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.0347s0048.1.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: 843aa MW: 94194.7 Da PI: 6.3283

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Kalax.0347s0048.1.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	7.1e-23	148	249	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.0347s0048.1.p 148 FCKTLTASDTSTHGGFSVLRRHADEClppldmS-KQPPTQELVAKDLHKTEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL- 235 99***************************63.4445569********************************************. PP -SSSEE..EEEEE-S CS B3 85 dgrsefelvvkvfrk 99 + +++el+v+v+r+ Kalax.0347s0048.1.p 236 -RGENGELRVGVRRA 249 .449999***996 PP
2	Auxin_resp	121.9	4.8e-40	274	356	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha+st+++F+v+Y+Pr+s++eF+v+++++++++k+++s+GmRfkm+fe+e+++e+r+sGt+vg++d+dp rW++SkWr+Lk Kalax.0347s0048.1.p 274 AWHAISTGTMFTVFYKPRTSPTEFIVPYDQYMESVKNNYSIGMRFKMRFEGEEAPEQRFSGTIVGIEDADPRRWRDSKWRCLK 356 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	5.3E-41	144	263	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	1.44E-40	144	277	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	4.04E-20	146	248	No hit	No description
SMART	SM01019	9.6E-22	148	250	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.209	148	250	IPR003340	B3 DNA binding domain
Pfam	PF02362	1.1E-20	148	249	IPR003340	B3 DNA binding domain
Pfam	PF06507	3.4E-37	274	356	IPR010525	Auxin response factor
Pfam	PF02309	3.4E-10	719	813	IPR033389	AUX/IAA domain
PROSITE profile	PS51745	23.218	722	815	IPR000270	PB1 domain
SuperFamily	SSF54277	6.87E-10	724	799	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: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: 843 aa Download sequence Send to blast
MATSEVRSGR GESFSSGHSE PRDIAASRNV ADDGRDDAED ALYTELWHAC AGPLVTVPQV 60 GEHVFYFPQG HIEQVEASTN KVAEQEMPVY DLPSKILCRV LDVRLMAEPV TDEVFAHVVL 120 VPERNQDENA VKKEPPQPPK PRFHVHSFCK TLTASDTSTH GGFSVLRRHA DECLPPLDMS 180 KQPPTQELVA KDLHKTEWRF RHIFRGQPRR HLLQSGWSVF VSSKRLVAGD AFIFLRGENG 240 ELRVGVRRAM RQQGNIPSSV ISSHSMHLGV LASAWHAIST GTMFTVFYKP RTSPTEFIVP 300 YDQYMESVKN NYSIGMRFKM RFEGEEAPEQ RFSGTIVGIE DADPRRWRDS KWRCLKVRWD 360 ETSTIPRPDR VSPWKIEPEL NPLALNPIPM PRPKRPRTNL LPLSPDSSVL TREGSSKVAL 420 EHPPTNGFLR VLQGQDISTL KANLAESNES ETVEKPGTWG LPIDEGRADV GSTPHRYLVE 480 NWLPLPRHET TYTDLLSGLA SHIETSHGYN LTFPDSAAAT SSIKKPSAED EDVLHETENH 540 WSAPPPELSL HLPESRMKYP VQGGYSLYQG HGSAVYGALE GRPMVHGHRA EHQPASWSMP 600 PPTYSTNIEW SRNSDPATSS SPRQETSKPA DGSYKLFGIP LYGHHASSEP RMSAKNSADT 660 VLEGTNLLSP ECCLVDPGLK SGQPEDSNPR DFFTVSEQEK TFQNCQPIPR EIQGKVQSGS 720 SRSCTKVHKQ GIALGRSVDL SKFNNYEQLK AELDWLFEFG GELLAARSNW LVVYTDDEGD 780 MMLAGDDPWQ EFCRMVRKIF IYTKDEVQKM NPRRTLGCSK IDGNPSSADA LDAVEVDISH 840 SL*

Sequence ? help Back to Top

Protein Sequence Length: 843 aa Download sequence Send to blast

MATSEVRSGR GESFSSGHSE PRDIAASRNV ADDGRDDAED ALYTELWHAC AGPLVTVPQV  60
GEHVFYFPQG HIEQVEASTN KVAEQEMPVY DLPSKILCRV LDVRLMAEPV TDEVFAHVVL  120
VPERNQDENA VKKEPPQPPK PRFHVHSFCK TLTASDTSTH GGFSVLRRHA DECLPPLDMS  180
KQPPTQELVA KDLHKTEWRF RHIFRGQPRR HLLQSGWSVF VSSKRLVAGD AFIFLRGENG  240
ELRVGVRRAM RQQGNIPSSV ISSHSMHLGV LASAWHAIST GTMFTVFYKP RTSPTEFIVP  300
YDQYMESVKN NYSIGMRFKM RFEGEEAPEQ RFSGTIVGIE DADPRRWRDS KWRCLKVRWD  360
ETSTIPRPDR VSPWKIEPEL NPLALNPIPM PRPKRPRTNL LPLSPDSSVL TREGSSKVAL  420
EHPPTNGFLR VLQGQDISTL KANLAESNES ETVEKPGTWG LPIDEGRADV GSTPHRYLVE  480
NWLPLPRHET TYTDLLSGLA SHIETSHGYN LTFPDSAAAT SSIKKPSAED EDVLHETENH  540
WSAPPPELSL HLPESRMKYP VQGGYSLYQG HGSAVYGALE GRPMVHGHRA EHQPASWSMP  600
PPTYSTNIEW SRNSDPATSS SPRQETSKPA DGSYKLFGIP LYGHHASSEP RMSAKNSADT  660
VLEGTNLLSP ECCLVDPGLK SGQPEDSNPR DFFTVSEQEK TFQNCQPIPR EIQGKVQSGS  720
SRSCTKVHKQ GIALGRSVDL SKFNNYEQLK AELDWLFEFG GELLAARSNW LVVYTDDEGD  780
MMLAGDDPWQ EFCRMVRKIF IYTKDEVQKM NPRRTLGCSK IDGNPSSADA LDAVEVDISH  840
SL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	1e-173	24	378	1	354	Auxin response factor 1
4ldw_A	1e-173	24	378	1	354	Auxin response factor 1
4ldw_B	1e-173	24	378	1	354	Auxin response factor 1
4ldx_A	1e-173	24	378	1	354	Auxin response factor 1
4ldx_B	1e-173	24	378	1	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) (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.0347s0048.1.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]