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

Kalax.0234s0012.1.p

Organism

Kalanchoe marnieriana

Taxonomic ID

80907

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Saxifragales; Crassulaceae; Kalanchoe

Family

ARF

Protein Properties

Length: 852aa MW: 94833.8 Da PI: 6.3264

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Kalax.0234s0012.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	72.1	7.2e-23	155	256	1	99
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 f+k+lt sd++++g +++ +++a+e+ + k++ +++l+ +d++ +W++++i+r++++r++l++GW+ Fv++++L +gD ++F Kalax.0234s0012.1.p 155 FCKTLTASDTSTHGGFSVLRRHADEClppldmS-KQPPTQELVAKDLHKTEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL- 242 99***************************63.4445569********************************************. PP -SSSEE..EEEEE-S CS B3 85 dgrsefelvvkvfrk 99 + +++el+v+v+r+ Kalax.0234s0012.1.p 243 -RGENGELRVGVRRA 256 .449999***996 PP
2	Auxin_resp	120.5	1.3e-39	281	363	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha+st+++F+v+Y+Pr+s++eF+v++e++++++k+++svGmRfkm+fe+e+++e+r++Gt+vg++d+dp rW++SkWr+Lk Kalax.0234s0012.1.p 281 AWHAISTGTMFTVFYKPRTSPTEFIVPLEQYMESVKNNYSVGMRFKMRFEGEEAPEQRFTGTIVGTEDADPKRWRDSKWRCLK 363 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	6.1E-41	151	270	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	2.49E-40	151	284	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	4.12E-20	153	255	No hit	No description
SMART	SM01019	9.6E-22	155	257	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.1E-20	155	256	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.209	155	257	IPR003340	B3 DNA binding domain
Pfam	PF06507	7.3E-37	281	363	IPR010525	Auxin response factor
PROSITE profile	PS51745	23.928	732	825	IPR000270	PB1 domain
SuperFamily	SSF54277	9.16E-11	734	809	No hit	No description
Pfam	PF02309	7.7E-8	776	823	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: 852 aa Download sequence Send to blast
MATSEVRNGN LNARGESHTS GYGEPNGAVA SRNLAEGVGD GRVDAEDALY TELWHACAGP 60 LVTVPRQGDR VFYFPQGHIE QVEASTNKVA DQEMPVYNLP SKILCRVLDV RLMAEPVTDE 120 VFAQVILVPE NYQDENTVEK DPPPPPKPRF HVHSFCKTLT ASDTSTHGGF SVLRRHADEC 180 LPPLDMSKQP PTQELVAKDL HKTEWRFRHI FRGQPRRHLL QSGWSVFVSS KRLVAGDAFI 240 FLRGENGELR VGVRRAMRQQ GNVPSSVISS HSMHLGVLAS AWHAISTGTM FTVFYKPRTS 300 PTEFIVPLEQ YMESVKNNYS VGMRFKMRFE GEEAPEQRFT GTIVGTEDAD PKRWRDSKWR 360 CLKVRWDETS TIPRPDRVSP WKIEPALTPP ALNPIPTPRP KRPRTSVLPL SPDSSVLTRE 420 GSSKVALDPP STNEFLRLVQ GQDISTFRAN LAESNESEIV EKPRMLGIPV DEGRANVVST 480 PRRYHVENLL PLPRHETTYT DLLSGLGSGV DSSNGYCLPF HDSTAATSSM KKHSFEDEDV 540 FHKPKNHWSV RPPGGLSLQP PESSSKYPDQ CAYSLYQGGG STVCGALEGR PMVYGLSTEH 600 RSASLFMPPP KTSYLTNFEW YRNPDPTTSS VQQLETAKPT DGSYKLFGIP LFGHQVSSEP 660 SMSGMNCAEK ALEGINHLSP ELCLVDSGLK CGHPEDSDAR DFLAVADQDR TSQYCQPISR 720 EIHGKIQSGS TRSCTKVHKQ GIALGRSVDL SKFNNYEELK VELDKLFEFG GELLAARSNW 780 LVVYTDDEGD MMLVGDDPWQ EFCGMVRKIF IYTKDEVQKM NPRNLGCSKI EENPSSADPL 840 DAVEMDISHS L*

Sequence ? help Back to Top

Protein Sequence Length: 852 aa Download sequence Send to blast

MATSEVRNGN LNARGESHTS GYGEPNGAVA SRNLAEGVGD GRVDAEDALY TELWHACAGP  60
LVTVPRQGDR VFYFPQGHIE QVEASTNKVA DQEMPVYNLP SKILCRVLDV RLMAEPVTDE  120
VFAQVILVPE NYQDENTVEK DPPPPPKPRF HVHSFCKTLT ASDTSTHGGF SVLRRHADEC  180
LPPLDMSKQP PTQELVAKDL HKTEWRFRHI FRGQPRRHLL QSGWSVFVSS KRLVAGDAFI  240
FLRGENGELR VGVRRAMRQQ GNVPSSVISS HSMHLGVLAS AWHAISTGTM FTVFYKPRTS  300
PTEFIVPLEQ YMESVKNNYS VGMRFKMRFE GEEAPEQRFT GTIVGTEDAD PKRWRDSKWR  360
CLKVRWDETS TIPRPDRVSP WKIEPALTPP ALNPIPTPRP KRPRTSVLPL SPDSSVLTRE  420
GSSKVALDPP STNEFLRLVQ GQDISTFRAN LAESNESEIV EKPRMLGIPV DEGRANVVST  480
PRRYHVENLL PLPRHETTYT DLLSGLGSGV DSSNGYCLPF HDSTAATSSM KKHSFEDEDV  540
FHKPKNHWSV RPPGGLSLQP PESSSKYPDQ CAYSLYQGGG STVCGALEGR PMVYGLSTEH  600
RSASLFMPPP KTSYLTNFEW YRNPDPTTSS VQQLETAKPT DGSYKLFGIP LFGHQVSSEP  660
SMSGMNCAEK ALEGINHLSP ELCLVDSGLK CGHPEDSDAR DFLAVADQDR TSQYCQPISR  720
EIHGKIQSGS TRSCTKVHKQ GIALGRSVDL SKFNNYEELK VELDKLFEFG GELLAARSNW  780
LVVYTDDEGD MMLVGDDPWQ EFCGMVRKIF IYTKDEVQKM NPRNLGCSKI EENPSSADPL  840
DAVEMDISHS L*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	1e-174	29	385	1	354	Auxin response factor 1
4ldw_A	1e-174	29	385	1	354	Auxin response factor 1
4ldw_B	1e-174	29	385	1	354	Auxin response factor 1
4ldx_A	1e-174	29	385	1	354	Auxin response factor 1
4ldx_B	1e-174	29	385	1	354	Auxin response factor 1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	399	405	PKRPRTS

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}.

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_002284543.1	0.0	PREDICTED: auxin response factor 2
Swissprot	Q2LAJ3	0.0	ARF2A_SOLLC; Auxin response factor 2A
TrEMBL	D7SH69	0.0	D7SH69_VITVI; Auxin response factor
STRING	VIT_17s0000g00320.t01	0.0	(Vitis vinifera)

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

Link Out ? help Back to Top
Phytozome	Kalax.0234s0012.1.p

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]