. Author manuscript; available in PMC: 2012 Oct 19.

Published in final edited form as: J Proteomics. 2011 Apr 13;74(11):2417–2429. doi: 10.1016/j.jprot.2011.03.031

Table 1. ARP-labeled 2-alkenal modified peptides identified from rat cardiac mitochondrial proteins.

Summary of the mitochondrial proteins modified by lipid peroxidation derived 2-alkenals and subsequently labeled with ARP and identified by tandem mass spectrometry. The MS/MS identified peptide sequences containing the ARP label and 2-alkenal modification from each of the corresponding carbonylated proteins is shown. The amino acid residue and chemical nature of the modification are indicated for each case. Biological and functional assignments were made on the basis of information from the NCBI (www.ncbi.nlm.nih.gov/Pubmed) and the UniProt Knowledgebase (http: http://www.uniprot.org) websites.

Biological Function	SwissProt ID¹	UniProt Accession	Protein Name	Peptide Sequence²	Modified Residue	Modification
Respiratory chain	AT5F1_RAT	P19511	ATP synthase B chain	C*IGDLK^a,^b	C239	ARP-acrolein
	ATP5H_RAT	P31399	ATP synthase D chain	NC*AQFVTGSQAR^a,^b,^c	C100	ARP-acrolein
	ATPA_RAT	P15999	ATP synthase subunit alpha	GCSMGEYFR^a,^b,^c,^d	C294	ARP-acrolein
				SGC*SMGEYFR^a,^b,^c,^d	C294	ARP-acrolein
				YSGC*SMGEYFR^a,^b,^d	C294	ARP-acrolein
				LAPYSGC*SMGEYFR^a,^c	C294	ARP-acrolein
	ATPB_RAT	P10719	ATP synthase subunit beta	H*GGYSVFAGVGER^a,^b,^c,^d	H227	ARP-crotonaldehyde
	ATPG_RAT	P35435	ATP synthase gamma chain	GLC*GAIHSSVAK^a,^b,^c	C78	ARP-acrolein
	ATPG_RAT	P35435	ATP synthase gamma chain	H*SDQFLVSFK^a,^b	H120	ARP-acrolein
	ATPO_RAT	Q06647	ATP synthase O subunit	GEVPC*TVTTAFPLDEAVLSELK^a,^b,^c	C141	ARP-acrolein
	CX6B1_MOUSE (EDM07730)	Q91YT0	Cytochrome c oxidase subunit VIb isoform 1	GGDVSVC*EWYR^a,^c	C54	ARP-acrolein
	NDUV1_MOUSE (AAH83709)	Q91YT0	NADH dehydrogenase [ubiquinone] flavoprotein 1	QIEGHTIC*ALGDGAAWPVQGLIR^a	C425	ARP-acrolein
	QCR1_RAT	Q68FY0	Ubiquinol-cytochrome-c reductase complex core protein 1	NALISHLDGTTPVC*EDIGR^a,^b,^c	C410	ARP-acrolein
				YFYDQC*PAVAGYGPIEQLSDYNR^b	C453	ARP-acrolein
	QCR2_RAT	P32551	Ubiquinol-cytochrome-c reductase complex core protein 2	NALANPLYC*PDYR^a,^b,^c	C191	ARP-acrolein, ARP-HNE
				NPLYC*PDYR^a,^d	C191	ARP-acrolein
	DHSA_RAT	Q920L2	Succinate dehydrogenase [ubiquinone] flavoprotein subunit	GHSLLHTLYGR^a,^b	H190	ARP-acrolein
Transport	Q6IRH6_RAT	Q6IRH6	Slc25a3 protein	AVEEQYSC*EYGSGR^b,^d	C52	ARP-acrolein
	ADT1_RAT	Q05962	ADP/ATP translocase 1	GADIMYTGTVDC*WR^a,^b,^c	C256	M(ox), ARP-acrolein
				TGTVDC*WR^a,^c,^d	C256	ARP-acrolein
				EFNGLGDC*LTK^a,^c	C159	ARP-acrolein
