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 | Gh_D04G1096 | ||||||||
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: 465aa MW: 50800.3 Da PI: 10.3047 | ||||||||
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 | 2.8e-05 | 62 | 84 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 + C++C+k F r nL+ H r H Gh_D04G1096 62 FICEICNKGFQRDQNLQLHRRGH 84 89*******************88 PP | |||||||
2 | zf-C2H2 | 12.9 | 0.00034 | 139 | 161 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H +t+ Gh_D04G1096 139 WKCEKCSKKYAVQSDWKAHSKTC 161 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 | 3.44E-7 | 61 | 84 | No hit | No description |
Gene3D | G3DSA:3.30.160.60 | 1.2E-5 | 61 | 84 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE profile | PS50157 | 10.845 | 62 | 84 | IPR007087 | Zinc finger, C2H2 |
Pfam | PF12171 | 5.5E-5 | 62 | 84 | IPR022755 | Zinc finger, double-stranded RNA binding |
SMART | SM00355 | 0.022 | 62 | 84 | IPR015880 | Zinc finger, C2H2-like |
PROSITE pattern | PS00028 | 0 | 64 | 84 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 100 | 104 | 134 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 1.1E-4 | 127 | 160 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 3.44E-7 | 134 | 159 | No hit | No description |
SMART | SM00355 | 140 | 139 | 159 | IPR015880 | Zinc finger, C2H2-like |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0010075 | Biological Process | regulation of meristem growth | ||||
GO:0045604 | Biological Process | regulation of epidermal cell differentiation | ||||
GO:0048364 | Biological Process | root development | ||||
GO:0051302 | Biological Process | regulation of cell division | ||||
GO:0003676 | Molecular Function | nucleic acid binding | ||||
GO:0042803 | Molecular Function | protein homodimerization activity | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 465 aa Download sequence Send to blast |
MSGDGFSLPV SIGGFVHQEQ NNTNPNPKSN PVKKKRNLPG NPDPDAEVIA LSPKTLMATN 60 RFICEICNKG FQRDQNLQLH RRGHNLPWKL KQRNNKEPVK KKVYICPEKT CVHHDPSRAL 120 GDLTGIKKHF SRKHGEKKWK CEKCSKKYAV QSDWKAHSKT CGTREYKCDC GTLFSRKDSF 180 ITHRAFCDAL AEESARFSSV AGAATNLNFR NDVVNLPIGF GGIPQFGSGF TQDVSGMTVS 240 GLPEMVQIAS GNLFRSSSLN KFGTDSNPPL LQLPQGLKEE GGSKGKLMES LSPLYSDTQN 300 EQSKPAAPMS ATALLQKAAQ MGSTRSKPTS FFGNSFGVMS STSSQRSASL RSTQNRNGQL 360 QQIYPNVKQQ ESNLMASSSV SMSANAGLGT SNNFDRLILQ TGVKQNAPNQ LKMHPGSNSI 420 DQSLTRDFLG MGNDQSARPF LPQELAKFAS IGSTMGLNQF SSSNH |
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 | 135 | 201 | 3 | 69 | Zinc finger protein JACKDAW |
5b3h_F | 1e-38 | 135 | 201 | 3 | 69 | Zinc finger protein JACKDAW |
Search in ModeBase |
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}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00485 | DAP | Transfer from AT5G03150 | Download |
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_016680913.1 | 0.0 | PREDICTED: zinc finger protein JACKDAW-like | ||||
Swissprot | Q700D2 | 1e-146 | IDD10_ARATH; Zinc finger protein JACKDAW | ||||
TrEMBL | A0A1U8IX11 | 0.0 | A0A1U8IX11_GOSHI; zinc finger protein JACKDAW-like | ||||
STRING | Gorai.009G418600.1 | 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-126 | C2H2-like zinc finger protein |
Publications ? help Back to Top | |||
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