAC49752. Ref.6

Sequence conflict

675

R → K in CAD29696. Ref.7

Sequence conflict

675

R → K in CAD30210. Ref.7

Sequence conflict

823

P → Q in AAC49752. Ref.6

Sequence conflict

823

P → Q in CAD29696. Ref.7

Sequence conflict

823

P → Q in CAD30210. Ref.7

Sequence conflict

826

L → V in BAD93959. Ref.5

Sequence conflict

826

L → V in BAD93897. Ref.5

Sequence conflict

826

L → V in BAD93891. Ref.5

Sequences

Sequence

Length

Mass (Da)

Tools

Isoform 1 [UniParc].

Last modified April 13, 2004. Version 2.
Checksum: 6B75171D7FF0E66B
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FASTA

859

95,701

        10         20         30         40         50         60 
MASSEVSMKG NRGGDNFSSS GFSDPKETRN VSVAGEGQKS NSTRSAAAER ALDPEAALYR 

        70         80         90        100        110        120 
ELWHACAGPL VTVPRQDDRV FYFPQGHIEQ VEASTNQAAE QQMPLYDLPS KLLCRVINVD 

       130        140        150        160        170        180 
LKAEADTDEV YAQITLLPEA NQDENAIEKE APLPPPPRFQ VHSFCKTLTA SDTSTHGGFS 

       190        200        210        220        230        240 
VLRRHADECL PPLDMSRQPP TQELVAKDLH ANEWRFRHIF RGQPRRHLLQ SGWSVFVSSK 

       250        260        270        280        290        300 
RLVAGDAFIF LRGENGELRV GVRRAMRQQG NVPSSVISSH SMHLGVLATA WHAISTGTMF 

       310        320        330        340        350        360 
TVYYKPRTSP SEFIVPFDQY MESVKNNYSI GMRFKMRFEG EEAPEQRFTG TIVGIEESDP 

       370        380        390        400        410        420 
TRWPKSKWRS LKVRWDETSS IPRPDRVSPW KVEPALAPPA LSPVPMPRPK RPRSNIAPSS 

       430        440        450        460        470        480 
PDSSMLTREG TTKANMDPLP ASGLSRVLQG QEYSTLRTKH TESVECDAPE NSVVWQSSAD 

       490        500        510        520        530        540 
DDKVDVVSGS RRYGSENWMS SARHEPTYTD LLSGFGTNID PSHGQRIPFY DHSSSPSMPA 

       550        560        570        580        590        600 
KRILSDSEGK FDYLANQWQM IHSGLSLKLH ESPKVPAATD ASLQGRCNVK YSEYPVLNGL 

       610        620        630        640        650        660 
STENAGGNWP IRPRALNYYE EVVNAQAQAQ AREQVTKQPF TIQEETAKSR EGNCRLFGIP 

       670        680        690        700        710        720 
LTNNMNGTDS TMSQRNNLND AAGLTQIASP KVQDLSDQSK GSKSTNDHRE QGRPFQTNNP 

       730        740        750        760        770        780 
HPKDAQTKTN SSRSCTKVHK QGIALGRSVD LSKFQNYEEL VAELDRLFEF NGELMAPKKD 

       790        800        810        820        830        840 
WLIVYTDEEN DMMLVGDDPW QEFCCMVRKI FIYTKEEVRK MNPGTLSCRS EEEAVVGEGS 

