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PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
Previous version:
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v4.0
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| Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
| Basic Information? help Back to Top | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| TF ID | Cagra.1961s0022.1.p | ||||||||
| 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: 900aa MW: 99277 Da PI: 5.6301 | ||||||||
| 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 | 77 | 2e-24 | 155 | 256 | 1 | 99 |
EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83
f+k+lt sd++++g +++p++ ae+ +++++ +l+++d++ ++W++++iyr++++r++lt+GW+ Fv +++L++gD+v+F
Cagra.1961s0022.1.p 155 FCKTLTASDTSTHGGFSVPRRAAEKLfppldytAQPPTQ--ELVVRDLHENTWTFRHIYRGQPKRHLLTTGWSLFVGSKRLRAGDSVLFI 242
99*********************999****996444444..8************************************************ PP
E-SSSEE..EEEEE-S CS
B3 84 ldgrsefelvvkvfrk 99
++++ +l+v+v+r+
Cagra.1961s0022.1.p 243 --RDEKSQLMVGVRRA 256
..4577778*****97 PP
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| 2 | Auxin_resp | 112.3 | 4.7e-37 | 281 | 364 | 1 | 83 |
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83
aaha++++++F ++YnPra+++eFv++++k++ka+ +++svGmRf m+feteds +rr++Gt+vg+sdldp+rWp+SkWr+L+
Cagra.1961s0022.1.p 281 AAHATANRTPFLIFYNPRACPAEFVIPLAKYRKAICgSQLSVGMRFGMMFETEDSGKRRYMGTIVGISDLDPMRWPGSKWRNLQ 364
79********************************9989********************************************97 PP
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| Protein Features ? help Back to Top | ||||||
|---|---|---|---|---|---|---|
| Database | Entry ID | E-value | Start | End | InterPro ID | Description |
| SuperFamily | SSF101936 | 1.44E-45 | 145 | 284 | IPR015300 | DNA-binding pseudobarrel domain |
| Gene3D | G3DSA:2.40.330.10 | 1.3E-41 | 148 | 269 | IPR015300 | DNA-binding pseudobarrel domain |
| CDD | cd10017 | 6.71E-23 | 154 | 255 | No hit | No description |
| PROSITE profile | PS50863 | 13.155 | 155 | 257 | IPR003340 | B3 DNA binding domain |
| Pfam | PF02362 | 4.6E-22 | 155 | 256 | IPR003340 | B3 DNA binding domain |
| SMART | SM01019 | 1.1E-25 | 155 | 257 | IPR003340 | B3 DNA binding domain |
| Pfam | PF06507 | 4.9E-32 | 281 | 364 | IPR010525 | Auxin response factor |
| Pfam | PF02309 | 2.5E-9 | 783 | 876 | IPR033389 | AUX/IAA domain |
| PROSITE profile | PS51745 | 23.118 | 790 | 874 | IPR000270 | PB1 domain |
| SuperFamily | SSF54277 | 5.1E-7 | 804 | 869 | 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: 900 aa Download sequence Send to blast |
MMASLACVDD KMKTSGLVNG GTTTTSQSSL LEEMKLLKDQ SGTRKPVINS ELWHACAGPL 60 VCLPQVGSLV YYFSQGHSEQ VAVSTRRSAT TQVPNYPNLP SQLMCQVHNV TLHADKDSDE 120 IYAQMSLQPV HSERDVFPVP DFGLLSRSKH PAEFFCKTLT ASDTSTHGGF SVPRRAAEKL 180 FPPLDYTAQP PTQELVVRDL HENTWTFRHI YRGQPKRHLL TTGWSLFVGS KRLRAGDSVL 240 FIRDEKSQLM VGVRRANRQQ TALPSSVLSA DSMHIGVLAA AAHATANRTP FLIFYNPRAC 300 PAEFVIPLAK YRKAICGSQL SVGMRFGMMF ETEDSGKRRY MGTIVGISDL DPMRWPGSKW 360 RNLQVEWDEP GCNDKPTRVS PWDIETPESL FIFPSLTSGL KRQLHPSYFA GETEWGSLIK 420 RPLIRVPDSA NGIMPYASFP NMASEQLMKM MMRPHNNQNV PSFMSEMQQN VVMGHGGLLG 480 DMKMQQPMMM NQKTEMVQPE SKLTVNPSAS ITSCQEQNLS QSMSAPAKPE NSTLSGCSSG 540 KAQNGLEQPN EQVSQVTTAT VGNEEKVNQL IQKTGALSPI QADPCLDMSQ QIYPPQSDPI 600 NGFSFLETEE LTSQVSSFQS LAGSYKQPFI LSSQDSSAVV LPDSTNSPLF HDVWDNQLNG 660 LKFDQFSPLM QQDLYASQTM CMSNSTNSNI LDPPLSNTVL DDFCAIKETD FQNHPSSCLV 720 GNNNSSFAQD VQSQITSASF ADSQAFSRQD FPDNSGGTGT SSSNVDFDDS SLLQNSKGSS 780 WQKIATPRVR TYTKVQKTGS VGRSIDVTSF KDYEELKSAI ECMFGLEGLL THPQSSGWKL 840 VYVDYESDVL LVGDDPWEEF VGCVRCIRIL SPTEVQQMSE EGMKLLNSAG INDLKTSVT* |
| 3D Structure ? help Back to Top | ||||||
|---|---|---|---|---|---|---|
| PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
| 4ldu_A | 0.0 | 1 | 389 | 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 |
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| Cis-element ? help Back to Top | |
|---|---|
| Source | Link |
| PlantRegMap | Cagra.1961s0022.1.p |
| 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 | 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 | |||||||
|---|---|---|---|---|---|---|---|
| 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 | Cagra.1961s0022.1.p | 0.0 | (Capsella grandiflora) | ||||
| 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 | ||||
| Link Out ? help Back to Top | |
|---|---|
| Phytozome | Cagra.1961s0022.1.p |
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for Bioinformatics, Peking University Last Modified: 2022-12-08 Questions or Comments, please contact  |
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