PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Lsa016595

Organism

Lactuca sativa

Taxonomic ID

4236

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; campanulids; Asterales; Asteraceae; Cichorioideae; Cichorieae; Lactucinae; Lactuca

Family

ARF

Protein Properties

Length: 831aa MW: 93425.7 Da PI: 6.5096

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PUT-187a-Lactuca_sativa-10071	PU_ref	plantGDB	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	77.7	1.3e-24	126	227	1	99
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94 f+k+ltpsd++++g +++p++ ae++ +++++ ++l+ +d++ +sW++++iyr++++r++lt+GW+ Fv++++L +gD v+F ++++ +l++ Lsa016595 126 FCKTLTPSDTSTHGGFSVPRRAAEKIfppldfSMQPPA-QELVARDLHDQSWTFRHIYRGQPKRHLLTTGWSTFVSSKRLLAGDAVLFI--RDEKSQLLL 222 99***************************9445444.38**********************************************..456777899 PP EEE-S CS B3 95 kvfrk 99 +++r+ Lsa016595 223 GIRRA 227 99997 PP
2	Auxin_resp	121.3	7.4e-40	252	334	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa+++s+F+++YnPras++eFv++++k++ka++++vs+GmRf+m+fete+s rr++Gt++gvsd+d+vrW+ S+Wrs++ Lsa016595 252 AAHAAANNSPFTIYYNPRASPAEFVIPLAKYNKAMYTQVSLGMRFRMMFETEESGVRRYMGTITGVSDMDSVRWKTSQWRSIQ 334 79******************************************************************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.7E-44	115	255	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	7.9E-43	118	241	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.66E-21	125	226	No hit	No description
PROSITE profile	PS50863	12.887	126	228	IPR003340	B3 DNA binding domain
SMART	SM01019	1.0E-23	126	228	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.3E-22	126	227	IPR003340	B3 DNA binding domain
Pfam	PF06507	3.9E-35	252	334	IPR010525	Auxin response factor
Pfam	PF02309	4.9E-10	696	791	IPR033389	AUX/IAA domain
SuperFamily	SSF54277	1.18E-7	704	783	No hit	No description
PROSITE profile	PS51745	24.655	704	797	IPR000270	PB1 domain

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: 831 aa Download sequence Send to blast
MKGPPNTYQP NSGEGARKVM NSELWHACAG PMVSLPPVGS LVVYFPQGHS EQVAASMQKD 60 TENIPNYPNL PSKLICMLHN VTLHADAETD EVYAQMTLQP VNKYDQEALL ISDMGLKQNK 120 QPTEFFCKTL TPSDTSTHGG FSVPRRAAEK IFPPLDFSMQ PPAQELVARD LHDQSWTFRH 180 IYRGQPKRHL LTTGWSTFVS SKRLLAGDAV LFIRDEKSQL LLGIRRANRQ QPALSSSVIS 240 SDSMHIGILA AAAHAAANNS PFTIYYNPRA SPAEFVIPLA KYNKAMYTQV SLGMRFRMMF 300 ETEESGVRRY MGTITGVSDM DSVRWKTSQW RSIQVGWDES AAGERPSRVS VWEIEPVVTP 360 FYMCPPPFFR QKFSQQQDGD MELENGYKRG MPMPWIEDVG MNMKLSLVQW MNMQQNHGFP 420 SNVSQNSLSF EDNSKLLSFQ SPKTNQQLSS TWPQQHQQQQ NSIYNHLQQQ QISGNTQPHQ 480 ANKTSFQPSS SSMSHESQFQ HQILQQQLNS NCLQSLYKPP IPIRVNPGIT DSNPPSCSTS 540 PSTNTCQATP PNYQIKNHQG QSDSMIHDLT KSNARIKQEL PQPKYKSIAT ETQEPTTSIT 600 SYCLDAGDLP QNFSIPNLCL EGDVIHSQDR SESDLSFGAK IDILPPDALL SRSFDHSQNL 660 MISPESFGMP DISFKQDCSN EIKDSGVLGN GVWGNNNQSQ QRMRTYTKVQ KRGSVGRTID 720 VTRYKGYEEL RHDLACMFGI QGQLENSQRV DWKLVYVDHE NDILLVGDDP WEEFVSCVQS 780 IKILSYSEVQ QMSLDGDLGN IRMLNQASSG TDSGNPWRGQ FDDNSAASFN R

Sequence ? help Back to Top

Protein Sequence Length: 831 aa Download sequence Send to blast

MKGPPNTYQP NSGEGARKVM NSELWHACAG PMVSLPPVGS LVVYFPQGHS EQVAASMQKD  60
TENIPNYPNL PSKLICMLHN VTLHADAETD EVYAQMTLQP VNKYDQEALL ISDMGLKQNK  120
QPTEFFCKTL TPSDTSTHGG FSVPRRAAEK IFPPLDFSMQ PPAQELVARD LHDQSWTFRH  180
IYRGQPKRHL LTTGWSTFVS SKRLLAGDAV LFIRDEKSQL LLGIRRANRQ QPALSSSVIS  240
SDSMHIGILA AAAHAAANNS PFTIYYNPRA SPAEFVIPLA KYNKAMYTQV SLGMRFRMMF  300
ETEESGVRRY MGTITGVSDM DSVRWKTSQW RSIQVGWDES AAGERPSRVS VWEIEPVVTP  360
FYMCPPPFFR QKFSQQQDGD MELENGYKRG MPMPWIEDVG MNMKLSLVQW MNMQQNHGFP  420
SNVSQNSLSF EDNSKLLSFQ SPKTNQQLSS TWPQQHQQQQ NSIYNHLQQQ QISGNTQPHQ  480
ANKTSFQPSS SSMSHESQFQ HQILQQQLNS NCLQSLYKPP IPIRVNPGIT DSNPPSCSTS  540
PSTNTCQATP PNYQIKNHQG QSDSMIHDLT KSNARIKQEL PQPKYKSIAT ETQEPTTSIT  600
SYCLDAGDLP QNFSIPNLCL EGDVIHSQDR SESDLSFGAK IDILPPDALL SRSFDHSQNL  660
MISPESFGMP DISFKQDCSN EIKDSGVLGN GVWGNNNQSQ QRMRTYTKVQ KRGSVGRTID  720
VTRYKGYEEL RHDLACMFGI QGQLENSQRV DWKLVYVDHE NDILLVGDDP WEEFVSCVQS  780
IKILSYSEVQ QMSLDGDLGN IRMLNQASSG TDSGNPWRGQ FDDNSAASFN R

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-173	15	355	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). 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}.

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_023757391.1	0.0	auxin response factor 16-like
Swissprot	Q8RYC8	0.0	ARFS_ARATH; Auxin response factor 19
TrEMBL	A0A2J6MH89	0.0	A0A2J6MH89_LACSA; Auxin-responsive protein
STRING	Migut.J00900.1.p	0.0	(Erythranthe guttata)

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]