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 | Cagra.1968s0078.1.p | ||||||||
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; Capsella
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Family | C3H | ||||||||
Protein Properties | Length: 340aa MW: 38420.7 Da PI: 6.8853 | ||||||||
Description | C3H 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 | zf-CCCH | 37.1 | 5.3e-12 | 198 | 223 | 1 | 26 |
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 y +C+++ +tG+C yGd+CkF H+ Cagra.1968s0078.1.p 198 YQPDICKDYKETGYCGYGDSCKFLHD 223 67789********************7 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF90229 | 1.57E-9 | 196 | 229 | IPR000571 | Zinc finger, CCCH-type |
SMART | SM00356 | 8.4E-8 | 197 | 224 | IPR000571 | Zinc finger, CCCH-type |
PROSITE profile | PS50103 | 15.009 | 197 | 225 | IPR000571 | Zinc finger, CCCH-type |
Pfam | PF00642 | 1.0E-9 | 198 | 223 | IPR000571 | Zinc finger, CCCH-type |
Gene3D | G3DSA:4.10.1000.10 | 4.3E-13 | 198 | 228 | IPR000571 | Zinc finger, CCCH-type |
Gene3D | G3DSA:3.30.40.10 | 1.8E-13 | 261 | 315 | IPR013083 | Zinc finger, RING/FYVE/PHD-type |
SuperFamily | SSF57850 | 2.09E-13 | 273 | 316 | No hit | No description |
Pfam | PF13920 | 1.3E-8 | 273 | 315 | No hit | No description |
PROSITE profile | PS50089 | 10.63 | 274 | 312 | IPR001841 | Zinc finger, RING-type |
SMART | SM00184 | 9.2E-5 | 274 | 311 | IPR001841 | Zinc finger, RING-type |
CDD | cd00162 | 3.22E-9 | 274 | 315 | No hit | No description |
PROSITE pattern | PS00518 | 0 | 289 | 298 | IPR017907 | Zinc finger, RING-type, conserved site |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0005515 | Molecular Function | protein binding | ||||
GO:0008270 | Molecular Function | zinc ion binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 340 aa Download sequence Send to blast |
MSEPKPSQQE ESQPQPAGQE SQPQQVCTFF KKPTKAKNIR KRTLDADEED EDSKSQSSIL 60 QNLKKVAKPD SKLYFSSGPS KSSTTTNEAP EKPVFHYDSS KEIQVQNDSK ATATLETETD 120 FNQDARAIRE RVLKKADESL KGNKKKASDE KLYTGIHGYT DHKAGFRREQ TISSEKAGGS 180 HGPLRASAHI RVSARFDYQP DICKDYKETG YCGYGDSCKF LHDRGDYKPG WQIEKEWEEA 240 EKVRKRNKAM GVEDEDDEAG NDSDEDDDAL PFACFICREP FVDPVVTKCK HYFCEHCALK 300 HHTKNKKCFV CNQPTMGIFN AAHEIKKRMA EERSKAEGL* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5z56_M | 1e-66 | 108 | 338 | 113 | 326 | RING finger protein 113A |
5z58_M | 1e-66 | 108 | 338 | 113 | 326 | RING finger protein 113A |
6ff4_t | 1e-66 | 108 | 338 | 113 | 326 | RING finger protein 113A |
6ff7_t | 1e-66 | 108 | 338 | 113 | 326 | RING finger protein 113A |
Search in ModeBase |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Cagra.1968s0078.1.p |
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 | AB493419 | 0.0 | AB493419.1 Arabidopsis thaliana At1g01350 mRNA for hypothetical protein, partial cds, clone: RAAt1g01350. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_006305264.1 | 0.0 | zinc finger CCCH domain-containing protein 1 | ||||
Refseq | XP_023645143.1 | 0.0 | zinc finger CCCH domain-containing protein 1 | ||||
Swissprot | Q8GX84 | 0.0 | C3H1_ARATH; Zinc finger CCCH domain-containing protein 1 | ||||
TrEMBL | R0GQF7 | 0.0 | R0GQF7_9BRAS; Uncharacterized protein | ||||
STRING | Cagra.1968s0078.1.p | 0.0 | (Capsella grandiflora) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM11099 | 26 | 34 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G01350.1 | 0.0 | C3H family protein |
Link Out ? help Back to Top | |
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Phytozome | Cagra.1968s0078.1.p |