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 | Csa16g028940.1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Camelina
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Family | RAV | ||||||||
Protein Properties | Length: 355aa MW: 39789.1 Da PI: 10.0391 | ||||||||
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 | 42.3 | 1.9e-13 | 65 | 113 | 1 | 55 |
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s+ykGV + +grW A+I++ ++r++lg+f eeAa+ ++ a+++++g Csa16g028940.1 65 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEQEEAARSYDIAALRFRG 113 89****9888.8*********3.....5*************************98 PP | |||||||
2 | B3 | 102.6 | 2.2e-32 | 191 | 289 | 1 | 93 |
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+h + + ++++ + +ed +g++W+++++y+++s++yvltkGW++Fvk+++L++gD+v+F+++ + Csa16g028940.1 191 FEKAVTPSDVGKLNRLVIPKQHAEKHfplpsrSPSVTKGVLINFEDVNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKHLRAGDVVTFERSTGLD 285 89*************************9999844446999*************************************************765555 PP E..E CS B3 90 felv 93 ++l+ Csa16g028940.1 286 RQLY 289 5555 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Pfam | PF00847 | 1.7E-8 | 65 | 113 | IPR001471 | AP2/ERF domain |
CDD | cd00018 | 2.30E-26 | 65 | 120 | No hit | No description |
SuperFamily | SSF54171 | 7.19E-17 | 65 | 122 | IPR016177 | DNA-binding domain |
PROSITE profile | PS51032 | 20.732 | 66 | 121 | IPR001471 | AP2/ERF domain |
SMART | SM00380 | 2.0E-30 | 66 | 127 | IPR001471 | AP2/ERF domain |
Gene3D | G3DSA:3.30.730.10 | 2.1E-20 | 66 | 121 | IPR001471 | AP2/ERF domain |
Gene3D | G3DSA:2.40.330.10 | 9.5E-41 | 185 | 296 | IPR015300 | DNA-binding pseudobarrel domain |
SuperFamily | SSF101936 | 4.84E-32 | 188 | 290 | IPR015300 | DNA-binding pseudobarrel domain |
CDD | cd10017 | 4.06E-29 | 190 | 281 | No hit | No description |
PROSITE profile | PS50863 | 13.987 | 191 | 296 | IPR003340 | B3 DNA binding domain |
Pfam | PF02362 | 9.4E-30 | 191 | 292 | IPR003340 | B3 DNA binding domain |
SMART | SM01019 | 1.3E-26 | 191 | 296 | 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: 355 aa Download sequence Send to blast |
MDSSCIEEIS SSTSESFSTT TAKKLSPPPP LAAAFHLYRM GSGGSSVVLD SENGVETESR 60 KLPSSKYKGV VPQPNGRWGA QIYEKHQRVW LGTFNEQEEA ARSYDIAALR FRGRDAVVNF 120 KTLLDDGDLA FLEAHSKAEI VDMLRKHTYA DELEQNNKRR LFLSVDANGK RNGSSSTVLN 180 DNVLKTREVL FEKAVTPSDV GKLNRLVIPK QHAEKHFPLP SRSPSVTKGV LINFEDVNGK 240 VWRFRYSYWN SSQSYVLTKG WSRFVKEKHL RAGDVVTFER STGLDRQLYI DWKVRSGPRE 300 NPVQVVVRLF GVDIFNVNTV KPNDVVAVCG GKRSRDADMF GIRCSKKQTI INAL* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
1wid_A | 8e-62 | 188 | 297 | 11 | 119 | DNA-binding protein RAV1 |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Transcriptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences (Probable). Functionally redundant with TEM1. {ECO:0000250, ECO:0000269|PubMed:18718758, ECO:0000305}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Csa16g028940.1 |
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 | AB013887 | 0.0 | AB013887.1 Arabidopsis thaliana mRNA for RAV2, complete cds. | |||
GenBank | AC011665 | 0.0 | AC011665.8 Arabidopsis thaliana chromosome 1 BAC T6L1 genomic sequence, complete sequence. | |||
GenBank | AC011914 | 0.0 | AC011914.9 Arabidopsis thaliana chromosome 1 BAC F14K14 genomic sequence, complete sequence. | |||
GenBank | AF360312 | 0.0 | AF360312.1 Arabidopsis thaliana putative DNA-binding protein(RAV2 (At1g68840) mRNA, complete cds. | |||
GenBank | AY056361 | 0.0 | AY056361.1 Arabidopsis thaliana putative DNA-binding protein RAV2 (At1g68840) mRNA, complete cds. | |||
GenBank | CP002684 | 0.0 | CP002684.1 Arabidopsis thaliana chromosome 1 sequence. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_010470843.1 | 0.0 | PREDICTED: AP2/ERF and B3 domain-containing transcription repressor RAV2-like | ||||
Swissprot | P82280 | 0.0 | RAV2_ARATH; AP2/ERF and B3 domain-containing transcription repressor RAV2 | ||||
TrEMBL | A0A178WNP0 | 0.0 | A0A178WNP0_ARATH; TEM2 | ||||
STRING | XP_010470843.1 | 0.0 | (Camelina sativa) |
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 | ||||
AT1G68840.2 | 0.0 | related to ABI3/VP1 2 |