Auxin response factor 5 - Arabidopsis thaliana (Mouse-ear cress)

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P93024 (ARFE_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 104. History...

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

Documents (2) |

Third-party data

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

Names and origin

Protein names

Recommended name:
Auxin response factor 5

Alternative name(s):
Auxin-responsive protein IAA24
Transcription factor MONOPTEROS

Gene names

Name:	ARF5
Synonyms:	IAA24, MP
Ordered Locus Names:	At1g19850
ORF Names:	F6F9.10

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	902 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 activator. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Mediates embryo axis formation and vascular tissues differentiation. Functionally redundant with ARF7. May be necessary to counteract AMP1 activity. Ref.11 Ref.12 Ref.13
Subunit structure	Homo- and heterodimers. Interacts with BRX and the auxin-responsive proteins IAA1, IAA12 (BODENLOS), IAA17 and ARF7. Ref.8 Ref.10 Ref.12 Ref.15
Subcellular location	Nucleus.
Tissue specificity	Expressed in the whole plant with a lower expression in leaves. Detected in embryo axis, provascular tissues, procambium and some differentiated vascular regions of mature organs. Ref.8
Developmental stage	In early embryo and during organ development.
Domain	Interactions between auxin response factors (ARFs) and Aux/IAA proteins occur through their C-terminal dimerization domains III and IV.
Miscellaneous	Absence of the protein probably causes early embryonic lethality. Premature stop codons are associated with vascular defects.
Sequence similarities	Belongs to the ARF family. Contains 1 Aux/IAA-ARF domain. Contains 1 TF-B3 DNA-binding domain.
Sequence caution	The sequence AAG12546.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
Biological process	Auxin signaling pathway Transcription Transcription regulation
Cellular component	Nucleus
Coding sequence diversity	Polymorphism
Ligand	DNA-binding
Molecular function	Activator Developmental protein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	auxin mediated signaling pathway Inferred from electronic annotation. Source: UniProtKB-KW flower development Inferred from genetic interaction Ref.13. Source: TAIR leaf vascular tissue pattern formation Inferred from genetic interaction Ref.13. Source: TAIR longitudinal axis specification Inferred from mutant phenotype. Source: TAIR meristem development Inferred from genetic interaction Ref.13. Source: TAIR regulation of transcription, DNA-dependent Inferred from expression pattern. Source: TAIR root development Inferred from genetic interaction Ref.13. Source: TAIR transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	membrane Inferred from direct assay. Source: TAIR nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	protein dimerization activity Inferred from electronic annotation. Source: InterPro transcription regulatory region DNA binding Inferred from direct assay. Source: TAIR
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
IAA1	P49677	3	EBI-629519,EBI-630505
IAA12	Q38830	3	EBI-629519,EBI-617608

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 902

902

Auxin response factor 5

PRO_0000111509

Regions

Domain

794 – 876

Aux/IAA-ARF

DNA binding

158 – 260

103

TF-B3

Compositional bias

23 – 28

Poly-Thr

Compositional bias

282 – 289

Poly-Ala

Compositional bias

445 – 499

Met-rich

Compositional bias

471 – 675

205

Gln-rich

Natural variations

Natural variant

439

Y → F in strain; cv. Ag-0. Ref.7

Natural variant

526

M → T in strain: cv. Cvi-1. Ref.7

Natural variant

539 – 542

Missing in strain: cv. Kas-1.

Natural variant

796

T → I. Ref.1

Sequences

Sequence

Length

Mass (Da)

Tools

P93024 [UniParc].

Last modified May 1, 1999. Version 3.
Checksum: D20D348369757F09
Show »

FASTA

902

99,650

        10         20         30         40         50         60 
MMASLSCVED KMKTSCLVNG GGTITTTTSQ STLLEEMKLL KDQSGTRKPV INSELWHACA 

        70         80         90        100        110        120 
GPLVCLPQVG SLVYYFSQGH SEQVAVSTRR SATTQVPNYP NLPSQLMCQV HNVTLHADKD 

       130        140        150        160        170        180 
SDEIYAQMSL QPVHSERDVF PVPDFGMLRG SKHPTEFFCK TLTASDTSTH GGFSVPRRAA 

       190        200        210        220        230        240 
EKLFPPLDYS AQPPTQELVV RDLHENTWTF RHIYRGQPKR HLLTTGWSLF VGSKRLRAGD 

       250        260        270        280        290        300 
SVLFIRDEKS QLMVGVRRAN RQQTALPSSV LSADSMHIGV LAAAAHATAN RTPFLIFYNP 

