Proteomic Analysis

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	include cRAP contaminants in the table

Dataset provenance & search parameters — PXD041235

SpeciesNematostella vectensis

TissueLarvae/PrimaryPolyps/Juveniles

PRIDE accessionPXD041235

Statusreprocessed

Search engineComet 2026.01

Reference proteomeCnidoSite reference proteome

Enzymenone (endogenous peptides)

Missed cleavages2

Precursor tolerance5 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)

Proteins385

Peptides (q≤0.01)1393

PSMs (q≤0.01)3147

reprocessed against the CnidoSite reference proteome

1 cRAP contaminant protein (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_001628894.1	NVECT_XP_001628894.1	3	2	6	516	0.00104603	rho GDP-dissociation inhibitor 1 [Nematostella vectensis]
XP_001632054.1	NVECT_XP_001632054.1	3	2	7.5	480	0.00104603	uncharacterized protein LOC5511662 [Nematostella vectensis]
XP_001634475.2	NVECT_XP_001634475.2	3	2	15.2	198	0.00104603	peptidyl-prolyl cis-trans isomerase H [Nematostella vectensis]
XP_001636622.2	NVECT_XP_001636622.2	3	2	2.1	572	0.00104603	putative amidohydrolase YtcJ [Nematostella vectensis]
XP_001637334.2	NVECT_XP_001637334.2	3	2	3	336	0.00104603	octopamine receptor [Nematostella vectensis]
XP_001637935.2	NVECT_XP_001637935.2	3	2	17.2	203	0.00104603	meprin A subunit beta isoform X1 [Nematostella vectensis]
XP_001638548.2	NVECT_XP_001638548.2	3	2	0.6	3186	0.00409836	uncharacterized protein LOC5518595 [Nematostella vectensis]
XP_032230569.1	NVECT_XP_032230569.1	3	2	15.4	182	0.00104603	uncharacterized protein LOC116614082 [Nematostella vectensis]
XP_032232434.2	NVECT_XP_032232434.2	3	2	1.2	1075	0.00275482	double-strand break repair protein MRE11 isoform X1 [Nematostella vectensis]
XP_032236147.2	NVECT_XP_032236147.2	3	2	3.8	682	0.00104603	cyanocobalamin reductase / alkylcobalamin dealkylase [Nematostella vectensis]
XP_048577450.1	NVECT_XP_048577450.1	3	2	2.4	735	0.00104603	ribosomal protein S6 kinase alpha-2-like isoform X2 [Nematostella vectensis]
XP_048578359.1	NVECT_XP_048578359.1	3	2	16.3	123	0.00104603	uncharacterized protein LOC116619995 [Nematostella vectensis]
XP_048590225.1	NVECT_XP_048590225.1	3	2	3.2	886	0.00104603	sorbin and SH3 domain-containing protein 1 homolog isoform X2 [Nematostella vectensis]
XP_048590721.1	NVECT_XP_048590721.1	3	2	9.8	498	0.00104603	doublecortin domain-containing protein 2 isoform X2 [Nematostella vectensis]
XP_001622522.2	NVECT_XP_001622522.2	2	2	15.6	141	0.00193986	growth arrest and DNA damage-inducible protein GADD45 gamma [Nematostella vectensis]
XP_001623434.2	NVECT_XP_001623434.2	2	2	7.4	108	0.00104603	E3 ubiquitin-protein ligase RNF146 isoform X2 [Nematostella vectensis]
XP_001624423.3	NVECT_XP_001624423.3	2	2	4.4	294	0.00104603	uncharacterized protein LOC5503338 [Nematostella vectensis]
XP_001625108.2	NVECT_XP_001625108.2	2	2	13.4	142	0.00104603	tetratricopeptide repeat protein 28 [Nematostella vectensis]
XP_001625976.2	NVECT_XP_001625976.2	2	2	26.9	130	0.00104603	uncharacterized protein LOC5505112 [Nematostella vectensis]
XP_001628294.2	NVECT_XP_001628294.2	2	2	31.9	113	0.00193986	histone-lysine N-methyltransferase SUV39H2 [Nematostella vectensis]
XP_001637552.2	NVECT_XP_001637552.2	2	2	3.8	852	0.00104603	uncharacterized protein LOC5517584 [Nematostella vectensis]
XP_001638124.3	NVECT_XP_001638124.3	2	2	6.6	888	0.00104603	transcription initiation factor TFIID subunit 9B isoform X1 [Nematostella vectensis]
XP_001640349.2	NVECT_XP_001640349.2	2	2	22.2	126	0.00104603	histone H1-delta [Nematostella vectensis]
XP_032226207.2	NVECT_XP_032226207.2	2	2	8.8	182	0.00104603	semaphorin-5B [Nematostella vectensis]
XP_032228933.2	NVECT_XP_032228933.2	2	2	14.7	116	0.00104603	uncharacterized protein LOC116612384 [Nematostella vectensis]

Total protein records: 385 (+1 contaminant hidden)

Show: proteins per page