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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 | Carubv10008258m | ||||||||
Common Name | CARUB_v10008258mg | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
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Family | ARF | ||||||||
Protein Properties | Length: 904aa MW: 99668.4 Da PI: 5.7368 | ||||||||
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 | 2e-24 | 159 | 260 | 1 | 99 |
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 f+k+lt sd++++g +++p++ ae+ +++++ +l+++d++ ++W++++iyr++++r++lt+GW+ Fv +++L++gD+v+F ++ Carubv10008258m 159 FCKTLTASDTSTHGGFSVPRRAAEKLfppldytAQPPTQ--ELVVRDLHENTWTFRHIYRGQPKRHLLTTGWSLFVGSKRLRAGDSVLFI--RD 248 99*********************999****996444444..8************************************************..45 PP SEE..EEEEE-S CS B3 88 sefelvvkvfrk 99 ++ +l+v+v+r+ Carubv10008258m 249 EKSQLMVGVRRA 260 77778*****97 PP | |||||||
2 | Auxin_resp | 111.6 | 7.9e-37 | 285 | 368 | 1 | 83 |
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aaha++++++F ++YnPra+++eFv++++k++ka+ +++svGmRf m+feteds +rr++Gt+vg+sdldp+rWp+SkWr+L+ Carubv10008258m 285 AAHATANRTPFLIFYNPRACPAEFVIPLAKYRKAICgSQLSVGMRFGMMFETEDSGKRRYMGTIVGISDLDPLRWPGSKWRNLQ 368 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 | 1.44E-45 | 149 | 288 | IPR015300 | DNA-binding pseudobarrel domain |
Gene3D | G3DSA:2.40.330.10 | 1.4E-41 | 152 | 273 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 6.76E-23 | 158 | 259 | No hit | No description |
SMART | SM01019 | 1.1E-25 | 159 | 261 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 4.6E-22 | 159 | 260 | IPR003340 | B3 DNA binding domain |
PROSITE profile | PS50863 | 13.155 | 159 | 261 | IPR003340 | B3 DNA binding domain |
Pfam | PF06507 | 8.9E-32 | 285 | 368 | IPR010525 | Auxin response factor |
Pfam | PF02309 | 2.5E-9 | 787 | 880 | IPR033389 | AUX/IAA domain |
PROSITE profile | PS51745 | 23.118 | 794 | 878 | IPR000270 | PB1 domain |
SuperFamily | SSF54277 | 5.1E-7 | 808 | 873 | 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:0009734 | Biological Process | auxin-activated signaling pathway | ||||
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: 904 aa Download sequence Send to blast |
MMASLACVDD KMKTNGLVNG GTTTTTTTTS QSSLLEEMKL LKDQSGTRKP VINSELWHAC 60 AGPLVCLPQV GSLVYYFSQG HSEQVAVSTR RSATTQVPNY PNLPSQLMCQ VHNVTLHADK 120 DSDEIYAQMS LQPVHSERDV FPVPDFGLLS RSKHPAEFFC KTLTASDTST HGGFSVPRRA 180 AEKLFPPLDY TAQPPTQELV VRDLHENTWT FRHIYRGQPK RHLLTTGWSL FVGSKRLRAG 240 DSVLFIRDEK SQLMVGVRRA NRQQTALPSS VLSADSMHIG VLAAAAHATA NRTPFLIFYN 300 PRACPAEFVI PLAKYRKAIC GSQLSVGMRF GMMFETEDSG KRRYMGTIVG ISDLDPLRWP 360 GSKWRNLQVE WDEPGCNDKP TRVSPWDIET PESLFIFPSL TSGLKRQLHP SYFAGETEWG 420 SLIKRPLIRV PDSANGIMPY ASFPNMASEQ LMKMMMRPHN NQNVPSFMSE MQQNVIMGHG 480 GLLGDMKMQQ PMMMNQKSEM VQPESKLTVN PSASNTSCQE QNLSQSMSAP AKPVNSTLSG 540 CSSGKAQNGL EQSIEQVSQV TTATVGNEEK VNQLIQKTGA LSPIQADPCL DMSQQIYPPQ 600 SDPINGFSFL ETEELTSQVS SFQSLAGSYK QPFMLSSQDS SAVVLPDSTN SPLFHDVWDN 660 QLNGLKFDQF SPLMQQDLYA SQTMCMSNST NSNILDPPLS NTVLDDFCAI KETDFQNHPS 720 SCLVGNNNSS FAQDVQSQIT SASFADSQAF SRQDFPDNSG GTGTSSSNVD FDDSSLLQNS 780 KGSSWQKIAT PRVRTYTKVQ KTGSVGRSID VTSFKDYEEL KSAIECMFGL EGLLTHPQSS 840 GWKLVYVDYE SDVLLVGDDP WEEFVGCVRC IRILSPTEVQ QMSEEGMKLL NSAGINDLKT 900 SVT* |
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 | 393 | 1 | 392 | 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). 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 |
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Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Carubv10008258m |
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 | AF334716 | 0.0 | AF334716.1 Arabidopsis thaliana clone C00027 (h) auxin response factor 5 (At1g19850) mRNA, complete cds. | |||
GenBank | BT002050 | 0.0 | BT002050.1 Arabidopsis thaliana transcription factor (At1g19850) mRNA, complete cds. | |||
GenBank | BT008805 | 0.0 | BT008805.1 Arabidopsis thaliana At1g19850 gene, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_006306729.1 | 0.0 | auxin response factor 5 | ||||
Refseq | XP_023644672.1 | 0.0 | auxin response factor 5 | ||||
Refseq | XP_023644673.1 | 0.0 | auxin response factor 5 | ||||
Swissprot | P93024 | 0.0 | ARFE_ARATH; Auxin response factor 5 | ||||
TrEMBL | R0GUJ7 | 0.0 | R0GUJ7_9BRAS; Auxin response factor | ||||
STRING | XP_006306729.1 | 0.0 | (Capsella rubella) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM5808 | 27 | 46 |
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 |
Link Out ? help Back to Top | |
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Phytozome | Carubv10008258m |
Entrez Gene | 17896916 |