       850 
DAKDAKSASN PSLSSAGNS

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Functional genomic analysis of the AUXIN RESPONSE FACTOR gene family members in Arabidopsis thaliana: unique and overlapping functions of ARF7 and ARF19." Okushima Y., Overvoorde P.J., Arima K., Alonso J.M., Chan A., Chang C., Ecker J.R., Hughes B., Lui A., Nguyen D., Onodera C., Quach H., Smith A., Yu G., Theologis A. Plant Cell 17:444-463(2005) [PubMed: 15659631] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Strain: cv. Columbia.
[2]	"Structural analysis of Arabidopsis thaliana chromosome 5. VII. Sequence features of the regions of 1,013,767 bp covered by sixteen physically assigned P1 and TAC clones." Nakamura Y., Sato S., Asamizu E., Kaneko T., Kotani H., Miyajima N., Tabata S. DNA Res. 5:297-308(1998) [PubMed: 9872454] [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. Ecker J.R. Science 302:842-846(2003) [PubMed: 14593172] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: cv. Columbia.
[5]	"Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs." Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A., Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y., Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K. Shinozaki K. Submitted (MAR-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: cv. Columbia.
[6]	"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] OF 394-859. Strain: cv. Columbia.
[7]	"Nucleotide sequence of the Arabidopsis IAA30." Sessa G., Carabelli M., Ciarbelli A.R., Ruzza V., Steindler C., Ruberti I. Submitted (APR-2002) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE OF 406-859. Strain: cv. Columbia.
[8]	"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.
[9]	"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.
[10]	"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.
[11]	"AUXIN RESPONSE FACTOR 2 (ARF2): a pleiotropic developmental regulator." Okushima Y., Mitina I., Quach H.L., Theologis A. Plant J. 43:29-46(2005) [PubMed: 15960614] [Abstract] Cited for: FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, DISRUPTION PHENOTYPE.
[12]	"The AUXIN RESPONSE FACTOR 2 gene of Arabidopsis links auxin signalling, cell division, and the size of seeds and other organs." Schruff M.C., Spielman M., Tiwari S., Adams S., Fenby N., Scott R.J. Development 133:251-261(2006) [PubMed: 16339187] [Abstract] Cited for: FUNCTION, DISRUPTION PHENOTYPE.
[13]	"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	AY669787 mRNA. Translation: AAT67071.1. AB016880 Genomic DNA. Translation: BAB10162.1. CP002688 Genomic DNA. Translation: AED97548.1. CP002688 Genomic DNA. Translation: AED97549.1. CP002688 Genomic DNA. Translation: AED97550.1. AF336918 mRNA. Translation: AAG53999.1. AF378862 mRNA. Translation: AAK55665.1. Frameshift. BT000784 mRNA. Translation: AAN31923.1. BT001072 mRNA. Translation: AAN46837.1. Frameshift. AK221252 mRNA. Translation: BAD93891.1. AK221254 mRNA. Translation: BAD93897.1. AK221274 mRNA. Translation: BAD93959.1. AK221277 mRNA. Translation: BAD93968.1. AK221282 mRNA. Translation: BAD93985.1. AK221305 mRNA. Translation: BAD94058.1. U89771 mRNA. Translation: AAC49752.1. Different initiation. AJ441313 mRNA. Translation: CAD29696.1. Different initiation. AJ458328 mRNA. Translation: CAD30210.1. Different initiation.
IPI	IPI00518739.
RefSeq	NP_201006.2. NM_125593.4. NP_851244.1. NM_180913.3. NP_974980.1. NM_203251.3.
UniGene	At.21704.
3D structure databases
ProteinModelPortal	Q94JM3.
SMR	Q94JM3. Positions 158-269.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-46014N.
IntAct	Q94JM3. 5 interactions.
STRING	Q94JM3.
Proteomic databases
PRIDE	Q94JM3.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblPlants	AT5G62000.1; AT5G62000.1; AT5G62000. AT5G62000.2; AT5G62000.2; AT5G62000. AT5G62000.3; AT5G62000.3; AT5G62000.
GeneID	836321.
GenomeReviews	Gene locus AT5G62000 in contig BA000015_GR.
KEGG	ath:AT5G62000.
NMPDR	fig\|3702.1.peg.28232.
Organism-specific databases
GeneFarm	3364. 345.
TAIR	At5g62000.
Phylogenomic databases
GeneTree	EPGT00070000028018.
InParanoid	Q94JM3.
OMA	HTESVEC.
PhylomeDB	Q94JM3.
ProtClustDB	CLSN2680590.
Gene expression databases
ArrayExpress	Q94JM3.
Genevestigator	Q94JM3.
GermOnline	AT5G62000. 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.
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

ARFB_ARATH

Accession

Primary (citable) accession number: Q94JM3
Secondary accession number(s): O23671

Q9FIT6

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 13, 2004
Last sequence update:	April 13, 2004
Last modified:	January 25, 2012
This is version 81 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Plant Protein Annotation Program

Relevant documents

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Alternative products

Sequence annotation (Features)

Molecule processing

Regions

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Entry information

Relevant documents