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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 | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| TF ID | Sme2.5_05295.1_g00002.1 | ||||||||
| Organism | |||||||||
| Taxonomic ID | |||||||||
| Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
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| Family | ARF | ||||||||
| Protein Properties | Length: 747aa MW: 81183.6 Da PI: 8.1905 | ||||||||
| Description | ARF family protein | ||||||||
| Gene Model |
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| Signature Domain? help Back to Top | |||||||
|---|---|---|---|---|---|---|---|
| No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
| 1 | B3 | 76.7 | 2.5e-24 | 159 | 260 | 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++ + ++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv+ ++L +gD
Sme2.5_05295.1_g00002.1 159 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyrQ--QRPSQELVAKDLHGIEWKFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDA 242
99****************************9743..345679******************************************** PP
EEEEE-SSSEE..EEEEE-S CS
B3 80 vvFkldgrsefelvvkvfrk 99
v+F + + ++el+++v+r+
Sme2.5_05295.1_g00002.1 243 VLFLR--TGDGELRLGVRRA 260
****4..4788899999986 PP
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| 2 | Auxin_resp | 118.1 | 7.3e-39 | 285 | 366 | 1 | 82 |
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82
a +a+s++++F+++YnPr s+s+F+v+++k++k+l +++s+GmRfkm++eted++e+r++G+vvgvsd+dpvrWp+SkWr+L
Sme2.5_05295.1_g00002.1 285 AFNAISSRNTFNICYNPRGSSSDFIVPYHKFSKTLAHPFSAGMRFKMRVETEDAAEQRFTGLVVGVSDVDPVRWPGSKWRCL 366
6799*****************************************************************************9 PP
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| Protein Features ? help Back to Top | ||||||
|---|---|---|---|---|---|---|
| Database | Entry ID | E-value | Start | End | InterPro ID | Description |
| Gene3D | G3DSA:2.40.330.10 | 9.6E-41 | 152 | 268 | IPR015300 | DNA-binding pseudobarrel domain |
| SuperFamily | SSF101936 | 5.89E-42 | 153 | 264 | IPR015300 | DNA-binding pseudobarrel domain |
| CDD | cd10017 | 5.45E-22 | 157 | 259 | No hit | No description |
| PROSITE profile | PS50863 | 13.507 | 159 | 261 | IPR003340 | B3 DNA binding domain |
| Pfam | PF02362 | 3.4E-22 | 159 | 260 | IPR003340 | B3 DNA binding domain |
| SMART | SM01019 | 6.7E-23 | 159 | 261 | IPR003340 | B3 DNA binding domain |
| Pfam | PF06507 | 1.3E-33 | 285 | 366 | IPR010525 | Auxin response factor |
| Gene Ontology ? help Back to Top | ||||||
|---|---|---|---|---|---|---|
| GO Term | GO Category | GO Description | ||||
| GO:0006355 | Biological Process | regulation of transcription, DNA-templated | ||||
| GO:0009725 | Biological Process | response to hormone | ||||
| GO:0010050 | Biological Process | vegetative phase change | ||||
| GO:0010158 | Biological Process | abaxial cell fate specification | ||||
| GO:0010582 | Biological Process | floral meristem determinacy | ||||
| GO:0005634 | Cellular Component | nucleus | ||||
| GO:0003677 | Molecular Function | DNA binding | ||||
| GO:0003700 | Molecular Function | transcription factor activity, sequence-specific DNA binding | ||||
| Sequence ? help Back to Top |
