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

CA03g31230

Organism

Capsicum annuum

Taxonomic ID

4072

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Capsiceae; Capsicum

Family

ARF

Protein Properties

Length: 872aa MW: 96975.6 Da PI: 6.6408

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
CA03g31230	genome	PEP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	73.2	3.1e-23	146	247	1	99
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 f+k+lt sd++++g +++ +++a+e+ + + + +++l+ +d++g++W++++i+r++++r++l++GW+ Fv++++L +gD ++F + +++ l+ CA03g31230 146 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RGENGDLR 241 99***************************7333.34459*********************************************..3488889 PP EEEE-S CS B3 94 vkvfrk 99 v+v+r+ CA03g31230 242 VGVRRA 247 ***996 PP
2	Auxin_resp	120.5	1.3e-39	272	354	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha++tk++F+v+Y+Pr+s++eF+v+++++++++k+++s+GmRfkm+fe+e+++e+r++Gt+vg++d+dp rW +SkWr+Lk CA03g31230 272 AWHAIQTKTMFTVYYKPRTSPAEFIVPYDHYMESVKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPQRWLESKWRCLK 354 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	1.2E-41	142	261	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	2.09E-40	142	275	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	2.55E-21	144	246	No hit	No description
PROSITE profile	PS50863	11.871	146	248	IPR003340	B3 DNA binding domain
SMART	SM01019	5.8E-23	146	248	IPR003340	B3 DNA binding domain
Pfam	PF02362	2.9E-21	146	247	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.3E-36	272	354	IPR010525	Auxin response factor
SuperFamily	SSF54277	8.83E-13	736	822	No hit	No description
PROSITE profile	PS51745	25.119	745	829	IPR000270	PB1 domain
Pfam	PF02309	2.6E-10	745	830	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: 872 aa Download sequence Send to blast
MAASEVSIKG YNEPSDGSRQ VSDTVRSSSG AGKAHAETAL YTELWRSCAG PLVTVPKEGE 60 LVYYFPQGHI EQVEASTNQV ADQQMPLYNL PSKILCRVVN VLLKAEPDTD EVYAQVTLMP 120 EPNQDENSVE KEPMRPPPPR FHVHSFCKTL TASDTSTHGG FSVLRRHADE CLPPLDMSRQ 180 PPTQELVAKD LHGNEWRFRH IFRGQPRRHL LQSGWSVFVS SKRLVAGDAF IFLRGENGDL 240 RVGVRRAMRQ QGNAPSSVIS SHSMHLGVLA TAWHAIQTKT MFTVYYKPRT SPAEFIVPYD 300 HYMESVKNNY SIGMRFKMRF EGEEAPEQRF TGTIVGIEDA DPQRWLESKW RCLKVVRWDE 360 NSTIPRPDRV SPWKIEPALN PPALNAPPVT RPKRPRSSIL PSSPDSSVLT REGPSRVTAD 420 LSQANGFSRV LQGQELSTFR GGFAESNESD LAEKPMMWQP SMDDEKNDIH SASKRYLSDK 480 WLPLGRPESS LTDLLSGFGV PNTSSHGFLP SADQASFGGS FLKRQAQDQE KDFSLLGKPW 540 SLLSSSLSLN LMNSSSKAPG QGGDNPYQMR GDSRYSGFGE FSVLPGHRGD NQQGSWIMPQ 600 PVSPYIQLSA HSREMMHKPT VVKQPEAVKP KEGNCKLFGI PLTSNVCTDP VMMRKSSLND 660 SASDMNIGIH PHQSHATDSD QRSEQSKGSK VDNDHDKQFH AFHIASRERD GKGHSSSPLD 720 LLTAAQEEKR RLGVPSCSDL PYATRSCTKV HKQGTALGRS VDLAKFNNYD ELIAELDQLF 780 DFNGELKCQS KSWLVVYTDD EGDMMLVGDD PWQEFCGMVR KIFIYTKEEV QRMNPGTLNS 840 KGEDTSSVAE GSDAKEGKNL QLPSESGQEE S*

Sequence ? help Back to Top

Protein Sequence Length: 872 aa Download sequence Send to blast

MAASEVSIKG YNEPSDGSRQ VSDTVRSSSG AGKAHAETAL YTELWRSCAG PLVTVPKEGE  60
LVYYFPQGHI EQVEASTNQV ADQQMPLYNL PSKILCRVVN VLLKAEPDTD EVYAQVTLMP  120
EPNQDENSVE KEPMRPPPPR FHVHSFCKTL TASDTSTHGG FSVLRRHADE CLPPLDMSRQ  180
PPTQELVAKD LHGNEWRFRH IFRGQPRRHL LQSGWSVFVS SKRLVAGDAF IFLRGENGDL  240
RVGVRRAMRQ QGNAPSSVIS SHSMHLGVLA TAWHAIQTKT MFTVYYKPRT SPAEFIVPYD  300
HYMESVKNNY SIGMRFKMRF EGEEAPEQRF TGTIVGIEDA DPQRWLESKW RCLKVVRWDE  360
NSTIPRPDRV SPWKIEPALN PPALNAPPVT RPKRPRSSIL PSSPDSSVLT REGPSRVTAD  420
LSQANGFSRV LQGQELSTFR GGFAESNESD LAEKPMMWQP SMDDEKNDIH SASKRYLSDK  480
WLPLGRPESS LTDLLSGFGV PNTSSHGFLP SADQASFGGS FLKRQAQDQE KDFSLLGKPW  540
SLLSSSLSLN LMNSSSKAPG QGGDNPYQMR GDSRYSGFGE FSVLPGHRGD NQQGSWIMPQ  600
PVSPYIQLSA HSREMMHKPT VVKQPEAVKP KEGNCKLFGI PLTSNVCTDP VMMRKSSLND  660
SASDMNIGIH PHQSHATDSD QRSEQSKGSK VDNDHDKQFH AFHIASRERD GKGHSSSPLD  720
LLTAAQEEKR RLGVPSCSDL PYATRSCTKV HKQGTALGRS VDLAKFNNYD ELIAELDQLF  780
DFNGELKCQS KSWLVVYTDD EGDMMLVGDD PWQEFCGMVR KIFIYTKEEV QRMNPGTLNS  840
KGEDTSSVAE GSDAKEGKNL QLPSESGQEE S*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	1e-172	28	377	7	354	Auxin response factor 1
4ldw_A	1e-172	28	377	7	354	Auxin response factor 1
4ldw_B	1e-172	28	377	7	354	Auxin response factor 1
4ldx_A	1e-172	28	377	7	354	Auxin response factor 1
4ldx_B	1e-172	28	377	7	354	Auxin response factor 1
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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) (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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	DQ340255	0.0	DQ340255.1 Lycopersicon esculentum auxin response factor 2 (ARF2) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016563065.1	0.0	PREDICTED: auxin response factor 2-like
Swissprot	Q2LAJ3	0.0	ARF2A_SOLLC; Auxin response factor 2A
TrEMBL	A0A2G3A2W0	0.0	A0A2G3A2W0_CAPAN; Auxin response factor
STRING	PGSC0003DMT400036765	0.0	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA2618	24	44

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]