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_010929664.1

Organism

Elaeis guineensis

Taxonomic ID

51953

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Arecales; Arecaceae; Arecoideae; Cocoseae; Elaeidinae; Elaeis

Family

ARF

Protein Properties

Length: 862aa MW: 96131.2 Da PI: 7.1435

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_010929664.1	genome	OG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	71.7	9e-23	158	259	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 +++ +++a+e+ ++ s++l+ +d++g +W++++i+r++++r++l++GW+ Fv++++L +gD ++F + XP_010929664.1 158 FCKTLTASDTSTHGGFSVLRRHADEClppldmcRQP--PSQELVAKDLHGVEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFLR--GG 248 99***************************75434..4569********************************************4..37 PP EE..EEEEE-S CS B3 89 efelvvkvfrk 99 ++el+v+v+r+ XP_010929664.1 249 NGELRVGVRRA 259 8999**996 PP
2	Auxin_resp	121	8.8e-40	284	366	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha++t+++F+v+Y+Pr+s+seF+v++e+++++lk++ ++GmRfkm+fe+e+ +e+r++Gt+vg+ d+dp+rWp+SkWr+Lk XP_010929664.1 284 AWHAVNTGTMFTVYYKPRTSPSEFIVPYEQYMESLKSNHAIGMRFKMRFEGEETPEQRFTGTIVGIADADPTRWPGSKWRCLK 366 89*******************************************************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:2.40.330.10	1.1E-41	149	273	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	3.43E-40	152	287	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.02E-21	156	258	No hit	No description
SMART	SM01019	2.1E-23	158	260	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.773	158	260	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.4E-20	158	259	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.1E-36	284	366	IPR010525	Auxin response factor
Pfam	PF02309	2.5E-5	689	771	IPR033389	AUX/IAA domain
SuperFamily	SSF54277	5.89E-12	733	812	No hit	No description
PROSITE profile	PS51745	23.6	735	819	IPR000270	PB1 domain
Pfam	PF02309	1.1E-7	780	820	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: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: 862 aa Download sequence Send to blast
MESSEVSAVK GSNGSFSSGC SEFNEDGTPG GVAEASRGFA AVPAAVKDSE DALYSELWLA 60 CAGPLVTVPR VGERVFYFPQ GHIEQVEAST NQVADQQMPV YNLPSKILCR VINVQLKAEP 120 DTDEVFAQVT LLPEKQDENA VEKETLPPAQ PRPHVHSFCK TLTASDTSTH GGFSVLRRHA 180 DECLPPLDMC RQPPSQELVA KDLHGVEWRF RHIFRGQPRR HLLQSGWSVF VSSKRLVAGD 240 AFIFLRGGNG ELRVGVRRAM RQQTNVPSSV ISSHSMHLGI LATAWHAVNT GTMFTVYYKP 300 RTSPSEFIVP YEQYMESLKS NHAIGMRFKM RFEGEETPEQ RFTGTIVGIA DADPTRWPGS 360 KWRCLKVRWD ESSSVPRPER VSPWKIEPAL SPPMNPPPVP RPKRPRSNIM PCSPDSSILM 420 KEAACKVTVD PSHSHGTPRV LQGQELMTLR SSFADDNESD NAQKPIMWSS SHDEEKTDAS 480 VQRRMRSEKW RQMVRHEPTY ADLLSGYRPH DSHGFSSTLF EQNPGEAYLL KSHFQDTEGR 540 HNVLPGQWSL MPPNSSFASH EPNFKITAQP GEHSYQKAGS IRCVRQVGCS ALQGLGIEQH 600 SPNWFAHLLP TSRMENPSQS RVVKPQPLIA SQNDIKSKAS GNCKLFGFHL NSNMTASDLV 660 ASQQMNASTH EPEAHCYAAA SLKQPQAMEV DKHSEPAKVI KSADPTPVCS EPERNLLPCP 720 QTSKDMQRKQ NGSTRSCTKV HKQGIALGRS VDLTKFNGYN ELLAELDQMF EFEGELLAPN 780 KNWLVVYTDN EGDMMLVGDD PWHEFCSMVR KIFIYTREEV QRMNPGTLNS RVEESPDSSE 840 ERTAARGRKG RVPTSSAHPE SC