       310        320        330        340        350        360 
RACPAEFVIP LAKYRKAICG SQLSVGMRFG MMFETEDSGK RRYMGTIVGI SDLDPLRWPG 

       370        380        390        400        410        420 
SKWRNLQVEW DEPGCNDKPT RVSPWDIETP ESLFIFPSLT SGLKRQLHPS YFAGETEWGS 

       430        440        450        460        470        480 
LIKRPLIRVP DSANGIMPYA SFPSMASEQL MKMMMRPHNN QNVPSFMSEM QQNIVMGNGG 

       490        500        510        520        530        540 
LLGDMKMQQP LMMNQKSEMV QPQNKLTVNP SASNTSGQEQ NLSQSMSAPA KPENSTLSGC 

       550        560        570        580        590        600 
SSGRVQHGLE QSMEQASQVT TSTVCNEEKV NQLLQKPGAS SPVQADQCLD ITHQIYQPQS 

       610        620        630        640        650        660 
DPINGFSFLE TDELTSQVSS FQSLAGSYKQ PFILSSQDSS AVVLPDSTNS PLFHDVWDTQ 

       670        680        690        700        710        720 
LNGLKFDQFS PLMQQDLYAS QNICMSNSTT SNILDPPLSN TVLDDFCAIK DTDFQNHPSG 

       730        740        750        760        770        780 
CLVGNNNTSF AQDVQSQITS ASFADSQAFS RQDFPDNSGG TGTSSSNVDF DDCSLRQNSK 

       790        800        810        820        830        840 
GSSWQKIATP RVRTYTKVQK TGSVGRSIDV TSFKDYEELK SAIECMFGLE GLLTHPQSSG 

       850        860        870        880        890        900 
WKLVYVDYES DVLLVGDDPW EEFVGCVRCI RILSPTEVQQ MSEEGMKLLN SAGINDLKTS 


