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 | XP_009149478.1 | ||||||||
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; Brassica
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Family | ARF | ||||||||
Protein Properties | Length: 868aa MW: 95855.7 Da PI: 5.9281 | ||||||||
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 | 77.1 | 1.9e-24 | 144 | 245 | 1 | 99 |
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 f+k+lt sd++++g +++p++ ae+ +++++ +l+++d++ ++W++++iyr++++r++lt+GW+ Fv +++L++gD+v+F +++ XP_009149478.1 144 FCKTLTASDTSTHGGFSVPRRAAEKLfppldytAQPPTQ--ELVVRDLHENTWTFRHIYRGQPKRHLLTTGWSLFVGSKRLRAGDSVLFI--RDE 234 99*********************999****996444444..8************************************************..457 PP EE..EEEEE-S CS B3 89 efelvvkvfrk 99 + +l+v+v+r+ XP_009149478.1 235 KSQLMVGVRRA 245 7778*****97 PP | |||||||
2 | Auxin_resp | 109.8 | 2.7e-36 | 270 | 353 | 1 | 83 |
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aaha++++++F ++YnPra+++eFv++++k++ka+ ++s+GmRf m+feteds +rr++Gt+vg+sd+dp+rW++SkWr+L+ XP_009149478.1 270 AAHATANRTPFLIFYNPRACPAEFVIPLAKYRKAICgAQLSAGMRFGMMFETEDSGKRRYMGTIVGISDMDPLRWSGSKWRNLQ 353 79********************************9989********************************************97 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF101936 | 1.31E-45 | 134 | 273 | IPR015300 | DNA-binding pseudobarrel domain |
Gene3D | G3DSA:2.40.330.10 | 1.7E-41 | 138 | 258 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 6.27E-23 | 143 | 244 | No hit | No description |
PROSITE profile | PS50863 | 13.155 | 144 | 246 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 4.4E-22 | 144 | 245 | IPR003340 | B3 DNA binding domain |
SMART | SM01019 | 1.1E-25 | 144 | 246 | IPR003340 | B3 DNA binding domain |
Pfam | PF06507 | 3.7E-31 | 270 | 353 | IPR010525 | Auxin response factor |
Pfam | PF02309 | 6.7E-9 | 752 | 843 | IPR033389 | AUX/IAA domain |
PROSITE profile | PS51745 | 21.754 | 758 | 842 | IPR000270 | PB1 domain |
SuperFamily | SSF54277 | 6.18E-7 | 772 | 837 | 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:0009733 | Biological Process | response to auxin | ||||
GO:0009908 | Biological Process | flower development | ||||
GO:0009942 | Biological Process | longitudinal axis specification | ||||
GO:0010305 | Biological Process | leaf vascular tissue pattern formation | ||||
GO:0048364 | Biological Process | root development | ||||
GO:0048507 | Biological Process | meristem development | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0016020 | Cellular Component | membrane | ||||
GO:0042802 | Molecular Function | identical protein binding | ||||
GO:0044212 | Molecular Function | transcription regulatory region DNA binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 868 aa Download sequence Send to blast |
MKTNGLVNGG TTTTSQSSLL EEMKLLTDQS GTRKPVINSE LWHACAGPLV CLPQVGSLVY 60 YFSQGHSEQV AVSTRRSATT QVPNYPNLPS QLMCQVHNVT LHADKDSDEI YAQMSLQPVH 120 SERDVFPVPD FGLLNRSKHP AEFFCKTLTA SDTSTHGGFS VPRRAAEKLF PPLDYTAQPP 180 TQELVVRDLH ENTWTFRHIY RGQPKRHLLT TGWSLFVGSK RLRAGDSVLF IRDEKSQLMV 240 GVRRANRQQT ALPSSVLSAD SMHIGVLAAA AHATANRTPF LIFYNPRACP AEFVIPLAKY 300 RKAICGAQLS AGMRFGMMFE TEDSGKRRYM GTIVGISDMD PLRWSGSKWR NLQVEWDEPG 360 CNDKPTRVSP WDIETPESLF IFPSLTSGLK RQLHPSYFAA GETEWGSLIK RPLIRDSTNG 420 ILPYASFPNM ASEQLMRMMM RTHNNNNNQN ASSFMSEMQQ NLLMGHGGLL GDMNMQQQPM 480 VSEMVQPESK LTVNPSASNT SGQEQNLSQS MSAPPKPTLS GCNSGRVNHG NEQKSVEQAS 540 QVRTVAVCNE SALSPLQADP CPDTSQQIYP PQSDPINGFS FLETEELTSQ VSSFQSLAGS 600 YKQPPLLTSQ DSSAVVLPDS ANSPLFHDVW DNQLKFDQFS PLMQQDLYGC QDSTTSNILD 660 PPPLSNTVLD DFCAIKETDF QNHHPSDCLV GNSNTSFAQD VSQITSASFA DSKAISRQDN 720 SGGTTGTSSS NVDFDDTSLL QQNSKGSWQK LAATPRVRTY TKVQKTGSVG RSIDVTSFRD 780 YNELKTAIEC MFGLEGLLTR PQSSGWKLVY VDYESDVLLV GDDPWEEFVG CVRCIRILSP 840 TEVEQMSEEG MKLLNSACIN DLKSSVSK |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4ldu_A | 0.0 | 1 | 378 | 12 | 392 | Auxin response factor 5 |
Search in ModeBase |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: In early embryo and during organ development. | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in the whole plant with a lower expression in leaves. Detected in embryo axis, provascular tissues, procambium and some differentiated vascular regions of mature organs. {ECO:0000269|PubMed:10476078}. |
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). Seems to act as transcriptional activator. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Mediates embryo axis formation and vascular tissues differentiation. Functionally redundant with ARF7. May be necessary to counteract AMP1 activity. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:14973283, ECO:0000269|PubMed:17553903}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00153 | DAP | Transfer from AT1G19850 | Download |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | XP_009149478.1 |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | Retrieve |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | JN979467 | 0.0 | JN979467.1 Brassica rapa subsp. pekinensis auxin response factor 5-3 (ARF5-3) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_009149480.1 | 0.0 | PREDICTED: auxin response factor 5 isoform X2 | ||||
Swissprot | P93024 | 0.0 | ARFE_ARATH; Auxin response factor 5 | ||||
TrEMBL | A0A078GW89 | 0.0 | A0A078GW89_BRANA; Auxin response factor | ||||
TrEMBL | A0A397YXN3 | 0.0 | A0A397YXN3_BRACM; Auxin response factor | ||||
STRING | Bo5g027930.1 | 0.0 | (Brassica oleracea) |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G19850.1 | 0.0 | ARF family protein |