PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria

Family

ARF

Protein Properties

Length: 1153aa MW: 127418 Da PI: 6.5787

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sevir.4G252900.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	71.7	9.1e-23	143	244	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 f+k+lt sd++++g +++p++ ae++ + +++ ++++ +d++ +W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F Sevir.4G252900.1.p 143 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfsM-QPPA-QEIQARDLHDATWTFRHIYRGQPKRHLLTTGWSLFVSGKRLFAGDSVIFV- 230 99***************************954.4444.48********************************************. PP -SSSEE..EEEEE-S CS B3 85 dgrsefelvvkvfrk 99 ++++++l+++++r+ Sevir.4G252900.1.p 231 -RDEKQQLLLGIRRA 244 .5688889**997 PP
2	Auxin_resp	118.3	6.4e-39	269	352	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa+++s+F+++YnPras++eFvv+++k++kal+ +++s+GmRf+m+fete+ +rr++Gt++g+sdldpvrW+nS+Wr+L+ Sevir.4G252900.1.p 269 AAHAAANNSPFTIFYNPRASPTEFVVPFAKYQKALYgNQISLGMRFRMMFETEELGTRRYMGTITGISDLDPVRWKNSQWRNLQ 352 79********************************9*******************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51257	5	1	27	No hit	No description
SuperFamily	SSF101936	2.62E-43	132	272	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.3E-41	135	258	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	5.82E-19	142	234	No hit	No description
Pfam	PF02362	1.1E-20	143	244	IPR003340	B3 DNA binding domain
SMART	SM01019	7.4E-23	143	245	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.97	143	245	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.1E-33	269	352	IPR010525	Auxin response factor
Pfam	PF02309	5.0E-10	1017	1104	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	28.939	1019	1103	IPR000270	PB1 domain
SuperFamily	SSF54277	1.37E-7	1031	1098	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:0009725	Biological Process	response to hormone
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: 1153 aa Download sequence Send to blast
MIKQQQQPAS SVGPQAAAVA AAAASGCEGE KKPPAINSEL WHACAGPLVS LPPAGSLVVY 60 FPQGHSEQVA ASMQKDVDGH VPSYPNLPSK LICLLHNVTL HADPETDEVY AQMTLQPVTS 120 YGKEALQLSE LALKQPRPQT EFFCKTLTAS DTSTHGGFSV PRRAAEKIFP PLDFSMQPPA 180 QEIQARDLHD ATWTFRHIYR GQPKRHLLTT GWSLFVSGKR LFAGDSVIFV RDEKQQLLLG 240 IRRANRQPTN ISSSVLSSDS MHIGILAAAA HAAANNSPFT IFYNPRASPT EFVVPFAKYQ 300 KALYGNQISL GMRFRMMFET EELGTRRYMG TITGISDLDP VRWKNSQWRN LQVGWDESAA 360 GERRNRVSIW EIEPVAAPFF ICPPPFFGSK RPRQLDDESS EMENLLKRAM PWLGEEICIK 420 DPQTQNTIMP GLSLVQWMNM NMQQNSSFAN TAMQSEYLRS LSNPNMQNLG AADLSRQLCL 480 QNQILQQNSI QFSSSKLPQQ MQPVNELSKA TLPLNQLGMG TKLQEQTHDP SNLQRQQQSM 540 NQLLPLSQSQ TNLVQAQVLV QNQMQQQQQP PSMTQNQQPA ASQPQLLPHP QQQQQQQQHQ 600 QQKLLHQQQQ LLLQQQQLQQ QQQNQQQLNK MAAQVPNLAA QQLQLSDQQL QLQLLQKLQQ 660 QQQSLLSQPA VTLAQLPLIQ EQQKLILDMQ QQLSNSQSLS QQQTMPQQST KVPSQATPPP 720 PPSMQQEPQQ KVPQKHVGFT DTSHAAIPPT TSVNAISAAG SPMMANGAAH SVLTEEIPSC 780 STSPSTANGN HLVQPILGRN QQCGMINNEK LPQSTAPMSI PSSLEAVTGI PRSTKELPKL 840 NSNVKQSVMA SKLPNTGPIP QNLVNSAPPT DYLETASSAT SVWLSQADGL LHQGFPMSNF 900 NQQQIFKDAP PETDIQGTDP SNNALFGINN DGQLGFPMGA DGFLSNGIDA SKYQNHISTD 960 IDGNYRIPKD GQQEISSSMV SQSFGASDMA FNSIDSGMND GGFLNRTSWP PAAPLKRMRT 1020 FTKVYKRGAV GRSIDISHYS GYDELKHALA RMFSIEGQLE EQQRIGWKLV YKDHEDDILL 1080 LGDDPWEEFV NCVRCIRILS PQEVQQMSLD GDLGNNILPN QACSSSDGGN AWRARCDQNS 1140 GNPSTGSYDQ FE*

