PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID MDP0000138860
Organism
Malus domestica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Malus
Family ARF
Protein Properties Length: 665aa    MW: 74563 Da    PI: 6.9548
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
MDP0000138860genomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.11.7e-23150238184
                    EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                    f k+ltpsd++++g +++pk+ aee+       ++++   ++l+ +d++g++W++++i+r++++r++lt+GW  Fv a++L +gD ++F  
  MDP0000138860 150 FSKTLTPSDTSSHGGFSVPKRQAEEClpaldmsQQPPV--QDLVAKDLQGNEWSFRHIFRGQPRRHLLTSGWTTFVTAKRLVSGDACIFAS 238
                    88*****************************7544444..48***********************************************83 PP
2Auxin_resp72.31.4e-24247339183
     Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl..........sGtvvgvsdldpvrWpnSkWrsLk 83 
                    a ha+st+++F+v+Y+P++s++ F++++++++k+ ++ +s+GmRf+m  e+e+++ ++             +   ++d d +rWp+S+Wr+Lk
  MDP0000138860 247 AFHAISTGTIFTVYYRPWTSPAAFIIPYDRYMKSAEIDYSIGMRFRMYSEGEECADQKKrxsshdlrmqEWMDKNIEDNDYLRWPDSEWRCLK 339
                    689*************************************************987655422222222112244578999************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.49E-31144244IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.8E-34145240IPR015300DNA-binding pseudobarrel domain
CDDcd100178.67E-21149236No hitNo description
PfamPF023629.4E-21150240IPR003340B3 DNA binding domain
SMARTSM010193.0E-17150254IPR003340B3 DNA binding domain
PROSITE profilePS5086311.519150252IPR003340B3 DNA binding domain
PfamPF065074.9E-21247339IPR010525Auxin response factor
PfamPF023092.9E-9578659IPR033389AUX/IAA domain
PROSITE profilePS5174517.224588665IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 665 aa     Download sequence    Send to blast
MAPRTTGVEG PPRTATVNAG ESSGCTDAAA LPAANNDQGE KDDLYTHLWY ACAGANVYVP  60
RPGEKVFYFL QGHXEQVEAY ANQDGKMEMP RYNLPPKILC NVVCVQLKAE VHTDEVYAQI  120
TLLPVTEQDQ LSVEEXNTPP LPXRTSTXSF SKTLTPSDTS SHGGFSVPKR QAEECLPALD  180
MSQQPPVQDL VAKDLQGNEW SFRHIFRGQP RRHLLTSGWT TFVTAKRLVS GDACIFASMQ  240
HGILASAFHA ISTGTIFTVY YRPWTSPAAF IIPYDRYMKS AEIDYSIGMR FRMYSEGEEC  300
ADQKKRXSSH DLRMQEWMDK NIEDNDYLRW PDSEWRCLKX RLDTASDTCF HSERLSPWNI  360
VPLKPNKRAR LPDLPSPGIS SLARNGSLLI SVESTRPRKK KVFQGQETSD PPAHEPGTPK  420
QLLQFIPPPN PDWDYTXLGL ENNLNVPMND SFYQCPGSPK APSLTNQWPP MFGFGVFDSG  480
ACKRSMSVPN IWSSXSQKLR TFELXSETQS PLVQPKTTML FGVKIVTSYP ELPSPQVANS  540
IELYSPCSTP PIYHSSVSET IQLSETSKSV SGVRSEKQCR KCCSVSNRSR IKVLKHGAPV  600
GRSIDLTRFD GYNELIRELD QMFDFKGSLI GGSSGWQVTY MDDVGDRMLV GDYPWQLRTR  660
TYAVT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-103313631355Auxin response factor 1
4ldw_A1e-103313631355Auxin response factor 1
4ldw_B1e-103313631355Auxin response factor 1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expression increases during floral development. Expressed during ovary development with the highest expression on the third day after the flower fully opened. {ECO:0000269|PubMed:21735233}.
UniprotTISSUE SPECIFICITY: Expressed in root, leaf and stem (PubMed:26716451, PubMed:21735233). Also expressed in flower and fruit (PubMed:26716451). Expressed in flower buds about three days before opening including stamen, petal and sepal with the highest in ovary (PubMed:21735233). {ECO:0000269|PubMed:21735233, ECO:0000269|PubMed:26716451}.
Functional Description ? help Back to Top
Source Description
UniProtAuxin 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
UniProtINDUCTION: 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
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_008350107.30.0auxin response factor 2B-like
SwissprotK4DF011e-118ARF2B_SOLLC; Auxin response factor 2B
TrEMBLA0A498IM420.0A0A498IM42_MALDO; Auxin response factor
STRINGXP_008350107.10.0(Malus domestica)
STRINGXP_008386749.10.0(Malus domestica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF131052329
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.31e-114auxin response factor 2
Publications ? help Back to Top
  1. Tomato Genome Consortium
    The tomato genome sequence provides insights into fleshy fruit evolution.
    Nature, 2012. 485(7400): p. 635-41
    [PMID:22660326]
  2. 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]