PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
|
Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
---|---|---|---|---|---|---|---|---|---|
TF ID | RrC3261_p2 | ||||||||
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
|
||||||||
Family | ARF | ||||||||
Protein Properties | Length: 865aa MW: 95621.9 Da PI: 6.2995 | ||||||||
Description | ARF family protein | ||||||||
Gene Model |
|
Signature Domain? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | B3 | 77.1 | 1.9e-24 | 156 | 257 | 1 | 99 |
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 f+k+lt sd++++g +++p++ ae+ +++++ +l+++d++ ++W++++iyr++++r++lt+GW+ Fv +++L++gD+v+F ++++ +l RrC3261_p2 156 FCKTLTASDTSTHGGFSVPRRAAEKLfppldytAQPPTQ--ELVVRDLHENTWTFRHIYRGQPKRHLLTTGWSLFVGSKRLRAGDSVLFI--RDEKSQL 250 99*********************999****996444444..8************************************************..4577778 PP EEEEE-S CS B3 93 vvkvfrk 99 +v+v+r+ RrC3261_p2 251 MVGVRRA 257 *****97 PP | |||||||
2 | Auxin_resp | 107.7 | 1.3e-35 | 282 | 365 | 1 | 83 |
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aaha++++++F ++YnPra+++eFv++++k++ka+ +++sv mRf m+feteds +rr++Gt+vg+sdldp+rWp+SkWr+L+ RrC3261_p2 282 AAHATANRTPFLIFYNPRACPAEFVIPIAKYRKAICgSQLSVSMRFGMMFETEDSGKRRYMGTIVGISDLDPLRWPGSKWRNLQ 365 79********************************9989********************************************97 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF101936 | 2.22E-45 | 146 | 285 | IPR015300 | DNA-binding pseudobarrel domain |
Gene3D | G3DSA:2.40.330.10 | 1.0E-41 | 149 | 270 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 6.23E-23 | 155 | 256 | No hit | No description |
PROSITE profile | PS50863 | 13.155 | 156 | 258 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 4.4E-22 | 156 | 257 | IPR003340 | B3 DNA binding domain |
SMART | SM01019 | 1.1E-25 | 156 | 258 | IPR003340 | B3 DNA binding domain |
Pfam | PF06507 | 7.8E-31 | 282 | 365 | IPR010525 | Auxin response factor |
Pfam | PF02309 | 1.5E-9 | 747 | 842 | IPR033389 | AUX/IAA domain |
PROSITE profile | PS51745 | 22.218 | 756 | 840 | IPR000270 | PB1 domain |
SuperFamily | SSF54277 | 4.71E-7 | 770 | 835 | No hit | No description |
Gene Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
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 |
---|
Protein Sequence Length: 865 aa Download sequence Send to blast |
MMAASLACVE DKMKTNGLII GGTTQTSQST LPEEMKLLKD QSGTRKPVIN SELWHACAGS 60 LVSLPQVGSL VYYFPQGHSE QVAVSTRRSA TTQVPNYPNL PSQLMCQVHN VTLHADKDSD 120 EIYAQMSLQP VHSERDVFPV PDFGLLRGSK HPSEFFCKTL TASDTSTHGG FSVPRRAAEK 180 LFPPLDYTAQ PPTQELVVRD LHENTWTFRH IYRGQPKRHL LTTGWSLFVG SKRLRAGDSV 240 LFIRDEKSQL MVGVRRANRQ QTALPSSVLS ADSMHIGVLA AAAHATANRT PFLIFYNPRA 300 CPAEFVIPIA KYRKAICGSQ LSVSMRFGMM FETEDSGKRR YMGTIVGISD LDPLRWPGSK 360 WRNLQVEWDE PGCNDKPTRV SPWDTETPES LFIFPSLTSG LKRQLHPSYF AGETEWGSLI 420 KRPLIRVSDP TNGILPYASF PNMASEQLMR MMMRPHNNQN ATTSFMSEMQ HNVLVGHAGL 480 LGDMKMQQPM VNPSASNTSG QEQNLSQSMN APAKSENPTL SGCSSGRLSH GNEQQTMEQA 540 SQVRMVSVCN EEKVNELIQR PVALSPVQAD PCPDISQQIY PPANGFSFLE TEELTSQVSS 600 FQSLAGSYKQ PLMLSPQDSS AVVLPDSTNS TLFHDVWDNQ LNGLKFDQFS PLMQQDLYGN 660 STNSSNILDP PLSNTVLDDF CAIKETDFQT HPSDCLVGTN NNSFTQDVQS QITSASFADN 720 SGGTGTSSSN VDFDDSSLLQ NSKGSRQKLA KTPRVRTYTK VQKTGSVGRS IDVTSFRDYK 780 ELKSAIECMF GLEGVLTRPQ SSGWKLVYVD YESDVLLVGD DPWEEFVGCV KCIRILSPTE 840 VQQMSEEGMK LLNSACINDL KTSVS |
3D Structure ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4ldu_A | 0.0 | 2 | 390 | 1 | 392 | Auxin response factor 5 |
Search in ModeBase |
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). 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 | |||
---|---|---|---|
Motif ID | Method | Source | Motif file |
MP00153 | DAP | Transfer from AT1G19850 | Download |
Regulation -- PlantRegMap ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | Retrieve |
Annotation -- Nucleotide ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | |||
GenBank | JN979465 | 0.0 | JN979465.1 Brassica rapa subsp. pekinensis auxin response factor 5-1 (ARF5-1) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_018441441.1 | 0.0 | PREDICTED: auxin response factor 5 | ||||
Swissprot | P93024 | 0.0 | ARFE_ARATH; Auxin response factor 5 | ||||
TrEMBL | A0A078JAY4 | 0.0 | A0A078JAY4_BRANA; Auxin response factor | ||||
STRING | Bo7g062090.1 | 0.0 | (Brassica oleracea) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM5808 | 27 | 46 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT1G19850.1 | 0.0 | ARF family protein |