PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | Carubv10004139m | ||||||||
Common Name | CARUB_v10004139mg | ||||||||
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: 825aa MW: 91517.5 Da PI: 6.3323 | ||||||||
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 | 73.2 | 3.2e-23 | 126 | 227 | 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++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F +++ Carubv10004139m 126 FCKTLTASDTSTHGGFSVPRRAAEKVfppldyTLQPPA-QELIARDLHDVEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVIFI--RNE 216 99*****************************9666655.49************************************************..568 PP EE..EEEEE-S CS B3 89 efelvvkvfrk 99 + +l+++++r+ Carubv10004139m 217 KNQLFLGIRRA 227 8889***9997 PP | |||||||
2 | Auxin_resp | 110 | 2.5e-36 | 252 | 335 | 1 | 83 |
Auxin_resp 1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 aaha +t+s F+v+++Pras+seFv++++k+ ka+ +++svGmRf+m fete+ss rr++Gt++g+sdld+vrWpnS+Wrs+k Carubv10004139m 252 AAHASATNSCFTVFFHPRASPSEFVIQLSKYIKAVFhTRISVGMRFRMLFETEESSVRRYMGTITGISDLDTVRWPNSHWRSVK 335 799******************************986599******************************************985 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF101936 | 1.05E-47 | 112 | 255 | IPR015300 | DNA-binding pseudobarrel domain |
Gene3D | G3DSA:2.40.330.10 | 4.2E-40 | 119 | 241 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 3.76E-21 | 125 | 221 | No hit | No description |
Pfam | PF02362 | 4.7E-21 | 126 | 227 | IPR003340 | B3 DNA binding domain |
SMART | SM01019 | 2.7E-23 | 126 | 228 | IPR003340 | B3 DNA binding domain |
PROSITE profile | PS50863 | 12.308 | 126 | 228 | IPR003340 | B3 DNA binding domain |
Pfam | PF06507 | 9.1E-32 | 252 | 335 | IPR010525 | Auxin response factor |
SuperFamily | SSF54277 | 3.47E-7 | 712 | 792 | No hit | No description |
Pfam | PF02309 | 8.9E-8 | 715 | 803 | IPR033389 | AUX/IAA domain |
PROSITE profile | PS51745 | 22.8 | 718 | 802 | IPR000270 | PB1 domain |
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:0005634 | Cellular Component | nucleus | ||||
GO:0003677 | Molecular Function | DNA binding | ||||
GO:0005515 | Molecular Function | protein binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 825 aa Download sequence Send to blast |
MKLSTSGLGQ QGHEGEKCLN SELWHACAGP LVSLPSSGSR VVYFPQGHSE QVAATTNKEV 60 DGHIPNYPSL PPQLICQLHN VTMHADVETD EVYAQMTLQP LTPEEQKETF VPIELGIPSK 120 QPSNYFCKTL TASDTSTHGG FSVPRRAAEK VFPPLDYTLQ PPAQELIARD LHDVEWKFRH 180 IFRGQPKRHL LTTGWSVFVS AKRLVAGDSV IFIRNEKNQL FLGIRRATRP QTIVPSSVLS 240 SDSMHIGLLA AAAHASATNS CFTVFFHPRA SPSEFVIQLS KYIKAVFHTR ISVGMRFRML 300 FETEESSVRR YMGTITGISD LDTVRWPNSH WRSVKVGWDE STAGERQPRV SLWEIEPLTT 360 FPMYPSLFPL RLKRPWHAGT SSLPDGRGEL GSGLTWLRGG GGDQQGLLPL NYPSVGLFPW 420 MQQRLDLTQM GTDNNQQYQA MLAAGLQNIG GGDPLRQQFV QLQEPHHQYV QQSASHNSDL 480 MLQQQQQQQQ QQASRHAMHA QTQVMSENIP QQNMRQEVSN HPTGQQLQQP DQNAYLNAFK 540 MQNGHLQQWQ HQEMASPSFM KSDFTDSSNK FATSATPMQQ NAASPASNDG SNLLNFSITG 600 QSVLPEQLTT EGWSPKASNT FSEPLSLPQA YPGKSLALEP GNPNLNPQNP SLFGVDPDSG 660 LFLPSTVPRF ASSSGDAEAS PMSLTDSGFQ NSLYGCMQDT THELLHGAGQ INPSNQTKNF 720 VKVYKSGSVG RSLDISRFSS YHELREELGK MFAIEGLLED PLRSGWQLVF VDKENDILLL 780 GDDPWESFVN NVWYIKILSP EDVQQMGDQG EGSAGSFPQN PTHL* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
4ldu_A | 1e-155 | 8 | 356 | 40 | 388 | 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. Regulates both stamen and gynoecium maturation. Promotes jasmonic acid production. Partially redundant with ARF6. Involved in fruit initiation. Acts as an inhibitor to stop further carpel development in the absence of fertilization and the generation of signals required to initiate fruit and seed development. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16107481, ECO:0000269|PubMed:16829592}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00033 | PBM | Transfer from AT5G37020 | Download |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Carubv10004139m |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Repressed by miR167. {ECO:0000269|PubMed:17021043}. |
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 | AF042196 | 0.0 | AF042196.1 Arabidopsis thaliana auxin response factor 8 (ARF8) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_006282446.1 | 0.0 | auxin response factor 8 | ||||
Swissprot | Q9FGV1 | 0.0 | ARFH_ARATH; Auxin response factor 8 | ||||
TrEMBL | R0GF16 | 0.0 | R0GF16_9BRAS; Auxin response factor | ||||
STRING | XP_006282446.1 | 0.0 | (Capsella rubella) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM1344 | 28 | 94 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT5G37020.1 | 0.0 | auxin response factor 8 |
Link Out ? help Back to Top | |
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Phytozome | Carubv10004139m |
Entrez Gene | 17880409 |