PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Pyrus

Family

ARF

Protein Properties

Length: 1179aa MW: 131917 Da PI: 7.1513

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pbr037412.1	genome	CPETR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	69.1	5.9e-22	127	228	1	99
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 f+k+lt sd++++g +++p++ ae++ +++++ ++l+ +d++ W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F ++++ +l Pbr037412.1 127 FCKTLTASDTSTHGGFSVPRRAAEKIfpsldfSMQPPA-QELVAKDLHDSAWTFRHIYRGQPKRHLLTTGWSIFVSTKRLFAGDSVLFI--RDEKSQL 221 99***************************9445444.38**********************************************..4567778 PP EEEEE-S CS B3 93 vvkvfrk 99 +++++r+ Pbr037412.1 222 LLGIRRA 228 9999997 PP
2	Auxin_resp	124.5	7.3e-41	253	335	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa+++s+F+++YnPras+seFvv+++k++ka++++vs+GmRf+m+fete+s rr++Gt++g+sdldpvrW++S+Wr+L+ Pbr037412.1 253 AAHAAANNSPFTIFYNPRASPSEFVVPLAKYNKAMYTQVSLGMRFRMMFETEESGVRRYMGTITGISDLDPVRWKGSQWRNLQ 335 79*******************************************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	4.97E-44	116	256	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	1.4E-40	119	242	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.35E-18	126	227	No hit	No description
Pfam	PF02362	3.1E-20	127	228	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	12.125	127	229	IPR003340	B3 DNA binding domain
SMART	SM01019	4.6E-21	127	229	IPR003340	B3 DNA binding domain
Pfam	PF06507	5.1E-36	253	335	IPR010525	Auxin response factor
Pfam	PF02309	1.4E-8	1048	1136	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	25.519	1051	1144	IPR000270	PB1 domain
SuperFamily	SSF54277	1.37E-8	1064	1129	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:0009723	Biological Process	response to ethylene
GO:0009733	Biological Process	response to auxin
GO:0010311	Biological Process	lateral root formation
GO:0048366	Biological Process	leaf development
GO:0005634	Cellular Component	nucleus
GO:0043565	Molecular Function	sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 1179 aa Download sequence Send to blast
MKVPTNGFLA NSGEAGEQKR INSELWHACA GPLVSLPPVG SLVVYFPQGH SEQVAASMQK 60 ETDFIPNYPN LPSKLICMLH NVTLHADTET DEVYAQMTLQ PVNKYEKEAL LASNMGLKQS 120 RQPAEFFCKT LTASDTSTHG GFSVPRRAAE KIFPSLDFSM QPPAQELVAK DLHDSAWTFR 180 HIYRGQPKRH LLTTGWSIFV STKRLFAGDS VLFIRDEKSQ LLLGIRRANR QQPAISSSVI 240 SSDSMHIGIL AAAAHAAANN SPFTIFYNPR ASPSEFVVPL AKYNKAMYTQ VSLGMRFRMM 300 FETEESGVRR YMGTITGISD LDPVRWKGSQ WRNLQVGWDE STAGDRPSRV SIWEIEPVVT 360 PFYICPPPFF RPKFPKQPGM QDDESDIENA FKRAMPWLGD EFGMKNSPSS VFPGLSLVQW 420 MNMQQNNQFS ASQSGFFPSM VPPTSLQNNL GADDPSKLLN FQAPVLSATG LQSNKPASQN 480 QASQMQQPNV TWAQQQQPQQ LMHNPMRXXX XXXXXXXXXX XXXXXXXXXX XXXXXXXXXX 540 XXXXXXXXXX XXXXXXXXXX XXXXXXXXXX XXXXXXXXQN PPPRQRPREP QQQQDPQNLL 600 QHQQLHQHQP QRQQHQQQQL SQPNPVNNGS VAPNQVPGQN LQQPVMFSQH QQQQLLTGNT 660 QSQQAVHSSS KNSFQVTTGQ QNSQLQQQQL EPQPGLLQRQ QQAAQLQPSP QQFLQQNMSQ 720 KVQQQPQVQQ SSQQGISEQQ LQLQLLQKFH QQQQPQLLSP SSSLLQPQLL QQQLAHQQNQ 780 QLQQLPMTQH HQQQLSGNSF STDRLLNNFA APSVMQSHHM PSIQPQNQHK PLTAIRSHSG 840 LTEGDGPSCS TSPSTNNCQM SPSKYSNRNQ QGTAMLLGDS VAEPAHNLVQ ELQSKSDIRI 900 KNELPSSKGP DQIKYKGTIT DQLEASSSGT SYCLDASTIH QNYALPTFCL DGDVQSNPRS 960 SLPFSANIDG LAPDTLLSRG YDSQKDLQNL LSNYGATPRD IEIELPTAAI SSQSFGAPNL 1020 PFKTGCSSDI PLTDTGVLGN GLWANQAQRM RTYTKVQKRG SVGRCIDVTR YKGYDELRHD 1080 LARMFGIEGQ LEDPHRTDWK LVYVDHENDI LLVGDDPWEE FVSCVQSIKI LSSVEVRQMS 1140 LDGDLGNIPV PNQASSGTDS GNAWRPQYED NSAASFNR*

