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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 | Gh_D09G1416 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
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Family | C2H2 | ||||||||
Protein Properties | Length: 452aa MW: 48947.1 Da PI: 10.1143 | ||||||||
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 | 15.5 | 5.1e-05 | 64 | 86 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C++C+k F r nL+ H r H Gh_D09G1416 64 FICEICKKGFQRDQNLQLHRRGH 86 89*******************88 PP | |||||||
2 | zf-C2H2 | 12.9 | 0.00033 | 140 | 162 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H +t+ Gh_D09G1416 140 WKCEKCSKKYAVQSDWKAHSKTC 162 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 | 6.9E-5 | 63 | 86 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 9.99E-7 | 63 | 86 | No hit | No description |
SMART | SM00355 | 0.05 | 64 | 86 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 10.533 | 64 | 86 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 66 | 86 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 100 | 105 | 135 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 1.1E-4 | 128 | 161 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 9.99E-7 | 135 | 160 | No hit | No description |
SMART | SM00355 | 140 | 140 | 160 | 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: 452 aa Download sequence Send to blast |
MSGEAFSLPA ASIGGFIQDP SNANPNPKPN ANPAKKKRNL PGTPDPDAEV IALSPKTLMA 60 TNRFICEICK KGFQRDQNLQ LHRRGHNLPW KLRQRTNKEV RKKVYICPEK TCVHHDPSRA 120 LGDLTGIKKH FSRKHGEKKW KCEKCSKKYA VQSDWKAHSK TCGTREYKCD CGTLFSRKDS 180 FITHRAFCDA LAEESARLTS VAATSLNFRN DTVNLPHGFA GRGVQDVAGI PQFGSGFAQD 240 FSGMPAPGLP EMVRMAPANL FGSSSHFPGF ENGGATSSNS NNLSLSQLPQ GLKEEGRNEG 300 NLMESLSSLY SDNQNKQSKA NASPMSATAL LQKAAQMGST RSNPSFFGNS FGVMSSSSSH 360 TAPTFMASSS ASMSATSNKL DKLMLQTGGK PSEPSLLSMH HPGSNSFAQS LTRDFLGMSN 420 DQSPRPFLPQ ELAKYAAIGS TMGLSQFTSS NH |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 1e-38 | 136 | 202 | 3 | 69 | Zinc finger protein JACKDAW |
5b3h_F | 1e-38 | 136 | 202 | 3 | 69 | Zinc finger protein JACKDAW |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
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No. | Start | End | Sequence |
1 | 90 | 102 | KLRQRTNKEVRKK |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Ghi.10937 | 0.0 | boll| root |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: Start to accumulate during the 16- to 32-cell stage of embryogenesis. {ECO:0000269|PubMed:17785527}. | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in the quiescent center, the ground tissue stem cells and to a lesser extent in mature cortex and endodermis cells. {ECO:0000269|PubMed:17785527}. |
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}. |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Not regulated by SCR and SHR. {ECO:0000269|PubMed:21935722}. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_016671288.1 | 0.0 | PREDICTED: zinc finger protein JACKDAW-like | ||||
Swissprot | Q700D2 | 1e-146 | IDD10_ARATH; Zinc finger protein JACKDAW | ||||
TrEMBL | A0A1U8I4Z3 | 0.0 | A0A1U8I4Z3_GOSHI; zinc finger protein JACKDAW-like | ||||
STRING | Gorai.006G167600.1 | 0.0 | (Gossypium raimondii) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM155 | 28 | 306 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT5G03150.1 | 1e-127 | C2H2-like zinc finger protein |
Publications ? help Back to Top | |||
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