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

MA_40335g0010

Organism

Picea abies

Taxonomic ID

3329

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Picea

Family

ARF

Protein Properties

Length: 1023aa MW: 113779 Da PI: 6.6391

Description

ARF family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
MA_40335g0010	genome	ConGenIE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	B3	74.7	1.1e-23	302	402	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++g +W++++i+r++++r++lt+GW+ Fv+a++L +gD ++F + ++ MA_40335g0010 302 FCKTLTASDTSTHGGFSVLRRHADEClppldmaQ--QPPTQELVAKDLHGTEWRFRHIFRGQPRRHLLTTGWSVFVSAKRLVAGDAFIFL--RGEN 393 99***************************743..334459********************************************..4499 PP E..EEEEE- CS B3 90 felvvkvfr 98 +el+v+v+r MA_40335g0010 394 AELRVGVRR 402 999**98 PP
2	Auxin_resp	121.4	6.8e-40	428	510	1	83
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 a+ha++t+++F+v+Y+Pr+s+seF+++++k+++a+++++svGmRfkm+fe+e+++err++Gt++g+ d+dp rWp SkWrsLk MA_40335g0010 428 ASHAVTTRTMFTVYYKPRTSQSEFIIPYDKYMEAVNSNLSVGMRFKMRFEGEEAPERRFTGTIIGIGDTDPARWPSSKWRSLK 510 689******************************************************************************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101936	1.23E-43	294	431	IPR015300	DNA-binding pseudobarrel domain
Gene3D	G3DSA:2.40.330.10	7.1E-43	294	417	IPR015300	DNA-binding pseudobarrel domain
CDD	cd10017	1.62E-21	300	402	No hit	No description
SMART	SM01019	4.2E-23	302	404	IPR003340	B3 DNA binding domain
Pfam	PF02362	9.9E-22	302	402	IPR003340	B3 DNA binding domain
PROSITE profile	PS50863	11.646	302	404	IPR003340	B3 DNA binding domain
Pfam	PF06507	1.5E-37	428	510	IPR010525	Auxin response factor
Pfam	PF02309	2.4E-11	888	984	IPR033389	AUX/IAA domain
SuperFamily	SSF54277	4.56E-11	893	971	No hit	No description
PROSITE profile	PS51745	26.511	894	987	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: 1023 aa Download sequence Send to blast
MEVSQPSPVR PSVRFPRRRR LTAPAPNNDV IRANIKCKPP CLTERCPAGL QAFTPKFHAG 60 FCPKTGRDTR SPAGNVWLIN STLCVDLVEE LRAQLRLRAQ ELVLIAGRGL LSSLFFLIFY 120 SLLFLSWELE RGKLNCWVGP QEFSRCTDCG GGGRDCGGGG GRGFEFEEAR TWSPMGNFVG 180 GEQQHMGFDT GIDADLYEEL WHACAGPLVT VPRVGERVFY FPQGHMEQVE ASTNQGADQQ 240 MPLYNLIPRI LCRVINLQLK AEQETDEVYA QITLVPEAEQ NEPCSDVALT HPPKPKRNVH 300 SFCKTLTASD TSTHGGFSVL RRHADECLPP LDMAQQPPTQ ELVAKDLHGT EWRFRHIFRG 360 QPRRHLLTTG WSVFVSAKRL VAGDAFIFLR GENAELRVGV RRVMRQQSNM PSSVISSHSM 420 HLGVIATASH AVTTRTMFTV YYKPRTSQSE FIIPYDKYME AVNSNLSVGM RFKMRFEGEE 480 APERRFTGTI IGIGDTDPAR WPSSKWRSLK VQWDETCAIP RPERVSPWEI EPFVAPPPLN 540 PQPVPRNKRP RTNVLPSSTD LSMLGSCKTS VDSTTVLRYP RTLQCQDMKT TGDSEVESIQ 600 KPIMWGAKLN DAKVDCGGLT SQNLPPGSEN WMLLQRLESA FPESFCGLQG HGEGSFSSQN 660 AENSRHVNLP MKMFQDQETG TLDASTIKLQ LSSAWPIPFS SSMMNESDLK LSVTSPISSQ 720 KHCGSLRYAG VNGSSHCSNL AVGESPGSWF MSFVPPPEIE GSEEPTSGNG ITVGKIQSGN 780 LTDASQTSPP NWELPKDKRV DSVSNYKLFG FHLIDNVPLD QVTPSTTLAS VAVENLQLCN 840 ALRAKQVQIA ESDQVSDPPK PIKYEPPAVN CDQEKSLQKL SKETQVRPHG NPTRSCTKVH 900 KQGIALGRAV DLTKFEGYEE LICELEHMFN IEGELGNPIK GWQVVYTDNE GDMMLVGDDP 960 WQEFCSIVRK IFIYTREEVE KMTPQKHAKL QGCSDEQPIT RETSKHSLSD LQESTLPAAS 1020 VDA

