Identification of novel proteins affected by rotenone in mitochondria of dopaminergic cells

Jin, Jinghua; Davis, Jeanne; Zhu, David; Kashima, Daniel T; Leroueil, Marc; Pan, Catherine; Montine, Kathleen S; Zhang, Jing

doi:10.1186/1471-2202-8-67

BMC Neuroscience

Table 1 Mitochondrial proteins affected by rotenone treatment

From: Identification of novel proteins affected by rotenone in mitochondria of dopaminergic cells

Increased ≥ two-fold after rotenone treatment
protein	Description	ASAPRatio*	Ref(s) for relevance to neurodegenerative disease
IPI00319790	Dnaj (Hsp40) homolog, subfamily C, member 7	0
IPI00331385	Mdj11
IPI00371053	Similar to dnaj (Hsp40) homolog, subfamily C, member 7
IPI00128647	Crumbs-like protein 1 precursor	0
IPI00204778 (IPI00129395)	Large neutral amino acids transporter small, subunit 1	0
IPI00331577	Solute carrier family 7 (Cationic amino acid transporter y+ system) member 5
IPI00223004	Peroxisomal CA-dependent solute carrier homolog	0
IPI00208799	Solute carrier organic anion transporter family member 1A5	0
IPI00130878	Voltage-dependent T-type calcium channel alpha-1H subunit	0
IPI00388311	Ensembl_locations(Chr-bp):10-14622136
IPI00189595	Voltage-dependent T-type calcium channel alpha-1H subunit
IPI00213584	Alanine – glyoxylate aminotransferase 2 mitochondrial precursor	0
IPI00365283	Similar to capping protein beta subunit, isoform 2	0
IPI00406800	Splice isoform 1 of P47757 F-actin capping protein beta subunit
IPI00113992	GDP-mannose pyrophosphorylase B homolog	0
IPI00153603	28S ribosomal protein s18c, mitochondrial precursor	0
IPI00372556	Similar to NG26	0
IPI00130339	Protein BAT5
IPI00123138	Leucyl-trna synthetase	0
IPI00116966	Asparagine synthetase	0
IPI00406634	Ensembl_locations(Chr-bp):8-124923273	0	[48]
IPI00170128 (IPI00327108)	Paraplegin
IPI00134390	Microsomal dipeptidase precursor	0
IPI00200392	SMHS2	0
IPI00177183	RIKEN cDNA 4833427E09 gene
IPI00116913	Laminin alpha-5 chain precursor	0
IPI00331507 (IPI00325517)	Cullin homolog 5	0
IPI00135708	Dual specificity mitogen-activated protein kinase kinase 2	0	[49]
IPI00407256	Mitogen activated protein kinase kinase 2
IPI00231331	Dual specificity mitogen-activated protein kinase kinase 2
IPI00118384	14-3-3 protein epsilon	0
(IPI00325135)
IPI00309516	Hedgehog-interacting protein	0
IPI00318010	Polycystic kidney disease 1-like 2	0
IPI00368473	Nuclear mitotic apparatus protein 1	0
IPI00371741	Similar to zinc finger protein TZF-L	0
IPI00408182	Tmc3 protein	0
IPI00222063	Weakly similar to hypothetical 71.7 kda protein	0
IPI00222264	HRIHFB2003 protein homolog	0
IPI00366079	Similar to expressed sequence AL022641	0.02
IPI00163011	Thioredoxin domain containing protein 5 precursor
IPI00396730	Growth differentiation factor 10	0.1 ± 0.02
IPI00165799	UBX domain-containing protein 2	0.12 ± 0.1
IPI00371952	Similar to RIKEN cDNA 1300013G12
IPI00129470	Ran gtpase-activating protein 1	0.13 ± 0.03
IPI00319167	Hydrocephalus inducing	0.13 ± 0.05
IPI00310128	Tissue inhibitor of metalloproteinase 2	0.15 ± 0.02
IPI00132801	Glucagon-like peptide 1 receptor precursor	0.22 ± 0.05
IPI00311576	Testis expressed gene 10	0.24 ± 0.08
IPI00400137	RIKEN cDNA 1200011N24	0.27 ± 0.05
IPI00403336	MKIAA0567 protein
IPI00117657	Dynamin-like 120 kda protein, mitochondrial precursor
IPI00341975	RIKEN cDNA 6430598A04 gene	0.27 ± 0.09
IPI00317309	Annexin A5	0.27 ± 0.12	[50]
IPI00231954	6-phosphofructokinase, type C	0.31 ± 0.06
IPI00113824	Basement membrane-specific heparan sulfate proteoglycan core protein precursor	0.33 ± 0.09
IPI00132276 (IPI00210971)	Vesicle-associated membrane protein 3	0.34 ± 0.07