|---|
| Protein Sequence Length: 747 aa Download sequence Send to blast |
MMCGLIDLNT VDNDDVGEET TTPVSLDSPA TSSAASGSSD LTSSTTPAVA SVCMELWHAC 60 AGPLISLPKK GSAVVYLPQG HLEHISEYPP ISFNLPPHVF CRVVDVKLQA DAATDEVCAQ 120 VSLVPDNQIE QKWRDGDVDA DTEEEEIEGA GKSSTPHMFC KTLTASDTST HGGFSVPRRA 180 AEDCFPPLDY RQQRPSQELV AKDLHGIEWK FRHIYRGQPR RHLLTTGWSA FVNKKKLVSG 240 DAVLFLRTGD GELRLGVRRA AQAKSCSSYL APHSKLLNVG GIVDAFNAIS SRNTFNICYN 300 PRGSSSDFIV PYHKFSKTLA HPFSAGMRFK MRVETEDAAE QRFTGLVVGV SDVDPVRWPG 360 SKWRCLLVRW DDLDVSRHNR VSPWEVEPSG SAPVSSSLVM PSAKRTRVGF PISKADFPIR 420 RDGIAVSDFG ESSRFQKVLQ GQEILGMHAP CGGLDARSPR PAGIRCFPGF PSSGISRMGN 480 SVRPVLGDND KSHESVGFSG SLRFNKVLQG QEIFRSPPCG RAQAGFHMQE KSRTGTFVGI 540 QVPNHGNRWP APNQDLRTFC KPSNPVPASS PPSALTFPNP SPPASQFHAM FNHKRGKLEP 600 GNRASLDMSE NCCRYLASGS HTEDISRKEG AQGISSFGFL KEQKQTGTSY LSLGTQSSFK 660 GNQNLVSTCK TSCRIFGFSL TESKISTTSV ETPSKAVYSH GLETTFLPSG DGKLQPGPPL 720 MSTVVGTNFT KVNDLYAARD VLLDIAL |
| 3D Structure ? help Back to Top | ||||||
|---|---|---|---|---|---|---|
| PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
| 4ldv_A | 1e-109 | 51 | 391 | 18 | 357 | Auxin response factor 1 |
| 4ldw_A | 1e-109 | 51 | 391 | 18 | 357 | Auxin response factor 1 |
| 4ldw_B | 1e-109 | 51 | 391 | 18 | 357 | Auxin response factor 1 |
| 4ldx_A | 1e-109 | 51 | 391 | 18 | 357 | Auxin response factor 1 |
| 4ldx_B | 1e-109 | 51 | 391 | 18 | 357 | Auxin response factor 1 |
| 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). 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 the establishment or elaboration of tissue patterning during gynoecial development. {ECO:0000269|PubMed:10952886, ECO:0000269|PubMed:12036261}. | |||||
| Binding Motif ? help Back to Top | |||
|---|---|---|---|
| Motif ID | Method | Source | Motif file |
| MP00021 | PBM | Transfer from AT2G33860 | Download |
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| Regulation -- Description ? help Back to Top | ||||||
|---|---|---|---|---|---|---|
| Source | Description | |||||
| UniProt | INDUCTION: Negatively regulated by AHL21/GIK. {ECO:0000269|PubMed:19956801}. | |||||
| 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 | DQ340254 | 0.0 | DQ340254.1 Lycopersicon esculentum auxin response factor 3 (ARF3) mRNA, complete cds. | |||
| Annotation -- Protein ? help Back to Top | |||||||
|---|---|---|---|---|---|---|---|
| Source | Hit ID | E-value | Description | ||||
| Refseq | XP_006364315.1 | 0.0 | PREDICTED: auxin response factor 3-like isoform X2 | ||||
| Swissprot | O23661 | 0.0 | ARFC_ARATH; Auxin response factor 3 | ||||
| TrEMBL | M1D4H8 | 0.0 | M1D4H8_SOLTU; Auxin response factor | ||||
| STRING | PGSC0003DMT400081282 | 0.0 | (Solanum tuberosum) | ||||
| Orthologous Group ? help Back to Top | |||
|---|---|---|---|
| Lineage | Orthologous Group ID | Taxa Number | Gene Number |
| Asterids | OGEA6101 | 23 | 33 |
| Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
|---|---|---|---|---|---|---|
| Hit ID | E-value | Description | ||||
| AT2G33860.1 | 0.0 | ARF family protein | ||||
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for Bioinformatics, Peking University Last Modified: 2022-12-08 Questions or Comments, please contact  |
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