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

XP_008242274.1

Organism

Prunus mume

Taxonomic ID

102107

Taxonomic Lineage

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

Family

ARF

Protein Properties

Length: 1165aa MW: 130339 Da PI: 6.8331

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_008242274.1	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	70.8	1.7e-22	126	227	1	99
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 f+k+lt sd++++g +++p++ ae++ + +++ ++l+ +d++ W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F +++ XP_008242274.1 126 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfsM-QPPA-QELMAKDLHDSAWTFRHIYRGQPKRHLLTTGWSVFVSTKRLFAGDSVLFI--RDE 216 99***************************954.5444.48**********************************************..456 PP EE..EEEEE-S CS B3 89 efelvvkvfrk 99 + +l+++++r+ XP_008242274.1 217 KSQLLLGIRRA 227 77789999997 PP
2	Auxin_resp	122.3	3.5e-40	252	334	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aahaa+++s+F++++nPras+seFvv+++k++ka++++vs+GmRf+m+fete+s rr++Gt++g+sd+d+vrW+nS+Wr+L+ XP_008242274.1 252 AAHAAANNSPFTIFFNPRASPSEFVVPLAKYNKAMYTQVSLGMRFRMMFETEESGVRRYMGTITGISDMDTVRWKNSQWRNLQ 334 79*******************************************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.44E-43	116	255	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	3.8E-41	118	240	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	3.82E-18	125	226	No hit	No description
PROSITE profile	PS50863	12.097	126	228	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.3E-20	126	227	IPR003340	B3 DNA binding domain
SMART	SM01019	6.1E-22	126	228	IPR003340	B3 DNA binding domain
Pfam	PF06507	2.9E-35	252	334	IPR010525	Auxin response factor
Pfam	PF02309	1.8E-8	1032	1121	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	23.991	1035	1128	IPR000270	PB1 domain
SuperFamily	SSF54277	1.05E-7	1048	1113	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: 1165 aa Download sequence Send to blast
MKAPTNGFLA TSGEGEQKRI NSELWHACAG PLVSLPPVGS LVVYFPQGHS EQVAASMQKE 60 TDFIPNYPNL PSKLICMLHN VTLHADTETD EVYAQMTLQP VNKYEKEAIL ASDMGLKQSR 120 QPSEFFCKTL TASDTSTHGG FSVPRRAAEK IFPPLDFSMQ PPAQELMAKD LHDSAWTFRH 180 IYRGQPKRHL LTTGWSVFVS TKRLFAGDSV LFIRDEKSQL LLGIRRANRQ QPALSSSVMS 240 SDSMHIGILA AAAHAAANNS PFTIFFNPRA SPSEFVVPLA KYNKAMYTQV SLGMRFRMMF 300 ETEESGVRRY MGTITGISDM DTVRWKNSQW RNLQVGWDES TAGERPGRVS IWEIEPVVTP 360 FYICPPPFFR PKFPKQPGMP DDESDIENAF KRAMPWLGDD FGMKSAPNSI FPGLSLVQWM 420 NMQQNNQFSA AQSGYFPSMV PPPGLQNNLS TDDPSKLLSF QAPVLSAPGV QLNKSAPQNQ 480 VSQVQQPTVT WPQQQQQQQQ LQQLLHSPMN QQQQSHPQQQ QLQQLLHSPM NQQQQNHPQQ 540 QQLQQLLQTP TSQQLQNYSH QQQQQQREQQ QQQESQQLQQ HQQPHQQQPQ HQPPQRQQQQ 600 QQQLQPTVVN NGVVAPNQIP GQNSHQPVMF SQLQQQQLQT GNTQSQQTVH SSSKNSFQFT 660 TGSQDSQLQQ QQLEPQPSLL QRQQQSAQLQ QSSLQLLHQS MSQKVQQQPQ VQQSSQQGIS 720 EQQLQLQLLQ KLQQQQQQQQ LLSPSSPLLQ PQLLQQQLAH QQNQQLQQLP LSQHHQQPLS 780 GNSFSADKLL NNFSAPSLMQ SQHISSVQPQ SQHKPLTAIR SHSGITEGDG PSCSTSPSTN 840 NCQMSPSNFL NRNQQGTAML LGDSVAEPAS NLVQELQSKS EIRIKHEFPS SKGPDQIKYK 900 GTITDQLEAS SSGTSYCLDA STIQQNYALP TFCLDSDVQS HPRNSLPFSA NIEGLAPDTL 960 LSRGYDSQKD LQNLLSNYGG TPRDIETELS TAAISSQSFG AANLPFKPGC SSDVAINEAG 1020 VLSNGLWANQ AQRMRTYTKV QKRGSVGRCI DVTRYKGYNE LRHDLARMFG IEGQLEDPHR 1080 TDWKLVYVDH ENDILLVGDD PWEEFVGCVQ SIKILSSVEV QQMSLDGDLG NVPVPNQACS 1140 GSDSGNAWRA PYDDNSAASF NRNQK

