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_009798135.1

Organism

Nicotiana sylvestris

Taxonomic ID

4096

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

ARF

Protein Properties

Length: 757aa MW: 84307.2 Da PI: 6.9338

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009798135.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	70	3.1e-22	62	162	1	98
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 f+k+lt sd++++g +++ +++a+e+ + + + +++l+ +d++ ++W++++i+r++++r++l++GW+ Fv++++L +gD ++F + ++ XP_009798135.1 62 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHANEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RGEN 153 99***************************7333.34459********************************************..4499 PP E..EEEEE- CS B3 90 felvvkvfr 98 +el+v+v+ XP_009798135.1 154 GELRVGVRH 162 999*985 PP
2	Auxin_resp	121.4	6.5e-40	188	270	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha++tk++F+v+Y+Pr+s+++F+v+++++++++k+++s+GmRfkm+fe+e+++e+r++Gt+vg++d dp rWp+SkWr+Lk XP_009798135.1 188 AWHAIQTKTMFTVYYKPRTSPADFIVPYDQYMESVKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDGDPNRWPESKWRCLK 270 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	3.8E-40	55	177	IPR015300	DNA-binding pseudobarrel domain
SuperFamily	SSF101936	2.75E-40	58	191	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	4.54E-20	60	161	No hit	No description
SMART	SM01019	4.3E-21	62	164	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.124	62	164	IPR003340	B3 DNA binding domain
Pfam	PF02362	4.6E-20	62	162	IPR003340	B3 DNA binding domain
Pfam	PF06507	8.0E-37	188	270	IPR010525	Auxin response factor
Pfam	PF02309	8.1E-10	624	715	IPR033389	AUX/IAA domain
SuperFamily	SSF54277	9.81E-12	629	708	No hit	No description
PROSITE profile	PS51745	21.79	631	715	IPR000270	PB1 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: 757 aa Download sequence Send to blast
MPVYNLPSKI LCRVINVLLK AEPDTDEVFA QVTLMPEPNQ DESAVTKEPM PPSPPRFHVH 60 SFCKTLTASD TSTHGGFSVL RRHADECLPP LDMSRQPPTQ ELVAKDLHAN EWRFRHIFRG 120 QPRRHLLQSG WSVFVSSKRL VAGDAFIFLR GENGELRVGV RHAMRQQGNA PSSVISSHSM 180 HLGVLATAWH AIQTKTMFTV YYKPRTSPAD FIVPYDQYME SVKNNYSIGM RFKMRFEGEE 240 APEQRFTGTI VGIEDGDPNR WPESKWRCLK VRWDETSAIP RPDRVSPWKI EPALSPPALN 300 PLPIPRPKRP RSNVLPSSPD SSVLTREGPS QASGFSRVLQ GQEISTLRGN FVENNGSDSS 360 EKPIVWPPSL DDEKTDVHSA SRRCLSDKWL PLGRPESSFT DLLSGFGVQV SSSHGLHLPA 420 GGQTALPASL VKRQALDKEN DFSLLGKQWS LASSGLSLNL MDSGLKGADT LYQMRETSKC 480 SGFNEYPTLP GHRIDNQQGN WLMPQSVLPY IQMSTHSGEI MPKPMALLQP EAVKPKEGNC 540 KLFGIPLVSK SASIDPVKLQ NNSLIDSASN MHFGIHPHQF PATESDLRSE QSKGSKVLDN 600 GITVNDQEKQ FQTSHLGTRD REGKGLINST RSCTKVHKHG TALGRSVDLA KFNNYEELIA 660 ELDHLFYFNG ELKAQNKNWL VVYTDDEGDM MLVGDDPWQE FCGMVCKIFI YTKEEVQRMN 720 PGSLNSKGED NSSVAEGSDA KEVKDLQLPS ESSLEGS

Sequence ? help Back to Top

Protein Sequence Length: 757 aa Download sequence Send to blast

MPVYNLPSKI LCRVINVLLK AEPDTDEVFA QVTLMPEPNQ DESAVTKEPM PPSPPRFHVH  60
SFCKTLTASD TSTHGGFSVL RRHADECLPP LDMSRQPPTQ ELVAKDLHAN EWRFRHIFRG  120
QPRRHLLQSG WSVFVSSKRL VAGDAFIFLR GENGELRVGV RHAMRQQGNA PSSVISSHSM  180
HLGVLATAWH AIQTKTMFTV YYKPRTSPAD FIVPYDQYME SVKNNYSIGM RFKMRFEGEE  240
APEQRFTGTI VGIEDGDPNR WPESKWRCLK VRWDETSAIP RPDRVSPWKI EPALSPPALN  300
PLPIPRPKRP RSNVLPSSPD SSVLTREGPS QASGFSRVLQ GQEISTLRGN FVENNGSDSS  360
EKPIVWPPSL DDEKTDVHSA SRRCLSDKWL PLGRPESSFT DLLSGFGVQV SSSHGLHLPA  420
GGQTALPASL VKRQALDKEN DFSLLGKQWS LASSGLSLNL MDSGLKGADT LYQMRETSKC  480
SGFNEYPTLP GHRIDNQQGN WLMPQSVLPY IQMSTHSGEI MPKPMALLQP EAVKPKEGNC  540
KLFGIPLVSK SASIDPVKLQ NNSLIDSASN MHFGIHPHQF PATESDLRSE QSKGSKVLDN  600
GITVNDQEKQ FQTSHLGTRD REGKGLINST RSCTKVHKHG TALGRSVDLA KFNNYEELIA  660
ELDHLFYFNG ELKAQNKNWL VVYTDDEGDM MLVGDDPWQE FCGMVCKIFI YTKEEVQRMN  720
PGSLNSKGED NSSVAEGSDA KEVKDLQLPS ESSLEGS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	1e-147	1	292	64	354	Auxin response factor 1
4ldw_A	1e-147	1	292	64	354	Auxin response factor 1
4ldw_B	1e-147	1	292	64	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 binds 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. Involved in the control of fruit ripening process. Regulates expression of a number of ripening regulators, transcription factors, and ethylene biosynthesis and signaling components (PubMed:26716451, PubMed:26959229). May act as a transcriptional repressor of auxin-responsive genes (PubMed:26716451). {ECO:0000255\|RuleBase:RU004561, ECO:0000269\|PubMed:26716451, ECO:0000269\|PubMed:26959229}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By tomato fruit ripening. Expression is up-regulated by plant hormone auxin in tomato fruits. {ECO:0000269\|PubMed:26716451}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	HM143940	0.0	HM143940.1 Solanum lycopersicum auxin response factor 11-like (ARF11) mRNA, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009798135.1	0.0	PREDICTED: auxin response factor 2-like isoform X1
Swissprot	K4DF01	0.0	ARF2B_SOLLC; Auxin response factor 2B
TrEMBL	A0A1U7YH36	0.0	A0A1U7YH36_NICSY; Auxin response factor
STRING	XP_009798135.1	0.0	(Nicotiana sylvestris)

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]