Phylogenetic analysis of methionine synthesis genes from Thalassiosira pseudonana

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Table 1 Predicted target peptides of selected proteins of Thalassiosira pseudonana

Protein	Protein ID	Length	Loc	RC	Mito	Secr	Other	TP length	Cleavage site	CD start
Aspartate kinase	29008	936	S	5	0.437	0.54	0.034	19	VTS-FAP	90
Aspartate kinase	269371	619	S	1	0.033	0.887	0.078	26	IGA-FSP	144
Aspartate semialdehyde dehydrogenase	32577	345	_	2	0.074	0.121	0.859	–		6
Homoserine dehydrogenase	40655	435	_	1	0.048	0.096	0.926	–		5
Homoserine dehydrogenase	24587	502	_	4	0.271	0.15	0.552	–		128
Homoserine dehydrogenase	29144	433	_	3	0.249	0.045	0.775	–		1
Homoserine acetyltransferase	12141	375	_	1	0.081	0.062	0.938	–		65
Homoserine kinase	28592	358	M	5	0.439	0.082	0.412	36	VPA-SSA	28
Cystathionine β-lyase-like	269520	456	M	5	0.49	0.065	0.459	66	SAH-DGS	1
Cystathionine γ-synthase-like	9830	381	_	1	0.037	0.114	0.95	–		61
Methionine γ-lyase-like	11993	487	M	3	0.765	0.025	0.257	39	ENK-HAT	45
Methionine synthase	693	1,359	_	2	0.123	0.066	0.878	–		85
SAM synthetase	21815	465	_	2	0.098	0.076	0.886	–		4
SAM synthetase	39946	450	_	3	0.247	0.059	0.741	–		65
Glutamylcysteine synthetase	13064	636	M	5	0.57	0.053	0.445	36	NRV-KDL	231
Glutathione synthetase	29212	533	_	3	0.044	0.298	0.826	–		6

The first two columns “ProteinID” and “Length” contain entry numbers of protein models and its amino acids length. In the “Loc” column is the predicted localization: S secreted, M mitochondrial, _ any other localization. RC stands for Reliability Class of the prediction (scale: 1 to 5, where 1 is the best). Columns titled “mito”, “secr”, “other” contain final NN scores on which the prediction is based for mitochondrial, secretion and other localization; respectively. The “TP length” and “cleavage site” columns present predicted presequence lengths and the respective cleavage site motif. The “CD Start” column contains lengths of N-terminal sequences preceding Conserved Catalytical Domains of respective proteins.