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 | |||||||||
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TF ID | Rsa1.0_05254.1_g00001.1 | ||||||||
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; Raphanus
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Family | RAV | ||||||||
Protein Properties | Length: 344aa MW: 38433.9 Da PI: 9.5635 | ||||||||
Description | RAV 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 | AP2 | 37.5 | 5.9e-12 | 62 | 110 | 1 | 55 |
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s+ykGV + +grW A+I++ ++r++lg+f ++eAa+ ++ a +++g Rsa1.0_05254.1_g00001.1 62 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAARSYDVAVHRFRG 110 89****9888.8*********3.....5**********99***********9998 PP | |||||||
2 | B3 | 98.5 | 4.2e-31 | 186 | 289 | 1 | 98 |
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfv 80 f+k+ tpsdv+k++rlv+pk++ae++ ++++ +++ l +ed +g++W+++++y+++s++yvltkGW++Fvk+++L++gD v Rsa1.0_05254.1_g00001.1 186 FEKAVTPSDVGKLNRLVIPKHHAEKYfplppsSNVSVKGVLLNFEDVTGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDLV 271 89*************************99999778889************************************************ PP EEEE-SSSEE..EEEEE- CS B3 81 vFkldgrsefelvvkvfr 98 F++++ ++++ ++++ + Rsa1.0_05254.1_g00001.1 272 SFSRSDGQDQQQYIGWKS 289 ***886677767777765 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Pfam | PF00847 | 3.8E-7 | 62 | 110 | IPR001471 | AP2/ERF domain |
CDD | cd00018 | 3.77E-25 | 62 | 120 | No hit | No description |
SuperFamily | SSF54171 | 2.42E-16 | 62 | 119 | IPR016177 | DNA-binding domain |
Gene3D | G3DSA:3.30.730.10 | 1.1E-19 | 63 | 119 | IPR001471 | AP2/ERF domain |
SMART | SM00380 | 2.2E-27 | 63 | 124 | IPR001471 | AP2/ERF domain |
PROSITE profile | PS51032 | 19.888 | 63 | 118 | IPR001471 | AP2/ERF domain |
Gene3D | G3DSA:2.40.330.10 | 1.6E-39 | 179 | 295 | IPR015300 | DNA-binding pseudobarrel domain |
SuperFamily | SSF101936 | 1.31E-30 | 182 | 291 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 8.45E-28 | 185 | 278 | No hit | No description |
SMART | SM01019 | 1.8E-24 | 186 | 291 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 4.3E-28 | 186 | 290 | IPR003340 | B3 DNA binding domain |
PROSITE profile | PS50863 | 13.831 | 186 | 291 | IPR003340 | B3 DNA binding 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:0003677 | Molecular Function | DNA binding | ||||
GO:0003700 | Molecular Function | transcription factor activity, sequence-specific DNA binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 344 aa Download sequence Send to blast |
MEMSSVDEST TSTGSICETP AITPSITSGK SSVNLHRMGS GSSVVLDSEN GAEAESRKLP 60 SSKYKGVVPQ PNGRWGAQIY EKHQRVWLGT FNEEDEAARS YDVAVHRFRG RDAVTNFKDA 120 RLDEGEVEFL STHSKSEIVD MLRKHTYSDE LEQSKRRRDG DGNAVRLITH NDGVSTTEFR 180 SAVSLFEKAV TPSDVGKLNR LVIPKHHAEK YFPLPPSSNV SVKGVLLNFE DVTGKVWRFR 240 YSYWNSSQSY VLTKGWSRFV KEKNLRAGDL VSFSRSDGQD QQQYIGWKSR SGSDVDASRV 300 LRLFGVNISP AGSRNDVVGN KRVVNDTEML SLVCSKKQRI FHAS |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
1wid_A | 9e-72 | 182 | 298 | 10 | 125 | DNA-binding protein RAV1 |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Binds specifically to bipartite recognition sequences composed of two unrelated motifs, 5'-CAACA-3' and 5'-CACCTG-3'. May function as negative regulator of plant growth and development. {ECO:0000269|PubMed:15040885, ECO:0000269|PubMed:9862967}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Rsa1.0_05254.1_g00001.1 |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Down-regulated by brassinosteroid and zeatin. {ECO:0000269|PubMed:15040885}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | AK353075 | 0.0 | AK353075.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-20-J24. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_018433948.1 | 0.0 | PREDICTED: AP2/ERF and B3 domain-containing transcription factor RAV1-like | ||||
Refseq | XP_018433957.1 | 0.0 | PREDICTED: AP2/ERF and B3 domain-containing transcription factor RAV1-like | ||||
Swissprot | Q9ZWM9 | 0.0 | RAV1_ARATH; AP2/ERF and B3 domain-containing transcription factor RAV1 | ||||
TrEMBL | M4EDQ7 | 0.0 | M4EDQ7_BRARP; Uncharacterized protein | ||||
STRING | Bra026917.1-P | 0.0 | (Brassica rapa) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM848 | 27 | 121 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G13260.1 | 0.0 | related to ABI3/VP1 1 |
Publications ? help Back to Top | |||
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