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 | XP_013599006.1 | ||||||||
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; Brassica
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Family | ARF | ||||||||
Protein Properties | Length: 860aa MW: 95380.5 Da PI: 5.9517 | ||||||||
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 | 77.1 | 1.9e-24 | 156 | 257 | 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++++iyr++++r++lt+GW+ Fv +++L++gD+v+F +++ XP_013599006.1 156 FCKTLTASDTSTHGGFSVPRRAAEKLfppldytAQPPTQ--ELVVRDLHENTWTFRHIYRGQPKRHLLTTGWSLFVGSKRLRAGDSVLFI--RDE 246 99*********************999****996444444..8************************************************..457 PP EE..EEEEE-S CS B3 89 efelvvkvfrk 99 + +l+v+v+r+ XP_013599006.1 247 KSQLMVGVRRA 257 7778*****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+ XP_013599006.1 282 AAHATANRTPFLIFYNPRACPAEFVIPIAKYRKAICgSQLSVSMRFGMMFETEDSGKRRYMGTIVGISDLDPLRWPGSKWRNLQ 365 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 | 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 | 6.16E-23 | 155 | 256 | No hit | No description |
PROSITE profile | PS50863 | 13.155 | 156 | 258 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 4.3E-22 | 156 | 257 | IPR003340 | B3 DNA binding domain |
SMART | SM01019 | 1.1E-25 | 156 | 258 | IPR003340 | B3 DNA binding domain |
Pfam | PF06507 | 7.7E-31 | 282 | 365 | IPR010525 | Auxin response factor |
Pfam | PF02309 | 1.4E-9 | 742 | 837 | IPR033389 | AUX/IAA domain |
PROSITE profile | PS51745 | 22.354 | 751 | 835 | IPR000270 | PB1 domain |
SuperFamily | SSF54277 | 4.41E-7 | 765 | 830 | 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: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 |
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Protein Sequence Length: 860 aa Download sequence Send to blast |
MMASLACVED KMKTNGLVNG GTTPTTSQST LLEEMKLLKD QSGTRKPVIN SELWHACAGP 60 LVSLPQVGSL VYYFPQGHSE QVAVSTRRSA TSQVPNYPNL PSQLMCQVHN VTLHADKDSD 120 EIYAQMSLQP VHSERDVFPV PEFGLLRGSK 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 SPWDIETPES LFIFPSLTSG LKRQLHPSYF AGETEWGSLI 420 KRPFIRVSDS TNGILPYASF PNMASEQLMR MMMRPHNNNN QNATTSFMSE MQQNVLMGQG 480 GLLGDMKMQQ QPMVMNPENK LTVNPSASNT SGQEQNLPTQ SMHAHSISEK PTLSGCSSGR 540 LSHGNEQQSM EQANQGCNEE KVNELMQKPV ALSPCPDISQ QIYPPTNGFS FLETEELTSQ 600 VSSFQSLAGS YKQPLMDSSD VALPDTTNSS LFHDVWDNQL NGLKFDQFSP LMQQDLYGNN 660 STNSNILDPP PPLSNTVLDD FCAIKETDFQ MIGNNNTSFT QDVQSQITSA SFADNSGGTG 720 TSSSNVDFDD SSLLQNSKGS WQQKLATPRV RTYTKVQKTG SVGRSIDVTS FRDYQELKSA 780 IECMFGLEGL LTRPQSSGWK LVYVDYESDV LLVGDDPWEE FVGCVKCIRI LSPTEVQQMS 840 EEGMKLLSSA CINDLKTSVP |
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 | 390 | 1 | 392 | Auxin response factor 5 |
Search in ModeBase |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: In early embryo and during organ development. | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in the whole plant with a lower expression in leaves. Detected in embryo axis, provascular tissues, procambium and some differentiated vascular regions of mature organs. {ECO:0000269|PubMed:10476078}. |
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 |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | XP_013599006.1 |
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 | 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 | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_013599005.1 | 0.0 | PREDICTED: auxin response factor 5-like | ||||
Refseq | XP_013599006.1 | 0.0 | PREDICTED: auxin response factor 5-like | ||||
Swissprot | P93024 | 0.0 | ARFE_ARATH; Auxin response factor 5 | ||||
TrEMBL | A0A0D3D7Z1 | 0.0 | A0A0D3D7Z1_BRAOL; Auxin response factor | ||||
TrEMBL | A0A3P6ECE4 | 0.0 | A0A3P6ECE4_BRAOL; Auxin response factor | ||||
STRING | Bo7g062090.1 | 0.0 | (Brassica oleracea) |
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 |