PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja

Family

ARF

Protein Properties

Length: 717aa MW: 79453.6 Da PI: 6.4629

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Glyma.16G023600.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	73.3	2.9e-23	134	234	1	98
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 f+k+lt sd++++g +++ +k+a+e+ + + +++l +d++g +W++k+iyr++++r++lt+GW+ Fv +++L +gD +vF Glyma.16G023600.1.p 134 FCKILTASDTSTHGGFSVLRKHATEClpaldmtQ--ATPTQELAAKDLHGFEWKFKHIYRGQPRRHLLTTGWSTFVASKRLVAGDAFVFL 221 99**************************9543..445569******************************************** PP E-SSSEE..EEEEE- CS B3 84 ldgrsefelvvkvfr 98 + + ++l+v+v+r Glyma.16G023600.1.p 222 --RGEHGQLRVGVRR 234 ..4489999**98 PP
2	Auxin_resp	101.2	1.3e-33	260	339	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha+ t+++F v+Y+Pr+ s+F+v ++k+++a+++k+s+GmRfkm+fe++ds+err+sGt+vgv d++ W+nS+WrsLk Glyma.16G023600.1.p 260 ASHAVMTRTMFLVYYKPRT--SQFIVGLNKYLEAVNNKFSLGMRFKMRFEGDDSPERRFSGTIVGVGDVSA-GWSNSQWRSLK 339 689*************6..9******************************************777.*******96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.83E-41	122	263	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	8.7E-40	126	249	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	7.31E-19	132	234	No hit	No description
SMART	SM01019	4.2E-20	134	236	IPR003340	B3 DNA binding domain
Pfam	PF02362	3.6E-21	134	234	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.561	134	236	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.1E-31	260	339	IPR010525	Auxin response factor
Pfam	PF02309	4.7E-5	588	632	IPR033389	AUX/IAA domain
SuperFamily	SSF54277	2.94E-12	592	672	No hit	No description
PROSITE profile	PS51745	27.357	596	677	IPR000270	PB1 domain
Pfam	PF02309	4.5E-6	637	678	IPR033389	AUX/IAA domain

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:0005515	Molecular Function	protein binding

Sequence ? help Back to Top
Protein Sequence Length: 717 aa Download sequence Send to blast
MAHLGCCNLG GPGSSGTSLP EKGLKDDDLY RELWKLCAGP LVDVPRTGDR VFYFPQGHME 60 QLQASTDQEL NQEIPHFNLP AKIFCRVVNI QLLAEQDTDE VYACIALLPE SDQTEPTNPD 120 PNISEPPKQK FHSFCKILTA SDTSTHGGFS VLRKHATECL PALDMTQATP TQELAAKDLH 180 GFEWKFKHIY RGQPRRHLLT TGWSTFVASK RLVAGDAFVF LRGEHGQLRV GVRRLARQQS 240 PMPSSVISSQ SMHLGVLATA SHAVMTRTMF LVYYKPRTSQ FIVGLNKYLE AVNNKFSLGM 300 RFKMRFEGDD SPERRFSGTI VGVGDVSAGW SNSQWRSLKV QWDEPATIPR PDRVSCWEIE 360 PFVASTALNV TQPAVKGKRS RPADVSSSAA SGFWYHGSSN ELSQLGAATA EVQSKENQVV 420 PCSLRQKDII NSNPIDANNS SISSRVRMEG VWPSSPHLNV TPNLFSDPNN NSVLARSPIS 480 GYLNVPSRSS DGPTCEHVED GKKIENSLDC WLFGVNLTNN CSNVIITTPS ERELRGPISS 540 SVAPSGPKES IPAAACETER VQTPNYSLSN KGQKQIISEA SPNEWQNKQA TVPSMRTRTK 600 VQMQGVAVGR AFDLTTLSGY DDLIEELEKL FEIRGELHSQ DKWAVTFTDD ENDMMLVGDD 660 PWPEFCNMVK RIFICSREDL KKMKCCKLPA SSSEVEEVLL SPDSQNRDET QQSHMP*

Sequence ? help Back to Top

Protein Sequence Length: 717 aa Download sequence Send to blast

MAHLGCCNLG GPGSSGTSLP EKGLKDDDLY RELWKLCAGP LVDVPRTGDR VFYFPQGHME  60
QLQASTDQEL NQEIPHFNLP AKIFCRVVNI QLLAEQDTDE VYACIALLPE SDQTEPTNPD  120
PNISEPPKQK FHSFCKILTA SDTSTHGGFS VLRKHATECL PALDMTQATP TQELAAKDLH  180
GFEWKFKHIY RGQPRRHLLT TGWSTFVASK RLVAGDAFVF LRGEHGQLRV GVRRLARQQS  240
PMPSSVISSQ SMHLGVLATA SHAVMTRTMF LVYYKPRTSQ FIVGLNKYLE AVNNKFSLGM  300
RFKMRFEGDD SPERRFSGTI VGVGDVSAGW SNSQWRSLKV QWDEPATIPR PDRVSCWEIE  360
PFVASTALNV TQPAVKGKRS RPADVSSSAA SGFWYHGSSN ELSQLGAATA EVQSKENQVV  420
PCSLRQKDII NSNPIDANNS SISSRVRMEG VWPSSPHLNV TPNLFSDPNN NSVLARSPIS  480
GYLNVPSRSS DGPTCEHVED GKKIENSLDC WLFGVNLTNN CSNVIITTPS ERELRGPISS  540
SVAPSGPKES IPAAACETER VQTPNYSLSN KGQKQIISEA SPNEWQNKQA TVPSMRTRTK  600
VQMQGVAVGR AFDLTTLSGY DDLIEELEKL FEIRGELHSQ DKWAVTFTDD ENDMMLVGDD  660
PWPEFCNMVK RIFICSREDL KKMKCCKLPA SSSEVEEVLL SPDSQNRDET QQSHMP*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	1e-170	23	362	13	355	Auxin response factor 1
4ldw_A	1e-170	23	362	13	355	Auxin response factor 1
4ldw_B	1e-170	23	362	13	355	Auxin response factor 1
4ldx_A	1e-170	23	362	13	355	Auxin response factor 1
4ldx_B	1e-170	23	362	13	355	Auxin response factor 1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Gma.27738	0.0	leaf

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269\|PubMed:17408882}.

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).

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Glyma.16G023600.1.p

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006598900.1	0.0	auxin response factor 18 isoform X3
Refseq	XP_028207359.1	0.0	auxin response factor 18-like isoform X2
Swissprot	Q6YVY0	0.0	ARFG_ORYSJ; Auxin response factor 7
TrEMBL	A0A445GD77	0.0	A0A445GD77_GLYSO; Auxin response factor
TrEMBL	K7MET6	0.0	K7MET6_SOYBN; Auxin response factor
STRING	GLYMA16G02650.2	0.0	(Glycine max)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1511	33	96
Representative plant	OGRP550	15	82

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G23980.2	0.0	auxin response factor 9

Link Out ? help Back to Top
Phytozome	Glyma.16G023600.1.p
Entrez Gene	100795763

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]