Sequence ? help Back to Top

Protein Sequence Length: 1165 aa Download sequence Send to blast

MKAPTNGFLA TSGEGEQKRI NSELWHACAG PLVSLPPVGS LVVYFPQGHS EQVAASMQKE  60
TDFIPNYPNL PSKLICMLHN VTLHADTETD EVYAQMTLQP VNKYEKEAIL ASDMGLKQSR  120
QPSEFFCKTL TASDTSTHGG FSVPRRAAEK IFPPLDFSMQ PPAQELMAKD LHDSAWTFRH  180
IYRGQPKRHL LTTGWSVFVS TKRLFAGDSV LFIRDEKSQL LLGIRRANRQ QPALSSSVMS  240
SDSMHIGILA AAAHAAANNS PFTIFFNPRA SPSEFVVPLA KYNKAMYTQV SLGMRFRMMF  300
ETEESGVRRY MGTITGISDM DTVRWKNSQW RNLQVGWDES TAGERPGRVS IWEIEPVVTP  360
FYICPPPFFR PKFPKQPGMP DDESDIENAF KRAMPWLGDD FGMKSAPNSI FPGLSLVQWM  420
NMQQNNQFSA AQSGYFPSMV PPPGLQNNLS TDDPSKLLSF QAPVLSAPGV QLNKSAPQNQ  480
VSQVQQPTVT WPQQQQQQQQ LQQLLHSPMN QQQQSHPQQQ QLQQLLHSPM NQQQQNHPQQ  540
QQLQQLLQTP TSQQLQNYSH QQQQQQREQQ QQQESQQLQQ HQQPHQQQPQ HQPPQRQQQQ  600
QQQLQPTVVN NGVVAPNQIP GQNSHQPVMF SQLQQQQLQT GNTQSQQTVH SSSKNSFQFT  660
TGSQDSQLQQ QQLEPQPSLL QRQQQSAQLQ QSSLQLLHQS MSQKVQQQPQ VQQSSQQGIS  720
EQQLQLQLLQ KLQQQQQQQQ LLSPSSPLLQ PQLLQQQLAH QQNQQLQQLP LSQHHQQPLS  780
GNSFSADKLL NNFSAPSLMQ SQHISSVQPQ SQHKPLTAIR SHSGITEGDG PSCSTSPSTN  840
NCQMSPSNFL NRNQQGTAML LGDSVAEPAS NLVQELQSKS EIRIKHEFPS SKGPDQIKYK  900
GTITDQLEAS SSGTSYCLDA STIQQNYALP TFCLDSDVQS HPRNSLPFSA NIEGLAPDTL  960
LSRGYDSQKD LQNLLSNYGG TPRDIETELS TAAISSQSFG AANLPFKPGC SSDVAINEAG  1020
VLSNGLWANQ AQRMRTYTKV QKRGSVGRCI DVTRYKGYNE LRHDLARMFG IEGQLEDPHR  1080
TDWKLVYVDH ENDILLVGDD PWEEFVGCVQ SIKILSSVEV QQMSLDGDLG NVPVPNQACS  1140
GSDSGNAWRA PYDDNSAASF NRNQK

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldu_A	1e-170	20	355	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	XP_008242274.1

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

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_008242274.1	0.0	PREDICTED: auxin response factor 7 isoform X1
Swissprot	Q8RYC8	0.0	ARFS_ARATH; Auxin response factor 19
TrEMBL	A0A2L1GH25	0.0	A0A2L1GH25_9ROSA; Auxin response factor
STRING	XP_008242274.1	0.0	(Prunus mume)

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]