Sequence ? help Back to Top

Protein Sequence Length: 1153 aa Download sequence Send to blast

MIKQQQQPAS SVGPQAAAVA AAAASGCEGE KKPPAINSEL WHACAGPLVS LPPAGSLVVY  60
FPQGHSEQVA ASMQKDVDGH VPSYPNLPSK LICLLHNVTL HADPETDEVY AQMTLQPVTS  120
YGKEALQLSE LALKQPRPQT EFFCKTLTAS DTSTHGGFSV PRRAAEKIFP PLDFSMQPPA  180
QEIQARDLHD ATWTFRHIYR GQPKRHLLTT GWSLFVSGKR LFAGDSVIFV RDEKQQLLLG  240
IRRANRQPTN ISSSVLSSDS MHIGILAAAA HAAANNSPFT IFYNPRASPT EFVVPFAKYQ  300
KALYGNQISL GMRFRMMFET EELGTRRYMG TITGISDLDP VRWKNSQWRN LQVGWDESAA  360
GERRNRVSIW EIEPVAAPFF ICPPPFFGSK RPRQLDDESS EMENLLKRAM PWLGEEICIK  420
DPQTQNTIMP GLSLVQWMNM NMQQNSSFAN TAMQSEYLRS LSNPNMQNLG AADLSRQLCL  480
QNQILQQNSI QFSSSKLPQQ MQPVNELSKA TLPLNQLGMG TKLQEQTHDP SNLQRQQQSM  540
NQLLPLSQSQ TNLVQAQVLV QNQMQQQQQP PSMTQNQQPA ASQPQLLPHP QQQQQQQQHQ  600
QQKLLHQQQQ LLLQQQQLQQ QQQNQQQLNK MAAQVPNLAA QQLQLSDQQL QLQLLQKLQQ  660
QQQSLLSQPA VTLAQLPLIQ EQQKLILDMQ QQLSNSQSLS QQQTMPQQST KVPSQATPPP  720
PPSMQQEPQQ KVPQKHVGFT DTSHAAIPPT TSVNAISAAG SPMMANGAAH SVLTEEIPSC  780
STSPSTANGN HLVQPILGRN QQCGMINNEK LPQSTAPMSI PSSLEAVTGI PRSTKELPKL  840
NSNVKQSVMA SKLPNTGPIP QNLVNSAPPT DYLETASSAT SVWLSQADGL LHQGFPMSNF  900
NQQQIFKDAP PETDIQGTDP SNNALFGINN DGQLGFPMGA DGFLSNGIDA SKYQNHISTD  960
IDGNYRIPKD GQQEISSSMV SQSFGASDMA FNSIDSGMND GGFLNRTSWP PAAPLKRMRT  1020
FTKVYKRGAV GRSIDISHYS GYDELKHALA RMFSIEGQLE EQQRIGWKLV YKDHEDDILL  1080
LGDDPWEEFV NCVRCIRILS PQEVQQMSLD GDLGNNILPN QACSSSDGGN AWRARCDQNS  1140
GNPSTGSYDQ FE*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-168	29	373	45	388	Auxin response factor 5
Search in ModeBase

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	Sevir.4G252900.1.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	AK103312	0.0	AK103312.1 Oryza sativa Japonica Group cDNA clone:J033125G19, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004966097.1	0.0	auxin response factor 19 isoform X1
Swissprot	Q0D9R7	0.0	ARFS_ORYSJ; Auxin response factor 19
TrEMBL	A0A368QXM8	0.0	A0A368QXM8_SETIT; Auxin response factor
STRING	Pavir.J00164.1.p	0.0	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1409	35	106

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G19220.1	0.0	auxin response factor 19

Link Out ? help Back to Top
Phytozome	Sevir.4G252900.1.p

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] Zhang S, et al. The auxin response factor, OsARF19, controls rice leaf angles through positively regulating OsGH3-5 and OsBRI1. Plant Cell Environ., 2015. 38(4): p. 638-54 [PMID:24995795]