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 | RrC4797_p1 | ||||||||
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 | C2H2 | ||||||||
Protein Properties | Length: 492aa MW: 52900.1 Da PI: 9.4951 | ||||||||
Description | C2H2 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-C2H2 | 16.5 | 2.5e-05 | 6 | 28 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C+ C+k F r nL+ H r H RrC4797_p1 6 FICEVCNKGFQREQNLQLHRRGH 28 89*******************88 PP | |||||||
2 | zf-C2H2 | 13.4 | 0.00023 | 82 | 104 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ RrC4797_p1 82 WKCEKCSKRYAVQSDWKAHSKTC 104 58*****************9998 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF57667 | 2.38E-7 | 5 | 28 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 5.3E-6 | 5 | 28 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE profile | PS50157 | 10.99 | 6 | 28 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 0.0052 | 6 | 28 | IPR015880 | Zinc finger, C2H2-like |
Pfam | PF12171 | 2.3E-5 | 6 | 28 | IPR022755 | Zinc finger, double-stranded RNA binding |
PROSITE pattern | PS00028 | 0 | 8 | 28 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 110 | 47 | 77 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 2.2E-5 | 70 | 103 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 2.38E-7 | 77 | 102 | No hit | No description |
SMART | SM00355 | 130 | 82 | 102 | IPR015880 | Zinc finger, C2H2-like |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0003676 | Molecular Function | nucleic acid binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 492 aa Download sequence Send to blast |
MATNRFICEV CNKGFQREQN LQLHRRGHNL PWKLKQKSTK EVKRKVYLCP EPTCVHHDPS 60 RALGDLTGIK KHYYRKHGEK KWKCEKCSKR YAVQSDWKAH SKTCGTKEYR CDCGTLFSRR 120 DSFITHRAFC DALAQESARH PTSLTSLPSH HFPYGQNTNS NNNTSSMMLG LSHTGAPQNL 180 DHRSGDALRL GEGVGGGAAS RSSSDLIAAN ASGYFVQDQN PSFHDQQQGF LAASNNIKPS 240 PMNFQQSLMQ FSHDSHNFPS SNLFNLSFLS GNSGVISATR NSNAAAVSSG NHMISNHFDG 300 ENAIGGGEGS TGLFPNNLIS SADRTSSGAV PSLFGSSIQN PNSTPHMSAT ALLQKAAQMG 360 STSSSNNNNN NSNNASSILR SFGSGMYGEN ESNLYDLMNS FSNPGPTGNN ASGVHSPFGS 420 YGGVNKGSNA DKQSMTRDFL GVGQIVRSMS GSGGFQQQHG NSRERVGSSS DSVDRNSMNL 480 NPGGGPATSP PQ |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 2e-33 | 78 | 139 | 3 | 64 | Zinc finger protein JACKDAW |
5b3h_F | 2e-33 | 78 | 139 | 3 | 64 | Zinc finger protein JACKDAW |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269|PubMed:22898356, ECO:0000269|PubMed:24821766}. |
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 | AJ621495 | 0.0 | AJ621495.1 Arabidopsis thaliana mRNA for ID1-like zinc finger protein 2 (idz2 gene). | |||
GenBank | AY056174 | 0.0 | AY056174.1 Arabidopsis thaliana putative C2H2-type zinc finger protein (At2g02070) mRNA, complete cds. | |||
GenBank | AY081314 | 0.0 | AY081314.1 Arabidopsis thaliana putative C2H2-type zinc finger protein (At2g02070) mRNA, complete cds. | |||
GenBank | BT001215 | 0.0 | BT001215.1 Arabidopsis thaliana putative C2H2-type zinc finger protein (At2g02070) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_018434643.1 | 0.0 | PREDICTED: protein indeterminate-domain 5, chloroplastic-like | ||||
Swissprot | Q9ZUL3 | 0.0 | IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic | ||||
TrEMBL | M4ECV7 | 0.0 | M4ECV7_BRARP; Uncharacterized protein | ||||
STRING | Bra026617.1-P | 0.0 | (Brassica rapa) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM4373 | 26 | 54 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G02070.1 | 0.0 | indeterminate(ID)-domain 5 |
Publications ? help Back to Top | |||
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