Sequence ? help Back to Top

Protein Sequence Length: 1179 aa Download sequence Send to blast

MKVPTNGFLA NSGEAGEQKR INSELWHACA GPLVSLPPVG SLVVYFPQGH SEQVAASMQK  60
ETDFIPNYPN LPSKLICMLH NVTLHADTET DEVYAQMTLQ PVNKYEKEAL LASNMGLKQS  120
RQPAEFFCKT LTASDTSTHG GFSVPRRAAE KIFPSLDFSM QPPAQELVAK DLHDSAWTFR  180
HIYRGQPKRH LLTTGWSIFV STKRLFAGDS VLFIRDEKSQ LLLGIRRANR QQPAISSSVI  240
SSDSMHIGIL AAAAHAAANN SPFTIFYNPR ASPSEFVVPL AKYNKAMYTQ VSLGMRFRMM  300
FETEESGVRR YMGTITGISD LDPVRWKGSQ WRNLQVGWDE STAGDRPSRV SIWEIEPVVT  360
PFYICPPPFF RPKFPKQPGM QDDESDIENA FKRAMPWLGD EFGMKNSPSS VFPGLSLVQW  420
MNMQQNNQFS ASQSGFFPSM VPPTSLQNNL GADDPSKLLN FQAPVLSATG LQSNKPASQN  480
QASQMQQPNV TWAQQQQPQQ LMHNPMRXXX XXXXXXXXXX XXXXXXXXXX XXXXXXXXXX  540
XXXXXXXXXX XXXXXXXXXX XXXXXXXXXX XXXXXXXXQN PPPRQRPREP QQQQDPQNLL  600
QHQQLHQHQP QRQQHQQQQL SQPNPVNNGS VAPNQVPGQN LQQPVMFSQH QQQQLLTGNT  660
QSQQAVHSSS KNSFQVTTGQ QNSQLQQQQL EPQPGLLQRQ QQAAQLQPSP QQFLQQNMSQ  720
KVQQQPQVQQ SSQQGISEQQ LQLQLLQKFH QQQQPQLLSP SSSLLQPQLL QQQLAHQQNQ  780
QLQQLPMTQH HQQQLSGNSF STDRLLNNFA APSVMQSHHM PSIQPQNQHK PLTAIRSHSG  840
LTEGDGPSCS TSPSTNNCQM SPSKYSNRNQ QGTAMLLGDS VAEPAHNLVQ ELQSKSDIRI  900
KNELPSSKGP DQIKYKGTIT DQLEASSSGT SYCLDASTIH QNYALPTFCL DGDVQSNPRS  960
SLPFSANIDG LAPDTLLSRG YDSQKDLQNL LSNYGATPRD IEIELPTAAI SSQSFGAPNL  1020
PFKTGCSSDI PLTDTGVLGN GLWANQAQRM RTYTKVQKRG SVGRCIDVTR YKGYDELRHD  1080
LARMFGIEGQ LEDPHRTDWK LVYVDHENDI LLVGDDPWEE FVSCVQSIKI LSSVEVRQMS  1140
LDGDLGNIPV PNQASSGTDS GNAWRPQYED NSAASFNR*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-171	21	356	51	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). 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. Involved in ethylene responses. Regulates lateral root formation through direct regulation of LBD16 and/or LBD29. Functionally redundant with ARF7. {ECO:0000269\|PubMed:12036261, ECO:0000269\|PubMed:16461383, ECO:0000269\|PubMed:17259263}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pbr037412.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin and ethylene. {ECO:0000269\|PubMed:16461383}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009359710.1	0.0	PREDICTED: auxin response factor 19
Swissprot	Q8RYC8	0.0	ARFS_ARATH; Auxin response factor 19
TrEMBL	A0A498HXG3	0.0	A0A498HXG3_MALDO; Auxin response factor
STRING	XP_009359710.1	0.0	(Pyrus x bretschneideri)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4918	33	52

