Proteomic Analysis

Peptides and proteins identified by re-processing the raw mass-spectrometry data of every proteomic dataset with a single documented pipeline (Comet 2026.01 against the CnidoSite reference proteome plus cRAP contaminants, with Percolator target-decoy FDR control). Search parameters are dataset-specific and are shown in full for each dataset; peptides were mapped onto CnidoSite gene models, so every row links to its gene page.

Dataset
Contaminants

Dataset provenance & search parameters — PXD033068

SpeciesNematostella vectensis
TissueEmbryos
PRIDE accessionPXD033068
Statusreprocessed
Search engineComet 2026.01
Reference proteomeCnidoSite reference proteome
Enzymetrypsin
Missed cleavages2
Precursor tolerance10 ppm
Fragment tolerance0.02 Da
Fixed modificationC+57.021464
Variable modificationM+15.9949
Decoy strategyComet internal reversed (1:1)
FDR (PSM)0.01
Quantificationspectral counting (PSMs)
Proteins3673
Peptides (q≤0.01)20212
PSMs (q≤0.01)93156
reprocessed against the CnidoSite reference proteome
17 cRAP contaminant protein s (keratins, trypsin, serum albumin …) were identified in this dataset and are excluded from the table below. Tick “include cRAP contaminants” to display them.
Gene Protein PSMs Unique peptides Coverage (%) Length Best q-value Description
XP_048577450.1 NVECT_XP_048577450.1 307 40 57.7 735 0.0000678288 ribosomal protein S6 kinase alpha-2-like isoform X2 [Nematostella vectensis]
XP_001641992.1 NVECT_XP_001641992.1 261 40 62.4 611 0.0000678288 protein LLP homolog [Nematostella vectensis]
XP_032228775.2 NVECT_XP_032228775.2 215 40 59.5 529 0.0000678288 REST corepressor 3 isoform X2 [Nematostella vectensis]
XP_048584729.1 NVECT_XP_048584729.1 122 40 22.3 2170 0.0000678288 myoferlin isoform X2 [Nematostella vectensis]
XP_001641859.1 NVECT_XP_001641859.1 278 38 54.6 810 0.0000678288 40S ribosomal protein S3 [Nematostella vectensis]
XP_032222131.1 NVECT_XP_032222131.1 141 38 31.7 1472 0.0000678288 universal stress protein PHOS32 [Nematostella vectensis]
XP_001628038.2 NVECT_XP_001628038.2 485 37 72.3 447 0.0000678288 neurofilament heavy polypeptide [Nematostella vectensis]
XP_032236333.1 NVECT_XP_032236333.1 163 37 57.1 862 0.0000678288 dual 3',5'-cyclic-AMP and -GMP phosphodiesterase 11 isoform X5 [Nematostella vectensis]
XP_032228618.2 NVECT_XP_032228618.2 733 36 76 470 0.0000678288 elongation factor 1-alpha, oocyte form [Nematostella vectensis]
XP_032232158.1 NVECT_XP_032232158.1 151 36 46.1 1026 0.0000678288 HMG box-containing protein 1 isoform X1 [Nematostella vectensis]
XP_048588810.1 NVECT_XP_048588810.1 294 35 61.4 412 0.0000678288 lactadherin [Nematostella vectensis]
XP_032226694.2 NVECT_XP_032226694.2 207 34 54.1 577 0.0000678288 moesin [Nematostella vectensis]
XP_048586761.1 NVECT_XP_048586761.1 194 34 53.9 729 0.0000678288 kielin/chordin-like protein [Nematostella vectensis]
XP_001626338.3 NVECT_XP_001626338.3 179 34 47 1118 0.0000678288 ubiquitin thioesterase OTU1 [Nematostella vectensis]
XP_032242600.2 NVECT_XP_032242600.2 176 34 44.7 912 0.0000678288 dermatan-sulfate epimerase-like protein [Nematostella vectensis]
XP_001636064.2 NVECT_XP_001636064.2 75 34 9.3 4655 0.0000678288 plasminogen receptor (KT) isoform X2 [Nematostella vectensis]
XP_032226624.1 NVECT_XP_032226624.1 255 33 56.9 722 0.0000678288 BRCA1-associated protein [Nematostella vectensis]
XP_032223482.2 NVECT_XP_032223482.2 163 33 29.8 1319 0.0000678288 blue-sensitive opsin isoform X1 [Nematostella vectensis]
XP_032219130.2 NVECT_XP_032219130.2 129 33 26.5 1644 0.0000678288 F-box protein SNE [Nematostella vectensis]
XP_048575734.1 NVECT_XP_048575734.1 162 32 48.6 675 0.0000678288 alkyldihydroxyacetonephosphate synthase, peroxisomal [Nematostella vectensis]
XP_001641661.2 NVECT_XP_001641661.2 122 32 31.4 1362 0.0000678288 nudix hydrolase 20, chloroplastic isoform X1 [Nematostella vectensis]
XP_032240508.2 NVECT_XP_032240508.2 319 31 63.4 413 0.0000678288 failed axon connections homolog isoform X2 [Nematostella vectensis]
XP_048584704.1 NVECT_XP_048584704.1 207 31 42.3 946 0.0000678288 uncharacterized protein LOC5499668 isoform X2 [Nematostella vectensis]
XP_048589031.1 NVECT_XP_048589031.1 193 31 49.8 669 0.0000678288 argininosuccinate lyase isoform X1 [Nematostella vectensis]
XP_001640692.2 NVECT_XP_001640692.2 159 31 44 727 0.0000678288 axin interactor, dorsalization-associated protein [Nematostella vectensis]
Total protein records: 3673  (+17 contaminants hidden)
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