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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 | PGSC0003DMP400003128 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
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Family | C2H2 | ||||||||
Protein Properties | Length: 454aa MW: 50504.9 Da PI: 9.7748 | ||||||||
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 | 16.3 | 2.7e-05 | 56 | 78 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C++C+k F r nL+ H r H PGSC0003DMP400003128 56 FICEICNKGFQRDQNLQLHRRGH 78 89*******************88 PP | |||||||
2 | zf-C2H2 | 14.1 | 0.00014 | 133 | 155 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H +t+ PGSC0003DMP400003128 133 WKCEKCSKKYAVQSDWKAHTKTC 155 58*******************98 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 | 1.2E-5 | 55 | 78 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 3.05E-7 | 55 | 78 | No hit | No description |
PROSITE profile | PS50157 | 10.845 | 56 | 78 | IPR007087 | Zinc finger, C2H2 |
Pfam | PF12171 | 5.3E-5 | 56 | 78 | IPR022755 | Zinc finger, double-stranded RNA binding |
SMART | SM00355 | 0.022 | 56 | 78 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 58 | 78 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 100 | 98 | 128 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 1.3E-4 | 121 | 154 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 3.05E-7 | 128 | 153 | No hit | No description |
SMART | SM00355 | 130 | 133 | 153 | 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: 454 aa Download sequence Send to blast |
MSGDLFSIHQ QQQQLLVEQN PNPKANSSSK KRRNLPDPDA EVIAISPKTL MATNRFICEI 60 CNKGFQRDQN LQLHRRGHNL PWKLKQRNKQ EIVKKKVYIC PEKTCVHHDP SRALGDLTGI 120 KKHFSRKHGE KKWKCEKCSK KYAVQSDWKA HTKTCGTREY KCDCGTLFSR KDSFITHRAF 180 CDALAEESAR ITSVGTTPNN LNFNQQQQQP VGISQIGTSF VQDFTSMTTV NPLHQHQQKP 240 RLSLWLNQPN NMSSPSSNLF GLPDHHMVQI PSPNMFGTAS SIGNQILTPT TTTTNTPATS 300 NPPIPMSATA LLQKAAQMGS TKSTPNYFSN TFGVMHSSSS PSSNNTTQIF NNNEIHQAFA 360 KQTEDYNQTE NILINGCPNM NLSVNSKAIN LDQALLQTGG MHNQTVHFNL HNSLTRDFLG 420 MGNEGGQPFL PQELAKFASM NAAMGLSHYS TGH* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 8e-38 | 129 | 194 | 3 | 68 | Zinc finger protein JACKDAW |
5b3h_F | 8e-38 | 129 | 194 | 3 | 68 | Zinc finger protein JACKDAW |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription factor that, together with BIB, regulates tissue boundaries and asymmetric cell division by a rapid up-regulation of 'SCARECROW' (SCR), thus controlling the nuclear localization of 'SHORT-ROOT' (SHR) and restricting its action (PubMed:17785527, PubMed:25829440). Binds DNA via its zinc fingers (PubMed:28211915, PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Confines CYCD6 expression to the cortex-endodermis initial/daughter (CEI/CEID) tissues (PubMed:25829440). Required for radial patterning and stem cell maintenance (PubMed:17785527). Counteracted by 'MAGPIE' (MGP) (PubMed:17785527). Binds to the SCR and MGP promoter sequences (PubMed:21935722). Controls position-dependent signals that regulate epidermal-cell-type patterning (PubMed:20356954). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:20356954, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440, ECO:0000269|PubMed:28211915}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | PGSC0003DMP400003128 |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Not regulated by SCR and SHR. {ECO:0000269|PubMed:21935722}. |
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 | HG975448 | 0.0 | HG975448.1 Solanum pennellii chromosome ch09, complete genome. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_015170964.1 | 0.0 | PREDICTED: zinc finger protein JACKDAW-like isoform X2 | ||||
Swissprot | Q700D2 | 1e-123 | IDD10_ARATH; Zinc finger protein JACKDAW | ||||
TrEMBL | M0ZNC7 | 0.0 | M0ZNC7_SOLTU; Uncharacterized protein | ||||
STRING | PGSC0003DMT400004390 | 0.0 | (Solanum tuberosum) |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT5G03150.1 | 1e-98 | C2H2-like zinc finger protein |
Link Out ? help Back to Top | |
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Phytozome | PGSC0003DMP400003128 |