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 | Lj3g3v2824300.1 | ||||||||
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: 476aa MW: 52765.8 Da PI: 8.8845 | ||||||||
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 | 14.7 | 9e-05 | 62 | 84 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C k F r nL+ H r H Lj3g3v2824300.1 62 FVCEICLKGFQRDQNLQLHRRGH 84 89*******************88 PP | |||||||
2 | zf-C2H2 | 13.5 | 0.00022 | 138 | 160 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC++C+k++ +s+ k H +t+ Lj3g3v2824300.1 138 WKCEKCSKRYAVQSDWKAHSKTC 160 58*****************9998 PP | |||||||
3 | zf-C2H2 | 11.4 | 0.00096 | 168 | 186 | 5 | 23 |
TTTEEESSHHHHHHHHHHT CS zf-C2H2 5 dCgksFsrksnLkrHirtH 23 dCg++Fsr++++ +H + Lj3g3v2824300.1 168 DCGTVFSRRDSFITHRAFC 186 8**************8765 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 | 1.8E-4 | 61 | 84 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE profile | PS50157 | 10.305 | 62 | 84 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 64 | 84 | IPR007087 | Zinc finger, C2H2 |
Gene3D | G3DSA:3.30.160.60 | 3.4E-5 | 126 | 159 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 7.95E-5 | 134 | 182 | No hit | No description |
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: 476 aa Download sequence Send to blast |
MLLNMDDGEI SNAFPHQNPA SSSNNNNIPP ALKRKRNLPG NPDPEAEVIA LSPKTLMATN 60 RFVCEICLKG FQRDQNLQLH RRGHNLPWKL KQRTSKEVRK RVYVCPEKTC VHHHPSRALG 120 DLTGIKKHFC RKQGEKKWKC EKCSKRYAVQ SDWKAHSKTC GTREYKCDCG TVFSRRDSFI 180 THRAFCDALA EETAKVNATS NLNNSLGGNM GYTFMQQTPL GPTMATHFSS IFKPISCTEE 240 ETGNNNHQTP RGLSLWMTQP QTSHPHETMS ASTHMHHEIH NHHLGTTTNQ GPIYSVGNGN 300 PPPPPSNYQL NWVFGNKFSS NGNHQELTST TSLPLVNNNN IVNDGAHNLI SVPSLYSSQQ 360 QHQSHQTSAS ANMSATALLQ KAAQIGTTSS TDPSFLGSLG LRSCNSPRQD HGNSNKFCGM 420 YSSSSVVTTS HGCETENYSD DLSQMPPAKR RHVQSEESAW GQTRDFLGVG VANHLP |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5b3h_C | 2e-36 | 134 | 203 | 3 | 72 | Zinc finger protein JACKDAW |
5b3h_F | 2e-36 | 134 | 203 | 3 | 72 | Zinc finger protein JACKDAW |
Search in ModeBase |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in the ground tissue and stele cells of embryos and 2-days post-germination roots but not in the quiescent center (PubMed:17785527). Detected only in cells that perform asymmetric cell divisions (PubMed:17785527). In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:25829440}. |
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}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Lj3g3v2824300.1 |
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 | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | BT138981 | 0.0 | BT138981.1 Lotus japonicus clone JCVI-FLLj-3E7 unknown mRNA. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_020229441.1 | 0.0 | zinc finger protein MAGPIE | ||||
Swissprot | Q9ZWA6 | 1e-139 | IDD3_ARATH; Zinc finger protein MAGPIE | ||||
TrEMBL | A0A445IBV9 | 0.0 | A0A445IBV9_GLYSO; Zinc finger protein NUTCRACKER | ||||
TrEMBL | I1M3P4 | 0.0 | I1M3P4_SOYBN; Uncharacterized protein | ||||
STRING | GLYMA13G36960.1 | 0.0 | (Glycine max) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Fabids | OGEF4626 | 29 | 51 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G03840.1 | 1e-131 | C2H2 family protein |
Publications ? help Back to Top | |||
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