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

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Perilli S, et al. RETINOBLASTOMA-RELATED protein stimulates cell differentiation in the Arabidopsis root meristem by interacting with cytokinin signaling. Plant Cell, 2013. 25(11): p. 4469-78 [PMID:24285791] Sun Y, et al. Manipulation of Auxin Response Factor 19 affects seed size in the woody perennial Jatropha curcas. Sci Rep, 2017. 7: p. 40844 [PMID:28102350] 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] Olmo R, et al. Molecular Transducers from Roots Are Triggered in Arabidopsis Leaves by Root-Knot Nematodes for Successful Feeding Site Formation: A Conserved Post-Embryogenic De novo Organogenesis Program? Front Plant Sci, 2017. 8: p. 875 [PMID:28603536] Lee K,Seo PJ High-temperature promotion of callus formation requires the BIN2-ARF-LBD axis in Arabidopsis. Planta, 2017. 246(4): p. 797-802 [PMID:28766014] Ayala-Rodríguez JÁ,Barrera-Ortiz S,Ruiz-Herrera LF,López-Bucio J Folic acid orchestrates root development linking cell elongation with auxin response and acts independently of the TARGET OF RAPAMYCIN signaling in Arabidopsis thaliana. Plant Sci., 2017. 264: p. 168-178 [PMID:28969797] Nakamura M, et al. Auxin and ROP GTPase Signaling of Polar Nuclear Migration in Root Epidermal Hair Cells. Plant Physiol., 2018. 176(1): p. 378-391 [PMID:29084900] Hong L, et al. Alternative polyadenylation is involved in auxin-based plant growth and development. Plant J., 2018. 93(2): p. 246-258 [PMID:29155478] Lee K,Park OS,Seo PJ Arabidopsis ATXR2 deposits H3K36me3 at the promoters of LBD genes to facilitate cellular dedifferentiation. Sci Signal, 2018. [PMID:29184030] Kimura T, et al. Asymmetric Auxin Distribution is Not Required to Establish Root Phototropism in Arabidopsis. Plant Cell Physiol., 2018. 59(4): p. 823-835 [PMID:29401292] Schoenaers S, et al. The Auxin-Regulated CrRLK1L Kinase ERULUS Controls Cell Wall Composition during Root Hair Tip Growth. Curr. Biol., 2018. 28(5): p. 722-732.e6 [PMID:29478854] Huang KL, et al. The ARF7 and ARF19 Transcription Factors Positively Regulate PHOSPHATE STARVATION RESPONSE1 in Arabidopsis Roots. Plant Physiol., 2018. 178(1): p. 413-427 [PMID:30026290]