PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

ARF

Protein Properties

Length: 546aa MW: 62370.4 Da PI: 6.6269

Description

AUXIN RESPONSE FACTOR 13

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT1G34170.3	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	65.6	7.6e-21	124	227	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-..TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvlt..kGWkeFvkangLkegDfvvFkldgrsefe 91 f k+lt sdv+ sg l++pk++a e+ ++++ +++ l+ +d+ g++W++k+ +r++++r+++t +GW+ F+ ++L +gD++v+ + +++e AT1G34170.3 124 FSKILTASDVSLSGGLIIPKQYAIECfppldMSQPISTQNLVAKDLYGQEWSFKHVFRGTPQRHMFTsgGGWSVFATTKRLIVGDIFVLL--RGENGE 219 889*************************9777888999*******************99997789***************..449999 PP .EEEEE-S CS B3 92 lvvkvfrk 99 l+++++r+ AT1G34170.3 220 LRFGIRRA 227 ***997 PP
2	Auxin_resp	39.8	1.9e-14	269	305	46	83
Auxin_resp 46 kmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 +m+fe++d+se+r+ Gt++gv+d++p +W++S+WrsLk AT1G34170.3 269 RMQFEGKDFSEKRYDGTIIGVNDMSP-HWKDSEWRSLK 305 8***********************.*******96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	1.3E-33	121	241	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	4.45E-27	121	232	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	7.41E-22	123	226	No hit	No description
PROSITE profile	PS50863	12.816	124	228	IPR003340	B3 DNA binding domain
SMART	SM01019	3.9E-26	124	228	IPR003340	B3 DNA binding domain
Pfam	PF02362	9.6E-19	124	227	IPR003340	B3 DNA binding domain
Pfam	PF06507	3.0E-10	269	305	IPR010525	Auxin response factor
Pfam	PF02309	1.0E-5	431	469	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	21.108	433	525	IPR000270	PB1 domain
SuperFamily	SSF54277	3.73E-8	436	509	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009734	Biological Process	auxin-activated signaling pathway
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0005515	Molecular Function	protein binding

Sequence ? help Back to Top
Protein Sequence Length: 546 aa Download sequence Send to blast
MENNGEMNAQ PELSVDITKT YMYEKLWNIC AGPLCVLPKP GEKVYYFPQG HIELIENSTR 60 DELDHIRPIF DLPSKLRCRV VAIDRKVDKN TDEVYAQISL MPDTTEVMTH NTTMDTRRPI 120 VYFFSKILTA SDVSLSGGLI IPKQYAIECF PPLDMSQPIS TQNLVAKDLY GQEWSFKHVF 180 RGTPQRHMFT SGGGWSVFAT TKRLIVGDIF VLLRGENGEL RFGIRRAKHQ QGHIPSSVIS 240 ANCMQHGVIA SVVNAFKTKC MFNVVYKPRM QFEGKDFSEK RYDGTIIGVN DMSPHWKDSE 300 WRSLKVQWDE LSPFLRPNQV SPWDIEHLIP SSDISQSSLK KKKHWLQLNE IGATLSNLWT 360 CQEIGQRSMN SPISVPEFSY PNAIEDSKFL SGLLLNHSLL AIPNENYNSD QMIQPRKEDI 420 TTEATTSCLL FGVDLTKVHM QGVAISRAVD LTAMHGYNQL IQKLEELFDL KDELRTRNQW 480 EIVFTNNEGA EMLVGDDPWP EFCNMAKRIF ICSKEEIKKM KLKNKFFQPE SKALTSSDVP 540 PNVTDN

Sequence ? help Back to Top

Protein Sequence Length: 546 aa Download sequence Send to blast

MENNGEMNAQ PELSVDITKT YMYEKLWNIC AGPLCVLPKP GEKVYYFPQG HIELIENSTR  60
DELDHIRPIF DLPSKLRCRV VAIDRKVDKN TDEVYAQISL MPDTTEVMTH NTTMDTRRPI  120
VYFFSKILTA SDVSLSGGLI IPKQYAIECF PPLDMSQPIS TQNLVAKDLY GQEWSFKHVF  180
RGTPQRHMFT SGGGWSVFAT TKRLIVGDIF VLLRGENGEL RFGIRRAKHQ QGHIPSSVIS  240
ANCMQHGVIA SVVNAFKTKC MFNVVYKPRM QFEGKDFSEK RYDGTIIGVN DMSPHWKDSE  300
WRSLKVQWDE LSPFLRPNQV SPWDIEHLIP SSDISQSSLK KKKHWLQLNE IGATLSNLWT  360
CQEIGQRSMN SPISVPEFSY PNAIEDSKFL SGLLLNHSLL AIPNENYNSD QMIQPRKEDI  420
TTEATTSCLL FGVDLTKVHM QGVAISRAVD LTAMHGYNQL IQKLEELFDL KDELRTRNQW  480
EIVFTNNEGA EMLVGDDPWP EFCNMAKRIF ICSKEEIKKM KLKNKFFQPE SKALTSSDVP  540
PNVTDN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	1e-104	22	337	19	361	Auxin response factor 1
4ldw_A	1e-104	22	337	19	361	Auxin response factor 1
4ldw_B	1e-104	22	337	19	361	Auxin response factor 1
4ldx_A	1e-104	22	337	19	361	Auxin response factor 1
4ldx_B	1e-104	22	337	19	361	Auxin response factor 1
Search in ModeBase

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	79356538	0.0
Genevisible	256026_at	0.0
Expression Atlas	AT1G34170	-
AtGenExpress	AT1G34170	-
ATTED-II	AT1G34170	-

Functional Description ? help Back to Top
Source	Description
UniProt	Auxin response factors (ARFs) are transcriptional factors that bind 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. {ECO:0000269\|PubMed:12036261}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT1G34170.3

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT1G34170

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY680406	0.0	AY680406.1 Arabidopsis thaliana ARF13 (At1g34170) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001154393.1	0.0	AUXIN RESPONSE FACTOR 13
Swissprot	Q9FX25	0.0	ARFM_ARATH; Auxin response factor 13
TrEMBL	F4HT52	0.0	F4HT52_ARATH; Auxin response factor
STRING	AT1G34170.3	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM12276	7	31
Representative plant	OGRP526	15	78

Link Out ? help Back to Top
Phytozome	AT1G34170.3
Entrez Gene	840316
iHOP	AT1G34170
wikigenes	AT1G34170

Publications ? help Back to Top
Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Remington DL,Vision TJ,Guilfoyle TJ,Reed JW Contrasting modes of diversification in the Aux/IAA and ARF gene families. Plant Physiol., 2004. 135(3): p. 1738-52 [PMID:15247399] Okushima Y, et al. Functional genomic analysis of the AUXIN RESPONSE FACTOR gene family members in Arabidopsis thaliana: unique and overlapping functions of ARF7 and ARF19. Plant Cell, 2005. 17(2): p. 444-63 [PMID:15659631] Axtell MJ,Snyder JA,Bartel DP Common functions for diverse small RNAs of land plants. Plant Cell, 2007. 19(6): p. 1750-69 [PMID:17601824] Manzano C,Abraham Z,L Identification of ubiquitinated proteins in Arabidopsis. Plant Mol. Biol., 2008. 68(1-2): p. 145-58 [PMID:18535787] Vernoux T, et al. The auxin signalling network translates dynamic input into robust patterning at the shoot apex. Mol. Syst. Biol., 2011. 7: p. 508 [PMID:21734647]