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: 675aa MW: 75123.5 Da PI: 6.2793

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Glyma.07G272800.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	71.2	1.4e-22	124	224	1	98
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 f+k+lt sd++++g +++ +++a+++ +++ ++l+ +d++g++W +++i+r++++r++lt+GW+ Fv++++L +gD ++F Glyma.07G272800.1.p 124 FCKTLTASDTSTHGGFSVLRRHADDClppldmsQQP--PWQELVATDLHGNEWHFRHIFRGQPKRHLLTTGWSVFVSSKKLAAGDAFIFL 211 99**************************964333..4459******************************************** PP E-SSSEE..EEEEE- CS B3 84 ldgrsefelvvkvfr 98 + +++el+v+v+r Glyma.07G272800.1.p 212 --RGENGELRVGVRR 224 ..449999***98 PP
2	Auxin_resp	105.7	5.3e-35	250	333	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldp.vrWpnSkWrsLk 83 a+ha++t++ F+v+Y+Pr+s+seF+v+v+k+++ ++k+svGmRfkm+fe+++ +err+sGt+vgv d ++ + Wp+S+WrsLk Glyma.07G272800.1.p 250 ASHAIATGTLFSVFYKPRTSRSEFIVSVNKYLEVQSHKLSVGMRFKMRFEGDEIPERRFSGTIVGVGDNKSsSVWPDSEWRSLK 333 789*************************************************************99876157******96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	4.4E-41	116	239	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.7E-42	120	253	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	7.95E-20	122	224	No hit	No description
PROSITE profile	PS50863	11.42	124	226	IPR003340	B3 DNA binding domain
SMART	SM01019	1.3E-21	124	226	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.4E-20	124	224	IPR003340	B3 DNA binding domain
Pfam	PF06507	6.3E-33	250	333	IPR010525	Auxin response factor
Pfam	PF02309	5.7E-7	542	590	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	28.002	550	643	IPR000270	PB1 domain
SuperFamily	SSF54277	2.6E-11	552	627	No hit	No description
Pfam	PF02309	3.1E-6	597	640	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: 675 aa Download sequence Send to blast
MASTLKSGGI HTGAINDDLY KELWHACAGP LVTLPREGER VYYFPQGHME QLEASMYEGL 60 EQQMPSFNLP SKILCKVVNV HLRAEPETDE VYAQITLLPE ADQSEVTSPD DPLPESPRVK 120 IHSFCKTLTA SDTSTHGGFS VLRRHADDCL PPLDMSQQPP WQELVATDLH GNEWHFRHIF 180 RGQPKRHLLT TGWSVFVSSK KLAAGDAFIF LRGENGELRV GVRRVMRQQS NVPSSVISSH 240 SMHLGVLATA SHAIATGTLF SVFYKPRTSR SEFIVSVNKY LEVQSHKLSV GMRFKMRFEG 300 DEIPERRFSG TIVGVGDNKS SSVWPDSEWR SLKVQWDEPS SILRPDRVSS WELEPLVSTT 360 LANSQPTQRN KRARPLILPS TMPDSSLQGI WKSSVESTSF SYCDPQQGRG LYPSPKFNSS 420 ATNFIGFSGN SSVGSPSNKS IYWSNRMENN LESISAIALK EAGEKRQGTG NGCRLFGIQL 480 LENSNAEGNL QTVTLSGRVG DDRSVPSLDA ESDQHSEPSN ANRSDIPSVS CDAEKSCLQS 540 PQESQSKQIR SCTKVHMQGM AVGRAVDLTR FDGYEDLLRK LEDMFNIKTE LCGSLKKWQV 600 VYTDNEDDMM MVGDDPWDEF CSVVRKIFIY TAEEVKKLSP KIRLPMNEKV NPSKQDSEAI 660 VNPEDQSSNM GPSC*

