PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | Rsa1.0_00015.1_g00048.1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
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Family | ARF | ||||||||
Protein Properties | Length: 1074aa MW: 119057 Da PI: 6.6992 | ||||||||
Description | ARF family protein | ||||||||
Gene Model |
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Signature Domain? help Back to Top | |||||||
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No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | B3 | 72.8 | 4.2e-23 | 126 | 227 | 1 | 99 |
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-E CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDf 79 f+k+lt sd++++g +++p++ ae++ + +++ ++++ +d++ +W++++iyr++++r++lt+GW+ Fv+ ++L +gD+ Rsa1.0_00015.1_g00048.1 126 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfsM-QPPA-QEIVAKDLHDTTWTFRHIYRGQPKRHLLTTGWSVFVSTKRLFAGDS 209 99*****************************954.4444.48******************************************** PP EEEEE-SSSEE..EEEEE-S CS B3 80 vvFkldgrsefelvvkvfrk 99 v+F ++++ +l+++++r+ Rsa1.0_00015.1_g00048.1 210 VLFV--RDEKSQLTLGIRRA 227 ****..45677789999997 PP | |||||||
2 | Auxin_resp | 118.5 | 5.3e-39 | 252 | 334 | 1 | 83 |
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aaha +++s+F++++nPras+seFvv+++k++kal+ +vs+GmRf+m+feted+ rr++Gtv+g+sdldpvrW++S+Wr+L+ Rsa1.0_00015.1_g00048.1 252 AAHANANSSPFTIFFNPRASPSEFVVPLAKYNKALYAQVSLGMRFRMMFETEDCGVRRYMGTVTGISDLDPVRWKGSQWRNLQ 334 799******************************************************************************97 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF101936 | 4.05E-44 | 116 | 255 | IPR015300 | DNA-binding pseudobarrel domain |
Gene3D | G3DSA:2.40.330.10 | 1.1E-41 | 120 | 241 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 9.70E-21 | 125 | 226 | No hit | No description |
Pfam | PF02362 | 2.1E-21 | 126 | 227 | IPR003340 | B3 DNA binding domain |
SMART | SM01019 | 4.3E-24 | 126 | 228 | IPR003340 | B3 DNA binding domain |
PROSITE profile | PS50863 | 12.492 | 126 | 228 | IPR003340 | B3 DNA binding domain |
Pfam | PF06507 | 7.4E-34 | 252 | 334 | IPR010525 | Auxin response factor |
Pfam | PF02309 | 4.9E-10 | 944 | 1032 | IPR033389 | AUX/IAA domain |
PROSITE profile | PS51745 | 25.665 | 946 | 1039 | IPR000270 | PB1 domain |
SuperFamily | SSF54277 | 1.81E-8 | 960 | 1024 | No hit | No description |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0006355 | Biological Process | regulation of transcription, DNA-templated | ||||
GO:0009723 | Biological Process | response to ethylene | ||||
GO:0009733 | Biological Process | response to auxin | ||||
GO:0010311 | Biological Process | lateral root formation | ||||
GO:0048366 | Biological Process | leaf development | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0043565 | Molecular Function | sequence-specific DNA binding | ||||
GO:0046983 | Molecular Function | protein dimerization activity |
Sequence ? help Back to Top |
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Protein Sequence Length: 1074 aa Download sequence Send to blast |
MKAPSNGFHP NPAEGEKKAI NSQLWHACAG PLVSLPPVGS LVVYFPQGHS EQVAASMQKQ 60 TDFIPNYPNL PSKLICLLHS VTLHADTETD EVYAQMTLQP VNKYDREALL ASDMGLKINR 120 QPTEFFCKTL TASDTSTHGG FSVPRRAAEK IFPPLDFSMQ PPAQEIVAKD LHDTTWTFRH 180 IYRGQPKRHL LTTGWSVFVS TKRLFAGDSV LFVRDEKSQL TLGIRRANRQ TPTLSSSVIS 240 SDSMHIGILA AAAHANANSS PFTIFFNPRA SPSEFVVPLA KYNKALYAQV SLGMRFRMMF 300 ETEDCGVRRY MGTVTGISDL DPVRWKGSQW RNLQVGWDES TAGDRPSRVS IWEIEPVITP 360 FYICPPPFFR PKYPRQPGMP DDELDMENAF KRAMPWMGEE FGMKDAQSSM FPGLSLVQWM 420 SMQQNNPLSA GAATAQLPSY NLPNNFAPND HSKLLNFQSP NLSPANTQFN KPNMVSHISQ 480 QMQAQPAMVQ SQQQQQQLQQ QVQMSHQQLQ QHHHHQQQQG GYNTGSVNNG VSGVSNQVSC 540 QNQSTGFTQS QLQQQSMLSN GAKMTHQNMV SAGNKASSQM TAQELQFQQQ LELHNSTQLL 600 RNQQEQSSMH PLQQTLSQNP QQLQMQQQQQ QSSKPSPSQQ LQLQLLQKLQ QQQQSTPPLV 660 SSSLQPQLPS LQQTQSHQLQ QLLSSQNQQP LPQSNNSFMQ PPQIQVSHHQ QQGYMNNNNK 720 PVAAGRSQSG HIDGEAPSCS TSPSANNTGG HDNVSPTNFL SRNQQQGQAV SVSVPVPVPA 780 SDSVFERASN PVQQGMVNLK SATEQFKFKG AVTDQIDVTI VGTTYCPDVV GPGQQQQQQQ 840 QTFPLPSFGF DGDLQTHHPR NNLAYAGNLE AVNPDALYSQ KDFQNLVPNY GNAPRDIETE 900 LSSASQSFGI PSIPFKSGGS NEIGGINDSG IMNGGGIWPN QAQRMRTYTK VQKRGSVGRS 960 IDVTRYSGYE ELRHDLARMF GIEGQLEDPQ TSDWKLVYTD HENDILLVGD DPWEEFVNCV 1020 QNIKILSSAE VQQMSLDGDL AAIPTTNQAC SETDSGNAWK VHYEDTSAAA SFNR |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4ldu_A | 1e-170 | 16 | 355 | 47 | 388 | Auxin response factor 5 |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
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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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Involved in ethylene responses. Regulates lateral root formation through direct regulation of LBD16 and/or LBD29. Functionally redundant with ARF7. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16461383, ECO:0000269|PubMed:17259263}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Rsa1.0_00015.1_g00048.1 |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: By auxin and ethylene. {ECO:0000269|PubMed:16461383}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | JN979484 | 0.0 | JN979484.1 Brassica rapa subsp. pekinensis auxin response factor 19-2 (ARF19-2) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_018435373.1 | 0.0 | PREDICTED: auxin response factor 19 | ||||
Swissprot | Q8RYC8 | 0.0 | ARFS_ARATH; Auxin response factor 19 | ||||
TrEMBL | A0A397YXH2 | 0.0 | A0A397YXH2_BRACM; Auxin response factor | ||||
STRING | Bo5g027250.1 | 0.0 | (Brassica oleracea) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM2629 | 26 | 65 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G19220.1 | 0.0 | auxin response factor 19 |