VS

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References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The Arabidopsis gene MONOPTEROS encodes a transcription factor mediating embryo axis formation and vascular development." Hardtke C.S., Berleth T. EMBO J. 17:1405-1411(1998) [PubMed: 9482737] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA], VARIANT ILE-796. 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. 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. Ecker J.R. Science 302:842-846(2003) [PubMed: 14593172] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: cv. Columbia.
[5]	"The Arabidopsis STV1 protein, responsible for translation reinitiation, is required for auxin-mediated gynoecium patterning." Nishimura T., Wada T., Yamamoto K.T., Okada K. Plant Cell 17:2940-2953(2005) [PubMed: 16227452] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 1-75. Strain: cv. Columbia.
[6]	"Protein-protein interactions among the Aux/IAA proteins." Kim J., Harter K., Theologis A. Proc. Natl. Acad. Sci. U.S.A. 94:11786-11791(1997) [PubMed: 9342315] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 13-902. Strain: cv. Columbia.
[7]	"The genetic architecture of shoot branching in Arabidopsis thaliana: a comparative assessment of candidate gene associations vs. quantitative trait locus mapping." Ehrenreich I.M., Stafford P.A., Purugganan M.D. Genetics 176:1223-1236(2007) [PubMed: 17435248] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 422-690, VARIANTS PHE-439; THR-526 AND GLY-539--542-SER DEL. Strain: cv. Ag-0, cv. An-1, cv. Br-0, cv. C24, cv. Ct-1, cv. Cvi-1, cv. Edi-0, cv. Ga-0, cv. Kas-1, cv. Kin-0, cv. Landsberg erecta, cv. Ll-0, cv. Lz-0, cv. Ms-0, cv. Mt-0, cv. Nd-1, cv. Nok-3, cv. Oy-0, cv. Se-0, cv. Sorbo, cv. Tsu-1, cv. Van-0, cv. Wa-1 and cv. Wassilewskija.
[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]	"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 ACTIVATOR.
[10]	"The Arabidopsis BODENLOS gene encodes an auxin response protein inhibiting MONOPTEROS-mediated embryo patterning." Hamann T., Benkova E., Baeurle I., Kientz M., Juergens G. Genes Dev. 16:1610-1615(2002) [PubMed: 12101120] [Abstract] Cited for: INTERACTION WITH BODENLOS.
[11]	"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.
[12]	"Overlapping and non-redundant functions of the Arabidopsis auxin response factors MONOPTEROS and NONPHOTOTROPIC HYPOCOTYL 4." Hardtke C.S., Ckurshumova W., Vidaurre D.P., Singh S.A., Stamatiou G., Tiwari S.B., Hagen G., Guilfoyle T.J., Berleth T. Development 131:1089-1100(2004) [PubMed: 14973283] [Abstract] Cited for: FUNCTION, SUBUNIT, INTERACTION WITH ARF7.
[13]	"AMP1 and MP antagonistically regulate embryo and meristem development in Arabidopsis." Vidaurre D.P., Ploense S., Krogan N.T., Berleth T. Development 134:2561-2567(2007) [PubMed: 17553903] [Abstract] Cited for: FUNCTION.
[14]	"The plant B3 superfamily." Swaminathan K., Peterson K., Jack T. Trends Plant Sci. 13:647-655(2008) [PubMed: 18986826] [Abstract] Cited for: GENE FAMILY.
[15]	"Dynamic, auxin-responsive plasma membrane-to-nucleus movement of Arabidopsis BRX." Scacchi E., Osmont K.S., Beuchat J., Salinas P., Navarrete-Gomez M., Trigueros M., Ferrandiz C., Hardtke C.S. Development 136:2059-2067(2009) [PubMed: 19465596] [Abstract] Cited for: INTERACTION WITH BRX.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AF037228 Genomic DNA. Translation: AAC39410.1. AF037229 mRNA. Translation: AAC60794.1. AC007797 Genomic DNA. Translation: AAG12546.1. Sequence problems. CP002684 Genomic DNA. Translation: AEE29906.1. AF334716 mRNA. Translation: AAG50094.1. BT002050 mRNA. Translation: AAN72061.1. BT008805 mRNA. Translation: AAP68244.1. AB199792 mRNA. Translation: BAE48152.1. U79557 mRNA. Translation: AAB92476.1. EF598523 Genomic DNA. Translation: ABR09007.1. EF598524 Genomic DNA. Translation: ABR09008.1. EF598525 Genomic DNA. Translation: ABR09009.1. EF598526 Genomic DNA. Translation: ABR09010.1. EF598527 Genomic DNA. Translation: ABR09011.1. EF598528 Genomic DNA. Translation: ABR09012.1. EF598529 Genomic DNA. Translation: ABR09013.1. EF598530 Genomic DNA. Translation: ABR09014.1. EF598531 Genomic DNA. Translation: ABR09015.1. EF598532 Genomic DNA. Translation: ABR09016.1. EF598533 Genomic DNA. Translation: ABR09017.1. EF598534 Genomic DNA. Translation: ABR09018.1. EF598535 Genomic DNA. Translation: ABR09019.1. EF598536 Genomic DNA. Translation: ABR09020.1. EF598537 Genomic DNA. Translation: ABR09021.1. EF598538 Genomic DNA. Translation: ABR09022.1. EF598539 Genomic DNA. Translation: ABR09023.1. EF598540 Genomic DNA. Translation: ABR09024.1. EF598541 Genomic DNA. Translation: ABR09025.1. EF598542 Genomic DNA. Translation: ABR09026.1. EF598543 Genomic DNA. Translation: ABR09027.1. EF598544 Genomic DNA. Translation: ABR09028.1. EF598545 Genomic DNA. Translation: ABR09029.1. EF598546 Genomic DNA. Translation: ABR09030.1.
IPI	IPI00538603.
PIR	G86331. T51807.
RefSeq	NP_173414.1. NM_101840.2.
UniGene	At.10494. At.41731.
3D structure databases
ProteinModelPortal	P93024.
SMR	P93024. Positions 152-262.
ModBase	Search...
Protein-protein interaction databases
IntAct	P93024. 30 interactions.
STRING	P93024.
Proteomic databases
PRIDE	P93024.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblPlants	AT1G19850.1; AT1G19850.1; AT1G19850.
GeneID	838573.
GenomeReviews	Gene locus AT1G19850 in contig CT485782_GR.
KEGG	ath:AT1G19850.
NMPDR	fig\|3702.1.peg.2333.
Organism-specific databases
GeneFarm	3368. 345.
TAIR	At1g19850.
Phylogenomic databases
GeneTree	EPGT00070000028440.
InParanoid	P93024.
OMA	QMSEEGM.
PhylomeDB	P93024.
ProtClustDB	CLSN2682929.
Gene expression databases
ArrayExpress	P93024.
Genevestigator	P93024.
GermOnline	AT1G19850. 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

ARFE_ARATH

Accession

Primary (citable) accession number: P93024
Secondary accession number(s): A5YYU1

Q9FXI3

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 27, 2002
Last sequence update:	May 1, 1999
Last modified:	January 25, 2012
This is version 104 of the entry and version 3 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·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

Sequence annotation (Features)

Molecule processing

Regions

Natural variations

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