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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 | RrC302_p8 | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
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Family | MIKC_MADS | ||||||||
Protein Properties | Length: 201aa MW: 22870.1 Da PI: 8.192 | ||||||||
Description | MIKC_MADS 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 | SRF-TF | 88.4 | 3.8e-28 | 9 | 59 | 1 | 51 |
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 k+i+n + rqvtfskRr gi+KKA ELSvLCda+va+iifs tgkl+e+ss RrC302_p8 9 KKIDNITARQVTFSKRRRGIFKKADELSVLCDADVALIIFSATGKLFEFSS 59 68***********************************************96 PP | |||||||
2 | K-box | 54.4 | 5.2e-19 | 90 | 167 | 17 | 94 |
K-box 17 lqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaL 94 + +l++L +e+e +++R+l GedLe L+l+eLq+Le+ Le++l+++ +kK e+l++qi+ l k+ l+ ++++ RrC302_p8 90 EDCNLSRLSQEVEDKTKQLRKLRGEDLEGLNLEELQRLEKLLESGLSRVSEKKGEFLMSQISSLEKRVVTLEMAKTMA 167 5567899************************************************************99999876654 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50066 | 28.679 | 1 | 61 | IPR002100 | Transcription factor, MADS-box |
SMART | SM00432 | 3.6E-36 | 1 | 60 | IPR002100 | Transcription factor, MADS-box |
CDD | cd00265 | 1.53E-36 | 2 | 69 | No hit | No description |
SuperFamily | SSF55455 | 1.14E-29 | 3 | 72 | IPR002100 | Transcription factor, MADS-box |
PRINTS | PR00404 | 7.0E-25 | 3 | 23 | IPR002100 | Transcription factor, MADS-box |
PROSITE pattern | PS00350 | 0 | 3 | 57 | IPR002100 | Transcription factor, MADS-box |
Pfam | PF00319 | 6.8E-25 | 10 | 57 | IPR002100 | Transcription factor, MADS-box |
PRINTS | PR00404 | 7.0E-25 | 23 | 38 | IPR002100 | Transcription factor, MADS-box |
PRINTS | PR00404 | 7.0E-25 | 38 | 59 | IPR002100 | Transcription factor, MADS-box |
PROSITE profile | PS51297 | 12.087 | 87 | 177 | IPR002487 | Transcription factor, K-box |
Pfam | PF01486 | 1.6E-15 | 91 | 164 | IPR002487 | Transcription factor, K-box |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0006355 | Biological Process | regulation of transcription, DNA-templated | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003677 | Molecular Function | DNA binding | ||||
GO:0003700 | Molecular Function | transcription factor activity, sequence-specific DNA binding | ||||
GO:0046983 | Molecular Function | protein dimerization activity |
Sequence ? help Back to Top |
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Protein Sequence Length: 201 aa Download sequence Send to blast |
MAREKRRIKK IDNITARQVT FSKRRRGIFK KADELSVLCD ADVALIIFSA TGKLFEFSSS 60 RMRDILERYN LHASNINKVM GQPSPYQQVE DCNLSRLSQE VEDKTKQLRK LRGEDLEGLN 120 LEELQRLEKL LESGLSRVSE KKGEFLMSQI SSLEKRVVTL EMAKTMALKE AVETESATTN 180 VSSYESGAPL EDDFSDTSLK L |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5f28_A | 2e-17 | 1 | 69 | 1 | 69 | MEF2C |
5f28_B | 2e-17 | 1 | 69 | 1 | 69 | MEF2C |
5f28_C | 2e-17 | 1 | 69 | 1 | 69 | MEF2C |
5f28_D | 2e-17 | 1 | 69 | 1 | 69 | MEF2C |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
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No. | Start | End | Sequence |
1 | 4 | 25 | KRRIKKIDNITARQVTFSKRRR |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription activator that mediates floral transition in response to vernalization. Promotes inflorescence fate in apical meristems. Acts in a dosage-dependent manner. Probably involved in the transduction of RLK-mediated signaling (e.g. IMK3 pathway). Together with AP1 and SVP, controls the identity of the floral meristem and regulates expression of class B, C and E genes. When associated with SOC1, mediates effect of gibberellins on flowering under short-day conditions, and regulates the expression of LEAFY (LFY), which links floral induction and floral development. Confers inflorescence characteristics to floral primordia and early flowering. {ECO:0000269|PubMed:12451184, ECO:0000269|PubMed:12609028, ECO:0000269|PubMed:12881501, ECO:0000269|PubMed:14716314, ECO:0000269|PubMed:16679456, ECO:0000269|PubMed:18339670, ECO:0000269|PubMed:18466303, ECO:0000269|PubMed:18694458, ECO:0000269|PubMed:19656343}. |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Induced by vernalization in a FLC-independent manner. Repressed by the floral homeotic genes AP1, LFY and SEP3 in emerging floral meristems to establish a floral identity and prevent inflorescence fate. Up-regulated at the shoot apex by SOC1. {ECO:0000269|PubMed:12609028, ECO:0000269|PubMed:14716314, ECO:0000269|PubMed:17428825, ECO:0000269|PubMed:18339670, ECO:0000269|PubMed:18694458}. |
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 | JQ906707 | 0.0 | JQ906707.1 Brassica napus clone AGL24-1 MADS-box protein AGL24 (AGL24) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_018461368.1 | 1e-137 | PREDICTED: MADS-box protein AGL24-like isoform X2 | ||||
Swissprot | O82794 | 1e-113 | AGL24_ARATH; MADS-box protein AGL24 | ||||
TrEMBL | A0A397L644 | 1e-134 | A0A397L644_BRACM; Uncharacterized protein | ||||
STRING | Bra019221.1-P | 1e-134 | (Brassica rapa) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM14511 | 15 | 21 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT4G24540.1 | 3e-96 | AGAMOUS-like 24 |