Table 2.

Nitrated peptides identified in 250 μM peroxynitrite-treated rat brain homogenate (Spectrum Mill score of ≥ 9, corresponding to a false positive rate of < 2%).

Protein	Accession #	References	Peptide	References	Samples present	Average score
14-3-3 protein beta/alpha	P35213	Zhang et al., 2007; Ghesquière et al., 2009	(K)TAFDEAIAELDTLNEES$\text{Y}$k(D)*	Zhang et al., 2007; Ghesquière et al., 2009	2	15.60
14-3-3 protein epsilon	P62260	Zhang et al., 2007; Ghesquière et al., 2009	(K)AAFDDAIAELDTLSEES$\text{Y}$k(D)	Zhang et al., 2007; Ghesquière et al., 2009	3	20.24
14-3-3 protein theta	P68255	Zhang et al., 2007	(K)TAFDEAIAELDTLNEDS$\text{Y}$k(D)	Zhang et al., 2007	6	12.46
14-3-3 protein zeta/delta	P63102	Zhang et al., 2007; Stevens et al., 2008	(K)TAFDEAIAELDTLSEES$\text{Y}$k(D)	Zhang et al., 2007	6	18.41
			(R)$\text{Y}$LAEVAAGDDk(K)	Stevens et al., 2008; Ghesquière et al., 2009	2	12.74
Glutamate dehydrogenase 1, mitochondrial	P10860	Aulak et al., 2001; Reed et al., 2009	(K)V$\text{Y}$EGSILEADcDILIPAASEk(Q)		5	15.16
Hemoglobin subunit alpha-1/2	P01946	Li et al., 2011	(K)T$\text{Y}$FSHIDVSPGSAQVk(A)	Li et al., 2011	6	16.83
			(K)IGGHGGE$\text{Y}$GEEALQR(M)		4	16.22
Hemoglobin subunit beta-1	P02091	Zhang et al., 2007; Li et al., 2011	(R)$\text{Y}$FDSFGDLSSASAImGNPk(V)		5	13.12
Myelin basic protein S	P02688	Zhang et al., 2007; Stevens et al., 2008	(K)$\text{Y}$LATASTMDHAR(H)	Zhang et al., 2007; Stevens et al., 2008	5	15.92
			(R)TTH$\text{Y}$GSLPQk(S)	Zhang et al., 2007	3	14.13
Phosphoglycerate mutase 1	P25113	Zhang et al., 2007; Ghesquière et al., 2009; Reed et al., 2009	(R)FSGW$\text{Y}$DADLSPAGHEEAk(R)		5	17.87
Pyruvate kinase isozymes M1/M2	P11980	Kanski et al., 2005b; Ghesquière et al., 2009	(K)ITLDNA$\text{Y}$MEk(C) (R)LNFSHGTHE$\text{Y}$HAETIk(N)	Kanski et al., 2005b; Ghesquière et al., 2009	5	10.64
					3	19.75
Synapsin-2	Q63537		(K)VENH$\text{Y}$DFQDIASVVALTQTYATAEPFIDAk(Y)		2	10.05
Tubulin alpha-1B chain	P68370	Zhang et al., 2007; Ghesquière et al., 2009	(R)FDGALNVDLTEFQTNLVP$\text{Y}$PR(I)	Zhang et al., 2007	2	10.99
			(R)LSVD$\text{Y}$Gk(K)	Ghesquière et al., 2009	2	9.69
Tubulin beta-2A chain	P85108	Zhang et al., 2007; Stevens et al., 2008	(K)GH$\text{Y}$TEGAELVDSVLDVVR(K)	Stevens et al., 2008	6	15.24
			(K)LTTPTyGDLNHLVSATMSGVTTcLR(F)		2	13.5

^*Dimetylated lysine residues and carbimethylated cystene residues are denoted by lower case “k” and “c”, respectively. Nitrated tyrosine residues are denoted by a red upper case Y.