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 | RrC8507_p2 | ||||||||
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: 500aa MW: 55249.6 Da PI: 8.3362 | ||||||||
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 | 15.6 | 4.5e-05 | 69 | 89 | 3 | 23 |
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C++Cgk F r nL+ H r H RrC8507_p2 69 CEICGKGFQRDQNLQLHRRGH 89 *******************88 PP | |||||||
2 | zf-C2H2 | 13.4 | 0.00023 | 143 | 165 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ RrC8507_p2 143 WKCEKCSKRYAVQSDWKAHSKTC 165 58*****************9998 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Gene3D | G3DSA:3.30.160.60 | 4.4E-5 | 66 | 89 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 3.91E-6 | 66 | 89 | No hit | No description |
PROSITE profile | PS50157 | 11.489 | 67 | 89 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 0.076 | 67 | 89 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 69 | 89 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 1.7E-4 | 131 | 164 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 3.91E-6 | 138 | 163 | No hit | No description |
SMART | SM00355 | 130 | 143 | 163 | IPR015880 | Zinc finger, C2H2-like |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0044212 | Molecular Function | transcription regulatory region DNA binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 500 aa Download sequence Send to blast |
MTAEDQTISS SGGYVQSLST TDHVDHHHER ESFNPPAKKK RNLPGNPDPE AEVIALSPKT 60 LMATNRFLCE ICGKGFQRDQ NLQLHRRGHN LPWKLKQRTT KEVRKRVYVC PEKSCVHHHP 120 TRALGDLTGI KKHFCRKHGE KKWKCEKCSK RYAVQSDWKA HSKTCGTREY RCDCGTIFSR 180 RDSFITHRAF CDALAEETAR LNAASHLKSL TSNNLNYHYL MGTLIPSPQP PPPPFPFGPP 240 QPPQHHHHHF PITTNTFDHH HNDVMKPASS LSLWMGGNIN HHGVTIDDGI APQQQSPQDD 300 FSWSFGNANN RGELITTSDS LITHENINIF PSKENANAAT SLSVPSLFSS VDHITQDANA 360 AASAVANMSA TALLQKAAQM GVTSSTPSTT ITTNQSTFHQ SFALKTSDQS QIVEDGGSDK 420 FFALFGPNSV GLMSNNGLQH ENENPRSGVT VVSEFGELHN YPLKRRRVES GDAGGGGQTR 480 DFLGVGVQTM CHSSSINGWI |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 6e-36 | 139 | 214 | 3 | 72 | Zinc finger protein JACKDAW |
5b3h_F | 6e-36 | 139 | 214 | 3 | 72 | Zinc finger protein JACKDAW |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
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No. | Start | End | Sequence |
1 | 463 | 467 | KRRRV |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). 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). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00125 | DAP | Transfer from AT1G03840 | Download |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269|PubMed:21935722}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | Retrieve |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_018447905.1 | 0.0 | PREDICTED: zinc finger protein MAGPIE | ||||
Swissprot | Q9ZWA6 | 0.0 | IDD3_ARATH; Zinc finger protein MAGPIE | ||||
TrEMBL | A0A397XJ23 | 0.0 | A0A397XJ23_BRACM; Uncharacterized protein | ||||
STRING | XP_010475014.1 | 0.0 | (Camelina sativa) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM3710 | 26 | 60 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G03840.1 | 0.0 | C2H2 family protein |
Publications ? help Back to Top | |||
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