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 | Lj0g3v0300749.1 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus
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Family | C2H2 | ||||||||
Protein Properties | Length: 488aa MW: 53411.9 Da PI: 9.7163 | ||||||||
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 | 17.3 | 1.4e-05 | 67 | 89 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H Lj0g3v0300749.1 67 FVCEICNKGFQRDQNLQLHRRGH 89 89*******************88 PP | |||||||
2 | zf-C2H2 | 14 | 0.00015 | 143 | 165 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k + +s+ k H +t+ Lj0g3v0300749.1 143 WKCEKCSKKYAVQSDWKAHTKTC 165 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 | 1.6E-5 | 66 | 89 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 2.48E-7 | 66 | 89 | No hit | No description |
SMART | SM00355 | 0.017 | 67 | 89 | IPR015880 | Zinc finger, C2H2-like |
PROSITE profile | PS50157 | 10.949 | 67 | 89 | IPR007087 | Zinc finger, C2H2 |
Pfam | PF12171 | 7.7E-5 | 67 | 89 | IPR022755 | Zinc finger, double-stranded RNA binding |
PROSITE pattern | PS00028 | 0 | 69 | 89 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 120 | 108 | 138 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 1.4E-4 | 131 | 164 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 2.48E-7 | 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: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: 488 aa Download sequence Send to blast |
MQMIPGDPFS LSTPLGGFST QEQNTNPNPK PNAPTTTKKK RNLPGTPDPD AEVIALSPKT 60 LMATNRFVCE ICNKGFQRDQ NLQLHRRGHN LPWKLRQRSN KEVRKKVYIC PEKTCVHHDA 120 SRALGDLTGI KKHFSRKHGE KKWKCEKCSK KYAVQSDWKA HTKTCGTREY KCDCGTLFSR 180 KDSFITHRAF CDALAEESAR LTSVTSSTNL NFKDEDCISL IPKNFDGSIP QFGPHGFRLD 240 FNHNNNSLMG AGDQHQHIRP SLSLWLNQAN PPPHHPHDVG GIFVSSSLGL PEIVQMQQPQ 300 VHNNGMIGSS SMLPNFVPGS NSNTASLSLS EGQNKQSNSS KPASPMSATA LLQKAAQMGS 360 TRSSNNPSIF SGSFGVMTSS PNSSQTTTTL NNNSHNGNEI NQVFQAMKQP QDFTSNGGEA 420 IMGNSASFSS MAHSSNAYDQ LVMQNNGKMK LHLSNAADHN LTRDFLGVSG GGAGPQFLPQ 480 ELAKFLHP |
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 | 139 | 207 | 3 | 71 | Zinc finger protein JACKDAW |
5b3h_F | 8e-38 | 139 | 207 | 3 | 71 | Zinc finger protein JACKDAW |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
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No. | Start | End | Sequence |
1 | 93 | 105 | KLRQRSNKEVRKK |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Lja.1506 | 0.0 | pod |
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 |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Lj0g3v0300749.1 |
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 | Retrieve |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_027366218.1 | 0.0 | zinc finger protein JACKDAW-like | ||||
Swissprot | Q700D2 | 1e-122 | IDD10_ARATH; Zinc finger protein JACKDAW | ||||
TrEMBL | I1JPL1 | 0.0 | I1JPL1_SOYBN; Uncharacterized protein | ||||
STRING | GLYMA03G33700.1 | 0.0 | (Glycine max) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF181 | 34 | 275 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT5G03150.1 | 1e-108 | C2H2-like zinc finger protein |
Publications ? help Back to Top | |||
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