PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
|
Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
---|---|---|---|---|---|---|---|---|---|
TF ID | Rsa1.0_00473.1_g00005.1 | ||||||||
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
|
||||||||
Family | MIKC_MADS | ||||||||
Protein Properties | Length: 221aa MW: 25249.8 Da PI: 9.3585 | ||||||||
Description | MIKC_MADS family protein | ||||||||
Gene Model |
|
Signature Domain? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | SRF-TF | 93.1 | 1.4e-29 | 9 | 59 | 1 | 51 |
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 krien + rqvtfskRrng+lKKA+ELSvLCdaeva+iifs++ klye+ss Rsa1.0_00473.1_g00005.1 9 KRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPSSKLYEFSS 59 79***********************************************96 PP | |||||||
2 | K-box | 78.3 | 1.9e-26 | 81 | 170 | 9 | 98 |
K-box 9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaL 94 + + ++++++ e L k+ie+L+ ++R+llGe+++ +s++eLqqLe+qLe++l++iR+kK++ll+e+ie+l++ e++l +enk+L Rsa1.0_00473.1_g00005.1 81 KRDDNSQQSRGETYGLTKKIEQLEISKRKLLGEGIDACSIEELQQLENQLERGLTRIRAKKYQLLREEIEKLKEEERNLINENKEL 166 6678899999**************************************************************************** PP K-box 95 rkkl 98 ++kl Rsa1.0_00473.1_g00005.1 167 KEKL 170 *997 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
PROSITE profile | PS50066 | 31.413 | 1 | 61 | IPR002100 | Transcription factor, MADS-box |
SMART | SM00432 | 4.4E-40 | 1 | 60 | IPR002100 | Transcription factor, MADS-box |
CDD | cd00265 | 2.56E-41 | 3 | 70 | No hit | No description |
SuperFamily | SSF55455 | 1.96E-32 | 3 | 74 | IPR002100 | Transcription factor, MADS-box |
PROSITE pattern | PS00350 | 0 | 3 | 57 | IPR002100 | Transcription factor, MADS-box |
PRINTS | PR00404 | 5.6E-30 | 3 | 23 | IPR002100 | Transcription factor, MADS-box |
Pfam | PF00319 | 1.8E-26 | 10 | 57 | IPR002100 | Transcription factor, MADS-box |
PRINTS | PR00404 | 5.6E-30 | 23 | 38 | IPR002100 | Transcription factor, MADS-box |
PRINTS | PR00404 | 5.6E-30 | 38 | 59 | IPR002100 | Transcription factor, MADS-box |
Pfam | PF01486 | 2.6E-25 | 83 | 170 | IPR002487 | Transcription factor, K-box |
PROSITE profile | PS51297 | 15.313 | 86 | 176 | IPR002487 | Transcription factor, K-box |
Gene Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
GO Term | GO Category | GO Description | ||||
GO:0006355 | Biological Process | regulation of transcription, DNA-templated | ||||
GO:0010048 | Biological Process | vernalization response | ||||
GO:0048510 | Biological Process | regulation of timing of transition from vegetative to reproductive phase | ||||
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 |
---|
Protein Sequence Length: 221 aa Download sequence Send to blast |
MVRGKTEMKR IENATSRQVT FSKRRNGLLK KAFELSVLCD AEVALIIFSP SSKLYEFSSS 60 GMAKTIERYQ RRVKEIGINH KRDDNSQQSR GETYGLTKKI EQLEISKRKL LGEGIDACSI 120 EELQQLENQL ERGLTRIRAK KYQLLREEIE KLKEEERNLI NENKELKEKL HGMGAIVVAS 180 SSSTLSSSEV NMDENDNMEV ETGLFIGPPE TRQSKKTPPQ N |
3D Structure ? help Back to Top | ||||||
---|---|---|---|---|---|---|
PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
6byy_A | 1e-19 | 1 | 69 | 1 | 69 | MEF2 CHIMERA |
6byy_B | 1e-19 | 1 | 69 | 1 | 69 | MEF2 CHIMERA |
6byy_C | 1e-19 | 1 | 69 | 1 | 69 | MEF2 CHIMERA |
6byy_D | 1e-19 | 1 | 69 | 1 | 69 | MEF2 CHIMERA |
6bz1_A | 1e-19 | 1 | 69 | 1 | 69 | MEF2 CHIMERA |
6bz1_B | 1e-19 | 1 | 69 | 1 | 69 | MEF2 CHIMERA |
6bz1_C | 1e-19 | 1 | 69 | 1 | 69 | MEF2 CHIMERA |
6bz1_D | 1e-19 | 1 | 69 | 1 | 69 | MEF2 CHIMERA |
Search in ModeBase |
Functional Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | Probable transcription factor that promotes flowering, especially in response to vernalization by short periods of cold, in an FLC-inpedendent manner. {ECO:0000269|PubMed:16778081}. |
Cis-element ? help Back to Top | |
---|---|
Source | Link |
PlantRegMap | Rsa1.0_00473.1_g00005.1 |
Regulation -- Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | INDUCTION: Maintained at very low levels by the polycomb-group (PcG) proteins MSI1, CLF, and EMF2 via histone methylation (H3K27me3). Derepressed upon cold treatment (vernalization). {ECO:0000269|PubMed:16778081}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | |||
GenBank | AF312664 | 0.0 | AF312664.1 Arabidopsis thaliana MADS-box protein AGL19 (AGL19) mRNA, complete cds. | |||
GenBank | AY142523 | 0.0 | AY142523.1 Arabidopsis thaliana putative MADS box AGL protein (At4g22950) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_018444499.1 | 1e-158 | PREDICTED: agamous-like MADS-box protein AGL19 | ||||
Swissprot | O82743 | 1e-130 | AGL19_ARATH; Agamous-like MADS-box protein AGL19 | ||||
TrEMBL | A0A398ALC2 | 1e-137 | A0A398ALC2_BRACM; Uncharacterized protein | ||||
STRING | Bo1g031900.1 | 1e-134 | (Brassica oleracea) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM78 | 28 | 413 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT4G22950.1 | 1e-103 | AGAMOUS-like 19 |
Publications ? help Back to Top | |||
---|---|---|---|
|