Sequence ? help Back to Top

Protein Sequence Length: 862 aa Download sequence Send to blast

MESSEVSAVK GSNGSFSSGC SEFNEDGTPG GVAEASRGFA AVPAAVKDSE DALYSELWLA  60
CAGPLVTVPR VGERVFYFPQ GHIEQVEAST NQVADQQMPV YNLPSKILCR VINVQLKAEP  120
DTDEVFAQVT LLPEKQDENA VEKETLPPAQ PRPHVHSFCK TLTASDTSTH GGFSVLRRHA  180
DECLPPLDMC RQPPSQELVA KDLHGVEWRF RHIFRGQPRR HLLQSGWSVF VSSKRLVAGD  240
AFIFLRGGNG ELRVGVRRAM RQQTNVPSSV ISSHSMHLGI LATAWHAVNT GTMFTVYYKP  300
RTSPSEFIVP YEQYMESLKS NHAIGMRFKM RFEGEETPEQ RFTGTIVGIA DADPTRWPGS  360
KWRCLKVRWD ESSSVPRPER VSPWKIEPAL SPPMNPPPVP RPKRPRSNIM PCSPDSSILM  420
KEAACKVTVD PSHSHGTPRV LQGQELMTLR SSFADDNESD NAQKPIMWSS SHDEEKTDAS  480
VQRRMRSEKW RQMVRHEPTY ADLLSGYRPH DSHGFSSTLF EQNPGEAYLL KSHFQDTEGR  540
HNVLPGQWSL MPPNSSFASH EPNFKITAQP GEHSYQKAGS IRCVRQVGCS ALQGLGIEQH  600
SPNWFAHLLP TSRMENPSQS RVVKPQPLIA SQNDIKSKAS GNCKLFGFHL NSNMTASDLV  660
ASQQMNASTH EPEAHCYAAA SLKQPQAMEV DKHSEPAKVI KSADPTPVCS EPERNLLPCP  720
QTSKDMQRKQ NGSTRSCTKV HKQGIALGRS VDLTKFNGYN ELLAELDQMF EFEGELLAPN  780
KNWLVVYTDN EGDMMLVGDD PWHEFCSMVR KIFIYTREEV QRMNPGTLNS RVEESPDSSE  840
ERTAARGRKG RVPTSSAHPE SC

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	1e-172	27	388	9	354	Auxin response factor 1
4ldw_A	1e-172	27	388	9	354	Auxin response factor 1
4ldw_B	1e-172	27	388	9	354	Auxin response factor 1
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).
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) (By similarity). Could act as transcriptional activator or repressor (PubMed:26959229, PubMed:26716451, PubMed:27645097, PubMed:28167023). Involved in the control of fruit ripening process (PubMed:26959229, PubMed:26716451, PubMed:28167023). Regulates expression of a number of ripening regulators, transcription factors, and ethylene biosynthesis and signaling components (PubMed:26959229, PubMed:26716451). May act as a transcriptional repressor of auxin-responsive genes (PubMed:26716451). Regulates vegetative growth, lateral root formation and flower organ senescence, possibly partially by regulating gene expression of auxin and ethylene response factor (ERF) genes (PubMed:28167023). Plays a negative role in axillary shoot meristem formation (PubMed:27645097). {ECO:0000255\|RuleBase:RU004561, ECO:0000269\|PubMed:26716451, ECO:0000269\|PubMed:26959229, ECO:0000269\|PubMed:27645097, ECO:0000269\|PubMed:28167023}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By tomato fruit ripening. Expression in tomato fruits is up-regulated by exogenous application of ethylene and down-regulated by inhibition of ethylene receptors with 1-methylcyclopropene (1-MCP) (PubMed:26959229, PubMed:26716451). Up-regulated by plant hormone abscisic acid (ABA) in tomato fruits (PubMed:26959229). Expression is not up-regulated by plant hormone auxin in tomato fruits (PubMed:26716451). Up-regulated by auxin and gibberellic acid (GA), and down-regulated by ethylene in seedlings (PubMed:28167023). Down-regulated during decapitation-induced axillary shoot development and by excision of immature leaves. Down-regulation is inhibited by the application of auxin on the cut surface (PubMed:27645097). {ECO:0000269\|PubMed:26716451, ECO:0000269\|PubMed:26959229, ECO:0000269\|PubMed:27645097, ECO:0000269\|PubMed:28167023}.

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_010929664.1	0.0	auxin response factor 23
Swissprot	A2ZET6	0.0	ARFW_ORYSI; Auxin response factor 23
Swissprot	Q2LAJ3	0.0	ARF2A_SOLLC; Auxin response factor 2A
TrEMBL	A0A2H3XZJ5	0.0	A0A2H3XZJ5_PHODC; Auxin response factor
STRING	XP_008791039.1	0.0	(Phoenix dactylifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1178	36	111

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G62000.3	0.0	auxin response factor 2

Publications ? help Back to Top
Tomato Genome Consortium The tomato genome sequence provides insights into fleshy fruit evolution. Nature, 2012. 485(7400): p. 635-41 [PMID:22660326] Breitel DA, et al. AUXIN RESPONSE FACTOR 2 Intersects Hormonal Signals in the Regulation of Tomato Fruit Ripening. PLoS Genet., 2016. 12(3): p. e1005903 [PMID:26959229] Xu T, et al. SlARF2a plays a negative role in mediating axillary shoot formation. Sci Rep, 2016. 6: p. 33728 [PMID:27645097] Ren Z,Liu R,Gu W,Dong X The Solanum lycopersicum auxin response factor SlARF2 participates in regulating lateral root formation and flower organ senescence. Plant Sci., 2017. 256: p. 103-111 [PMID:28167023]