Sequence ? help Back to Top

Protein Sequence Length: 675 aa Download sequence Send to blast

MASTLKSGGI HTGAINDDLY KELWHACAGP LVTLPREGER VYYFPQGHME QLEASMYEGL  60
EQQMPSFNLP SKILCKVVNV HLRAEPETDE VYAQITLLPE ADQSEVTSPD DPLPESPRVK  120
IHSFCKTLTA SDTSTHGGFS VLRRHADDCL PPLDMSQQPP WQELVATDLH GNEWHFRHIF  180
RGQPKRHLLT TGWSVFVSSK KLAAGDAFIF LRGENGELRV GVRRVMRQQS NVPSSVISSH  240
SMHLGVLATA SHAIATGTLF SVFYKPRTSR SEFIVSVNKY LEVQSHKLSV GMRFKMRFEG  300
DEIPERRFSG TIVGVGDNKS SSVWPDSEWR SLKVQWDEPS SILRPDRVSS WELEPLVSTT  360
LANSQPTQRN KRARPLILPS TMPDSSLQGI WKSSVESTSF SYCDPQQGRG LYPSPKFNSS  420
ATNFIGFSGN SSVGSPSNKS IYWSNRMENN LESISAIALK EAGEKRQGTG NGCRLFGIQL  480
LENSNAEGNL QTVTLSGRVG DDRSVPSLDA ESDQHSEPSN ANRSDIPSVS CDAEKSCLQS  540
PQESQSKQIR SCTKVHMQGM AVGRAVDLTR FDGYEDLLRK LEDMFNIKTE LCGSLKKWQV  600
VYTDNEDDMM MVGDDPWDEF CSVVRKIFIY TAEEVKKLSP KIRLPMNEKV NPSKQDSEAI  660
VNPEDQSSNM GPSC*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	0.0	1	358	1	357	Auxin response factor 1
4ldw_A	0.0	1	358	1	357	Auxin response factor 1
4ldw_B	0.0	1	358	1	357	Auxin response factor 1
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Gma.3001	0.0	cotyledon\| flower\| hypocotyl\| leaf\| pod\| root\| somatic embryo

Expression -- Description ? help Back to Top
Source	Description
Uniprot	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. {ECO:0000269\|PubMed:16176952}.
Uniprot	TISSUE SPECIFICITY: Expressed in the whole plant. {ECO:0000269\|PubMed:10476078}.

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). 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. {ECO:0000269\|PubMed:12036261, ECO:0000269\|PubMed:16176952}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Glyma.07G272800.1.p

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP015034	1e-178	AP015034.1 Vigna angularis var. angularis DNA, chromosome 1, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003528726.1	0.0	auxin response factor 1
Refseq	XP_028242023.1	0.0	auxin response factor 1-like
Swissprot	Q8L7G0	0.0	ARFA_ARATH; Auxin response factor 1
TrEMBL	I1KNS1	0.0	I1KNS1_SOYBN; Auxin response factor
STRING	GLYMA07G40270.1	0.0	(Glycine max)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF6802	26	38
Representative plant	OGRP550	15	82

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G59750.4	0.0	auxin response factor 1

Link Out ? help Back to Top
Phytozome	Glyma.07G272800.1.p
Entrez Gene	100815450

Publications ? help Back to Top
Montesinos JC,Pastor-Cantizano N,Robinson DG,Marcote MJ,Aniento F Arabidopsis p24δ5 and p24δ9 facilitate Coat Protein I-dependent transport of the K/HDEL receptor ERD2 from the Golgi to the endoplasmic reticulum. Plant J., 2014. 80(6): p. 1014-30 [PMID:25312353] Marais C, et al. The Qb-SNARE Memb11 interacts specifically with Arf1 in the Golgi apparatus of Arabidopsis thaliana. J. Exp. Bot., 2015. 66(21): p. 6665-78 [PMID:26208648] Wójcikowska B,Gaj MD Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis. Plant Cell Rep., 2017. 36(6): p. 843-858 [PMID:28255787] Zhang M,Hu X,Zhu M,Xu M,Wang L Transcription factors NF-YA2 and NF-YA10 regulate leaf growth via auxin signaling in Arabidopsis. Sci Rep, 2017. 7(1): p. 1395 [PMID:28469131]