Sequence ? help Back to Top

Protein Sequence Length: 1023 aa Download sequence Send to blast

MEVSQPSPVR PSVRFPRRRR LTAPAPNNDV IRANIKCKPP CLTERCPAGL QAFTPKFHAG  60
FCPKTGRDTR SPAGNVWLIN STLCVDLVEE LRAQLRLRAQ ELVLIAGRGL LSSLFFLIFY  120
SLLFLSWELE RGKLNCWVGP QEFSRCTDCG GGGRDCGGGG GRGFEFEEAR TWSPMGNFVG  180
GEQQHMGFDT GIDADLYEEL WHACAGPLVT VPRVGERVFY FPQGHMEQVE ASTNQGADQQ  240
MPLYNLIPRI LCRVINLQLK AEQETDEVYA QITLVPEAEQ NEPCSDVALT HPPKPKRNVH  300
SFCKTLTASD TSTHGGFSVL RRHADECLPP LDMAQQPPTQ ELVAKDLHGT EWRFRHIFRG  360
QPRRHLLTTG WSVFVSAKRL VAGDAFIFLR GENAELRVGV RRVMRQQSNM PSSVISSHSM  420
HLGVIATASH AVTTRTMFTV YYKPRTSQSE FIIPYDKYME AVNSNLSVGM RFKMRFEGEE  480
APERRFTGTI IGIGDTDPAR WPSSKWRSLK VQWDETCAIP RPERVSPWEI EPFVAPPPLN  540
PQPVPRNKRP RTNVLPSSTD LSMLGSCKTS VDSTTVLRYP RTLQCQDMKT TGDSEVESIQ  600
KPIMWGAKLN DAKVDCGGLT SQNLPPGSEN WMLLQRLESA FPESFCGLQG HGEGSFSSQN  660
AENSRHVNLP MKMFQDQETG TLDASTIKLQ LSSAWPIPFS SSMMNESDLK LSVTSPISSQ  720
KHCGSLRYAG VNGSSHCSNL AVGESPGSWF MSFVPPPEIE GSEEPTSGNG ITVGKIQSGN  780
LTDASQTSPP NWELPKDKRV DSVSNYKLFG FHLIDNVPLD QVTPSTTLAS VAVENLQLCN  840
ALRAKQVQIA ESDQVSDPPK PIKYEPPAVN CDQEKSLQKL SKETQVRPHG NPTRSCTKVH  900
KQGIALGRAV DLTKFEGYEE LICELEHMFN IEGELGNPIK GWQVVYTDNE GDMMLVGDDP  960
WQEFCSIVRK IFIYTREEVE KMTPQKHAKL QGCSDEQPIT RETSKHSLSD LQESTLPAAS  1020
VDA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4ldv_A	0.0	191	533	13	355	Auxin response factor 1
4ldw_A	0.0	191	533	13	355	Auxin response factor 1
4ldw_B	0.0	191	533	13	355	Auxin response factor 1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	151	159	GGRDCGGGG

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	BT110520	0.0	BT110520.1 Picea glauca clone GQ03222_P14 mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010249209.1	0.0	PREDICTED: auxin response factor 2-like
Swissprot	Q2LAJ3	0.0	ARF2A_SOLLC; Auxin response factor 2A
TrEMBL	A0A0D6QY18	0.0	A0A0D6QY18_ARACU; Auxin response factor
STRING	XP_010249208.1	0.0	(Nelumbo nucifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Representative plant	OGRP550	15	82

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]