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 | XP_013610043.1 | ||||||||
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; Brassica
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Family | MIKC_MADS | ||||||||
Protein Properties | Length: 244aa MW: 28846.6 Da PI: 6.8473 | ||||||||
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 | 78.4 | 5e-25 | 9 | 59 | 1 | 51 |
S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS SRF-TF 1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 k+ienk+ rqvtfskRrng++KK ELSvLCda + +i+fs tgkl y+s XP_013610043.1 9 KKIENKTSRQVTFSKRRNGLIKKTRELSVLCDAHIGLIVFSATGKLTQYCS 59 68***********************************************96 PP | |||||||
2 | K-box | 48.2 | 4.6e-17 | 87 | 166 | 15 | 95 |
K-box 15 eslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLr 95 l++e++ L++e+ +L+ +R + G dL s+ eL LeqqLe+s+ k+R++K ell +q+ +l +k ++l+++n+++ XP_013610043.1 87 DDLRHEIEILRRETCKLELRLRPYHGHDLASIPPHELDGLEQQLEHSVHKVRERK-ELLQQQLGNLSRKRRMLEDDNNNMY 166 56899************************************************99.799******************9976 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SMART | SM00432 | 7.5E-39 | 1 | 60 | IPR002100 | Transcription factor, MADS-box |
PROSITE profile | PS50066 | 30.347 | 1 | 61 | IPR002100 | Transcription factor, MADS-box |
SuperFamily | SSF55455 | 2.75E-30 | 2 | 85 | IPR002100 | Transcription factor, MADS-box |
CDD | cd00265 | 3.34E-42 | 2 | 79 | No hit | No description |
PRINTS | PR00404 | 2.0E-27 | 3 | 23 | IPR002100 | Transcription factor, MADS-box |
PROSITE pattern | PS00350 | 0 | 3 | 57 | IPR002100 | Transcription factor, MADS-box |
Pfam | PF00319 | 2.9E-24 | 10 | 57 | IPR002100 | Transcription factor, MADS-box |
PRINTS | PR00404 | 2.0E-27 | 23 | 38 | IPR002100 | Transcription factor, MADS-box |
PRINTS | PR00404 | 2.0E-27 | 38 | 59 | IPR002100 | Transcription factor, MADS-box |
Pfam | PF01486 | 1.1E-16 | 85 | 169 | IPR002487 | Transcription factor, K-box |
PROSITE profile | PS51297 | 11.892 | 86 | 175 | 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: 244 aa Download sequence Send to blast |
MGRGKIEIKK IENKTSRQVT FSKRRNGLIK KTRELSVLCD AHIGLIVFSA TGKLTQYCSE 60 HSNMPQLIDR YLTKEGLQLP DLNDDRDDLR HEIEILRRET CKLELRLRPY HGHDLASIPP 120 HELDGLEQQL EHSVHKVRER KELLQQQLGN LSRKRRMLED DNNNMYRWLH DEHRTGIEFQ 180 QAEIETKPME YQQFLEHVQY YNDHQQQQSS VLQLPTLPSE IDLSYHLQLA QPNLQNDPTI 240 TKVD |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
5f28_A | 5e-17 | 1 | 71 | 1 | 69 | MEF2C |
5f28_B | 5e-17 | 1 | 71 | 1 | 69 | MEF2C |
5f28_C | 5e-17 | 1 | 71 | 1 | 69 | MEF2C |
5f28_D | 5e-17 | 1 | 71 | 1 | 69 | MEF2C |
Search in ModeBase |
Nucleic Localization Signal ? help Back to Top | |||
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No. | Start | End | Sequence |
1 | 151 | 156 | SRKRRM |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL STAGE: Expressed during seed development. | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in buds, flowers and immature seeds, but not in roots, stems, leaves, seedlings or siliques valves. Expression in seed coat is confined to the endothelium layer. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription factor involved in the developmental regulation of the endothelium and in the accumulation of proanthocyanidins (PAs) or condensed tannins which give the seed its brown pigmentation after oxidation (PubMed:12368498, PubMed:16080001). Necessary for the normal activation of the BANYULS promoter in the endothelium body (PubMed:12368498). Is required, together with AGL11/STK for the maternal control of endothelium formation, which is essential for female gametophyte development and fertilization, and seed formation (PubMed:22176531). Interacts genetically with AGL1/SHP1 and AGL5/SHP2 in a partially antagonistic manner and represses AGL1/SHP1, AGL5/SHP2, and AGL8/FUL during flower development. Is essential for the coordination of cell divisions in ovule, seed coat development and endosperm formation (PubMed:27776173). Mediates the crosstalk between endothelium and nucellus to ensure proper seed formation. Functions redundantly with AGL63/GOA to repress nucellus growth and promote its degeneration. Represses the negative regulator of autophagy and programmed cell death HVA22D in the proximal nucellus (PubMed:27233529). Binds specifically to the CArG box DNA sequence 5'-CC (A/T)6 GG-3' (PubMed:16080001). {ECO:0000269|PubMed:12368498, ECO:0000269|PubMed:16080001, ECO:0000269|PubMed:22176531, ECO:0000269|PubMed:27233529, ECO:0000269|PubMed:27776173}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | XP_013610043.1 |
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 | HM449989 | 0.0 | HM449989.1 Brassica napus cultivar DH12075 MADS-box DNA-binding domain transcription factor (TT16.4) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_013610043.1 | 0.0 | PREDICTED: protein TRANSPARENT TESTA 16-like isoform X2 | ||||
Swissprot | Q8RYD9 | 1e-128 | TT16_ARATH; Protein TRANSPARENT TESTA 16 | ||||
TrEMBL | I6LWU0 | 1e-163 | I6LWU0_BRANA; MADS-box DNA-binding domain transcription factor | ||||
TrEMBL | R4I438 | 1e-163 | R4I438_BRAOL; MADS-box DNA-binding domain transcription factor | ||||
TrEMBL | R4I4M7 | 1e-163 | R4I4M7_BRACM; MADS-box DNA-binding domain transcription factor | ||||
STRING | Bo9g014270.1 | 1e-160 | (Brassica oleracea) |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT5G23260.2 | 1e-124 | MIKC_MADS family protein |