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_013599509.1 | ||||||||
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 | RAV | ||||||||
Protein Properties | Length: 340aa MW: 37961.5 Da PI: 9.9647 | ||||||||
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 | 5.8e-12 | 58 | 106 | 1 | 55 |
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s+ykGV + +grW A+I++ ++r++lg+f ++eAa+ ++ a +++g XP_013599509.1 58 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAARSYDVAVHRFRG 106 89****9888.8*********3.....5**********99***********9998 PP | |||||||
2 | B3 | 101.1 | 6.4e-32 | 182 | 286 | 1 | 99 |
EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS B3 1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 f+k+ tpsdv+k++rlv+pk++ae++ ++++ +++ l +ed g++W+++++y+++s++yvltkGW++Fvk+++L++gD+v F++++ ++ XP_013599509.1 182 FEKAVTPSDVGKLNRLVIPKHHAEKYfplppsSNVSVKGVLLNFEDVAGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSDGQD 276 89*************************99999778889***************************************************987799 PP E..EEEEE-S CS B3 90 felvvkvfrk 99 ++l++++ ++ XP_013599509.1 277 QQLYIGWKSR 286 9999999776 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 | 58 | 106 | IPR001471 | AP2/ERF domain |
SuperFamily | SSF54171 | 2.35E-16 | 58 | 115 | IPR016177 | DNA-binding domain |
CDD | cd00018 | 7.33E-25 | 58 | 116 | No hit | No description |
SMART | SM00380 | 5.8E-27 | 59 | 120 | IPR001471 | AP2/ERF domain |
Gene3D | G3DSA:3.30.730.10 | 1.1E-19 | 59 | 115 | IPR001471 | AP2/ERF domain |
PROSITE profile | PS51032 | 19.888 | 59 | 114 | IPR001471 | AP2/ERF domain |
Gene3D | G3DSA:2.40.330.10 | 1.6E-40 | 175 | 289 | IPR015300 | DNA-binding pseudobarrel domain |
SuperFamily | SSF101936 | 2.88E-31 | 178 | 288 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 1.98E-28 | 181 | 274 | No hit | No description |
SMART | SM01019 | 1.4E-26 | 182 | 287 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 3.6E-29 | 182 | 286 | IPR003340 | B3 DNA binding domain |
PROSITE profile | PS50863 | 14.339 | 182 | 287 | 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: 340 aa Download sequence Send to blast |
MEVSSVDEST TSTCSIYETP AITPAKTSVN LHRMGSGSSV VLDAENGAEA ESRKLPSSKY 60 KGVVPQPNGR WGAQIYEKHQ RVWLGTFNEE DEAARSYDVA VHRFRGRDAV TNFKDARLDD 120 GEVEFLSSHS KSGIVDMLRK HTYSEELEQS KRRRNGNGNA VRSTTQNDGV STTEFRSAVS 180 LFEKAVTPSD VGKLNRLVIP KHHAEKYFPL PPSSNVSVKG VLLNFEDVAG KVWRFRYSYW 240 NSSQSYVLTK GWSRFVKEKN LRAGDVVSFS RSDGQDQQLY IGWKSRSGSD VETGRVLRLF 300 GVNISPAGSR NDVVGNKRVV NVTEMLSLVC SKKQRIFHAL |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
1wid_A | 4e-71 | 178 | 293 | 10 | 124 | DNA-binding protein RAV1 |
Search in ModeBase |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in all tissues examined: Roots, rosette leaves, cauline leaves, inflorescence stems, flowers and siliques. Highest expression in roots and rosette leaves. Very low expression in flowers. {ECO:0000269|PubMed:9862967}. |
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 | XP_013599509.1 |
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_013599509.1 | 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 | A0A3P6GGN4 | 0.0 | A0A3P6GGN4_BRAOL; 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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