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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 | |||||||||
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TF ID | augustus_masked-scaffold07852-abinit-gene-0.2-mRNA-1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Fagaceae; Castanea
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Family | RAV | ||||||||
Protein Properties | Length: 382aa MW: 42518.6 Da PI: 9.2456 | ||||||||
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 | 43.9 | 6.1e-14 | 68 | 116 | 1 | 55 |
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s+ykGV + +grW A+I++ ++r++lg+f ++eAaka++ a+++++g augustus_masked-scaffold07852-abinit-gene-0.2-mRNA-1 68 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAAKAYDIAAQRFRG 116 89****9888.8*********3.....5**********99*************98 PP | |||||||
2 | B3 | 97.2 | 1.1e-30 | 209 | 312 | 1 | 95 |
EEEE-..-HHHHTT-EE--HHH.HTT.........---..--SEEEEEETTS-EEEE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh.........ggkkeesktltledesgrsWev 48 f+k+ tpsdv+k++rlv+pk++ae+h + + ++ l +ed g++W++ augustus_masked-scaffold07852-abinit-gene-0.2-mRNA-1 209 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqnsgsnSTTSSKGLLLNFEDVGGKVWRF 265 89***************************999766333347789************* PP EE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS B3 49 kliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 +++y+++s++yvltkGW++Fvk+++Lk+gD+v F+++ + +l++ augustus_masked-scaffold07852-abinit-gene-0.2-mRNA-1 266 RYSYWNSSQSYVLTKGWSRFVKEKNLKAGDIVSFHRSTGPDNQLFIE 312 ***********************************876566666665 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Pfam | PF00847 | 9.4E-9 | 68 | 116 | IPR001471 | AP2/ERF domain |
CDD | cd00018 | 6.40E-26 | 68 | 123 | No hit | No description |
SuperFamily | SSF54171 | 7.19E-17 | 68 | 124 | IPR016177 | DNA-binding domain |
PROSITE profile | PS51032 | 20.126 | 69 | 124 | IPR001471 | AP2/ERF domain |
Gene3D | G3DSA:3.30.730.10 | 7.6E-20 | 69 | 124 | IPR001471 | AP2/ERF domain |
SMART | SM00380 | 1.2E-26 | 69 | 130 | IPR001471 | AP2/ERF domain |
Gene3D | G3DSA:2.40.330.10 | 3.3E-41 | 201 | 325 | IPR015300 | DNA-binding pseudobarrel domain |
SuperFamily | SSF101936 | 6.15E-30 | 207 | 312 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 3.72E-28 | 208 | 302 | No hit | No description |
SMART | SM01019 | 1.6E-24 | 209 | 317 | IPR003340 | B3 DNA binding domain |
PROSITE profile | PS50863 | 13.902 | 209 | 316 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 6.9E-28 | 209 | 313 | 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:0048573 | Biological Process | photoperiodism, flowering | ||||
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: 382 aa Download sequence Send to blast |
MDGSCIDEST TSDSMSVSPA TTQSPFPSPT NITKSPESLC RVGSGTTSTL ILDSESGIEA 60 ESRKLPSSKY KGVVPQPNGR WGAQIYEKHQ RVWLGTFNEE DEAAKAYDIA AQRFRGRDAV 120 TNFKPCGTTD HHHHHHHHQE DDIETVFLNS HSKAEIVDML RKHTYNDELE QSKRNYGLDS 180 TRRSKGESLG HGLLERVNYY SMKAREQLFE KAVTPSDVGK LNRLVIPKQH AEKHFPLQNS 240 GSNSTTSSKG LLLNFEDVGG KVWRFRYSYW NSSQSYVLTK GWSRFVKEKN LKAGDIVSFH 300 RSTGPDNQLF IEWKARAGPS SSSSSNPVQM VRLFGVNILK IPGVGGVVES SNIGGCNGGK 360 RMREMDLLAL ECSKKQRIVG AL |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
1wid_A | 6e-58 | 206 | 318 | 11 | 119 | DNA-binding protein RAV1 |
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Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcriptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences. Functionally redundant with TEM2. {ECO:0000269|PubMed:18718758}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00024 | PBM | Transfer from AT1G25560 | Download |
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Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Expressed with a circadian rhythm showing a peak at dawn. {ECO:0000269|PubMed:18718758}. |
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 | JN595888 | 0.0 | JN595888.1 Castanea sativa RAV1 mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_023872247.1 | 0.0 | AP2/ERF and B3 domain-containing transcription factor RAV1-like | ||||
Swissprot | Q9C6M5 | 1e-145 | RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1 | ||||
TrEMBL | H9MHJ7 | 0.0 | H9MHJ7_CASSA; RAV1 | ||||
STRING | XP_002524409.1 | 0.0 | (Ricinus communis) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF2920 | 32 | 74 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G25560.1 | 1e-142 | RAV family protein |