				YFAGNLASGGAAGATSLC* ^a,^d	C128	ARP-acrolein
				C*FVYPLDFAR^a,^b,^c	C128	ARP-acrolein
				DIMYTGTVDC*WR^b	C256	ARP-acrolein
				KGADIMYTGTVDC*WR^b	C256	ARP-acrolein
	ADT2_RAT	Q09073	ADP/ATP translocase 2	VSFAK*DFLAGGVAAAISK^a,^c	K10	ARP-HNE
	ADT2_RAT	Q09073	ADP/ATP translocase 2	TGTLDC*WR^a,^d	C257	ARP-acrolein
	VDAC1_RAT	Q9Z2L0	Voltage-dependent anion-selective channel protein 1	YQVDPC*ACFSAK^a,^b,^c	C232	ARP-acrolein
	VDAC3_RAT	Q9R1Z0	Voltage-dependent anion-selective channel protein 3	VC*NYGLIFTQK^a	C65	ARP-acrolein
TCA cycle	ACON_RAT	Q9ER34	Aconitate hydratase	VGLIGSC*TNSSYEDMGR^a,^b	C385	ARP-acrolein
	ACON_RAT	Q9ER34	Aconitate hydratase	VAVPSTIHC*DHLIEAQLGGEK^a	C126	ARP-acrolein
	IDHP_RAT	P56574	Isocitrate dehydrogenase [NADP]	C*ATITPDEAR^b	C184	ARP-acrolein
	IDHP_RAT	P56574	Isocitrate dehydrogenase [NADP]	DLAGC*IHGLSNVK^a	C416	ARP-acrolein
	MDHM_RAT	P04636	Malate dehydrogenase	ETEC*TYFSTPLLLGK^a,^b,^c	C285	ARP-acrolein, ARP-HHE
				TEC*TYFSTPLLLGK^a,^b,^d	C285	ARP-acrolein
				EGVIEC*SFVQSK^a	C275	ARP-acrolein
				GYLGPEQLPDC*LK^a	C89	ARP-acrolein
				TIIPLISQC*TPK^a	C212	ARP-acrolein
				GC*DVVVIPAGVPR^a	C93	ARP-acrolein
	QDPA_RAT	P26284	Pyruvate dehydrogenase E1 component alpha subunit	VDGMDILC*VR^b	C261	ARP-acrolein
				H*GFTFTR^a	H121	ARP-crotonaldehyde
	QDPB_RAT	P49432	Pyruvate dehydrogenase E1 component subunit beta	EGIEC*EVINLR^a	C263	ARP-acrolein
Oxidoreductase	ETFD_RAT	Q6UPE1	Electron transfer flavoprotein-ubiquinone oxidoreductase	AAQIGHTLSGAC*LDPAAFK^a,^b	C263	ARP-acrolein
	MMSA_RAT	Q02253	Methylmalonate-semialdehyde dehydrogenase	C*MALSTAVLVGEAK^a,^b	C317	ARP-acrolein
	NNTM_MOUSE (AAH91271)	Q61941	NAD(P) transhydrogenase	EANSIVITPGYGLC*AAK^a,^b,^c	C936	ARP-acrolein
Chaperone	CH60_RAT	P63039	60 kDa heat shock protein	C*EFQDAYVLLSEK^b	C237	ARP-acrolein
Lipid Metabolism	ACADL_RAT	P15650	Long-chain specific acyl-CoA dehydrogenase	C*IGAIAMTEPGAGSDLQGVR^a,^b,^c	C166	ARP-acrolein,ARP-βHA, ARP-HHE, ARP-HNE, ARP-ONE
Kinase	KCRB_RAT	P07335	Creatine Kinase B Type	LGYILTCPSNLGTGLR^a,^c	C283	ARP-acrolein
Kinase	KCRB_RAT	P07335	Creatine Kinase B Type	ILTCPSNLGTGLR^a,^d	C283	ARP-acrolein

Rat protein was not present in SwissProt database; thus gene bank accession number for the rat protein containing the equivalent peptide sequence is given.

An * marks the ARP-labeled 2-alkenal modified residue. All MS/MS spectra were visually inspected and fragment ions annotated manually; MS/MS spectra are available in the supplemental material.

Peptide identified by ESI-Q-TOF;

peptide identified by MALDI-TOF/TOF;

peptide identified in repeated biological sample preparations;

identified peptide sequence is semi-tryptic.