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 | GRMZM5G828179_P01 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Tripsacinae; Zea
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Family | C2H2 | ||||||||
Protein Properties | Length: 354aa MW: 37983.1 Da PI: 8.9931 | ||||||||
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 | 19.3 | 3.1e-06 | 26 | 48 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++Cgk F r nL+ H r H GRMZM5G828179_P01 26 FVCEICGKGFQRDQNLQLHRRGH 48 89*******************88 PP | |||||||
2 | zf-C2H2 | 15.2 | 6.1e-05 | 103 | 125 | 1 | 23 |
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H +t+ GRMZM5G828179_P01 103 WKCDKCNKRYAVQSDWKAHAKTC 125 58******************998 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF57667 | 6.72E-8 | 25 | 48 | No hit | No description |
SMART | SM00355 | 0.012 | 26 | 48 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 9.3E-6 | 26 | 48 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
PROSITE profile | PS50157 | 11.614 | 26 | 48 | IPR007087 | Zinc finger, C2H2 |
PROSITE pattern | PS00028 | 0 | 28 | 48 | IPR007087 | Zinc finger, C2H2 |
SMART | SM00355 | 250 | 68 | 98 | IPR015880 | Zinc finger, C2H2-like |
Gene3D | G3DSA:3.30.160.60 | 4.8E-5 | 91 | 124 | IPR013087 | Zinc finger C2H2-type/integrase DNA-binding domain |
SuperFamily | SSF57667 | 6.72E-8 | 98 | 123 | No hit | No description |
SMART | SM00355 | 110 | 103 | 123 | IPR015880 | Zinc finger, C2H2-like |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0044212 | Molecular Function | transcription regulatory region DNA binding | ||||
GO:0046872 | Molecular Function | metal ion binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 354 aa Download sequence Send to blast |
MHACNTDPAA EVIALSPRTL LATNRFVCEI CGKGFQRDQN LQLHRRGHNL PWKLRQRSAG 60 KEPRKRVYVC PEKTCVHHNP SRALGDLTGI KKHFCRKHGE KKWKCDKCNK RYAVQSDWKA 120 HAKTCGTREY RCDCGTLFSR RDSFITHRAF CDALAEETAY APLGPHVGDL SLPSMVGHIG 180 ANGSIMLPGA PPQLYADLFA PAPPQLGWLC GNNGKLASSN ASELTSAAAS GKQETDSVLS 240 MFSRQQHANP AVAGAGDMMS ATALLQKAAQ MGADSGRQQS SDDGAGGLLS SASSLRGPGP 300 GTNTLMSLPY DVLSAVRHAG LVKNAAVDVG REETRDFLGV GMQALCSSSL NGWI |
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-34 | 99 | 159 | 3 | 63 | Zinc finger protein JACKDAW |
5b3h_F | 2e-34 | 99 | 159 | 3 | 63 | Zinc finger protein JACKDAW |
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Expression -- Microarray ? help Back to Top | ||||||
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Source | ID | |||||
Expression Atlas | GRMZM5G828179 |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: Expressed throughout development. {ECO:0000269|PubMed:21265895}. | |||||
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}. | |||||
Uniprot | TISSUE SPECIFICITY: Highly expressed in vegetative organs and at lower levels in flowers and siliques. Expressed predominantly in roots. In roots, present in cortex, endodermis, and pericycle layer (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000305|PubMed:21265895}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription activator that binds to the DNA sequence 5'-CTTTTGTCC-3' (PubMed:21265895, PubMed:25929516). Regulates photoperiodic flowering by modulating sugar transport and metabolism (PubMed:21265895, PubMed:25929516). Regulates SUS1 and SUS4 (PubMed:21265895). Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000269|PubMed:25929516}. | |||||
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}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00125 | DAP | Transfer from AT1G03840 | Download |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | GRMZM5G828179_P01 |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Up-regulated by 'SHORT-ROOT' (SHR)(PubMed:16640459). Strongly down-regulated by sugar deprivation, but not regulated by day-length. {ECO:0000269|PubMed:16640459}. | |||||
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 | Retrieve |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | HG670306 | 0.0 | HG670306.1 Triticum aestivum chromosome 3B, genomic scaffold, cultivar Chinese Spring. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_008673471.1 | 0.0 | zinc finger protein NUTCRACKER | ||||
Swissprot | Q9FFH3 | 1e-112 | IDD8_ARATH; Zinc finger protein NUTCRACKER | ||||
Swissprot | Q9ZWA6 | 1e-112 | IDD3_ARATH; Zinc finger protein MAGPIE | ||||
TrEMBL | A0A1D6MER1 | 0.0 | A0A1D6MER1_MAIZE; Zinc finger protein MAGPIE | ||||
STRING | GRMZM5G828179_P01 | 0.0 | (Zea mays) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP202 | 38 | 320 | Representative plant | OGRP95 | 16 | 242 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G03840.1 | 1e-111 | C2H2 family protein |
Link Out ? help Back to Top | |
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Phytozome | GRMZM5G828179_P01 |
Publications ? help Back to Top | |||
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