IPI00210089	Voltage-gated sodium channel	0.35 ± 0.06	[51]
IPI00110560	Talin 1	0.36 ± 0.06
IPI00362014	similar to talin
IPI00191107	Similar to mitochondrial ribosomal protein S21	0.37 ± 0.16
IPI00391281	Ensembl_locations(Chr-bp):2-190609002
IPI00127069	Sideroflexin 2	0.38 ± 0.05	[52]
IPI00400079	Splice isoform 1 of Q9JLT4 Thioredoxin reductase 2, mitochondrial precursor	0.4 ± 0.19
IPI00124699	Thioredoxin reductase 2
IPI00403407	Adult male stomach cDNA, RIKEN full-length enriched library, clone:2210009O12 product:thioredoxin reductase 2, full insert sequence
IPI00350590	Splice isoform 4 of Q9JLT4 Thioredoxin reductase 2, mitochondrial precursor
IPI00207072	NADH-ubiquinone oxidoreductase 13 kda-A subunit, mitochondrial precursor	0.41 ± 0.13
IPI00330862	Villin 2	0.42 ± 0.07
IPI00111460	Williams-Beuren syndrome chromosome region 16 protein homolog	0.46 ± 0.12
IPI00189798	Similar to Williams-Beuren syndrome chromosome region 16 homolog
IPI00112935	Serine hydroxymethyltransferase	0.47 ± 0.06	[53]
IPI00131577	Heme oxygenase 1	0.47 ± 0.12	[54]
IPI00177038	Actin-like protein 2	0.47 ± 0.17
IPI00400012	Similar to Actin-like protein 2 (Actin-related protein 2)
IPI00362072	Similar to actin-related protein 2
IPI00364385	Similar to RIKEN cDNA 5730406I15	0.5 ± 0.19
IPI00228236	Microsomal signal peptidase 25 kda subunit
Decreased ≥ two-fold after rotenone treatment
IPI00212082	Ensembl_locations(Chr-bp):1-153887103	2.03 ± 0.62
IPI00368435	Similar to Ten-m4
IPI00157497	Ten-m4
IPI00351867	Odd Oz\ten-m homolog 4
IPI00210503	Long-chain-fatty-acid – coa ligase 4	2.04 ± 0.44
IPI00403180 (IPI00378474)	Similar to mitochondrial isoleucine trna synthetase	2.06 ± 0.22
IPI00408243	Similar to single-stranded DNA binding protein	2.07 ± 0.19
IPI00124980	Prolactin regulatory element-binding protein	2.09 ± 0.48
IPI00229040	Retinol dehydrogenase 13	2.15 ± 2.41
IPI00198369	Sorting nexin 1	2.21 ± 0.6
IPI00125441	Sorting nexin 1
IPI00124120	Sacsin	2.26 ± 0.38
IPI00373012	Similar to sacsin
IPI00364603	Similar to RNA-binding protein EWS	2.33 ± 0.31
IPI00191745	Similar to coproporphyrinogen oxidase	2.38 ± 0.41
IPI00192034 (IPI00114375)	Dihydropyrimidinase related protein-2	2.46 ± 0.44
IPI00285485	Protein kinase C-binding protein NELL2 precursor	2.57 ± 0.61
IPI00136067	Jagged 2 precursor	2.73 ± 0.46
IPI00365920	Jagged 2
IPI00311509	Aladin	2.9 ± 0.64
IPI00205182	Interleukin-6 receptor alpha chain precursor	3.03 ± 0.48
IPI00206288	interleukin 6 receptor
IPI00344360	Transcription termination factor, mitochondrial	4 ± 1.42	[55]
IPI00370029	Similar to NG28	4.43 ± 0.97
IPI00378753	Similar to aminopeptidase N	4.68 ± 0.99
IPI00405386	T-complex protein 10a	5.36 ± 0.87
IPI00230453	Similar to VIP36-like protein precursor (Lectin, mannose-binding 2-like)	5.45 ± 0.6
IPI00357887	Similar to lectin, mannose-binding 2-like
IPI00123314	Sonic hedgehog protein precursor	5.47 ± 0.98	[56]
IPI00196054 (IPI00125256)	C-C chemokine receptor type 2	6.4 ± 1.67
IPI00353420	Cytoskeletal protein	7.56 ± 1.41
IPI00388450	Protein tyrosine phosphatase, receptor type, U	8 ± 1.03
IPI00338565	Mutant fibrillin-1	8.39 ± 2.97
IPI00122438	Fibrillin 1 precursor
IPI00229434	Apoptosis stimulating of p53 protein 2	38.26 ± 2.99
IPI00269076	Adenylate kinase 2	999
IPI00214038 (IPI00118120)	Myosin Va	999
IPI00393437	Ensembl_locations(Chr-bp):8-80002855
IPI00405881	Ensembl_locations(Chr-bp):9-77611564
IPI00331016	Similar to SEC24 related gene family, member B	999
IPI00372727	Similar to Protein transport protein Sec24B (SEC24-related protein B)
IPI00309437	ALDR protein	999
IPI00387535	Fatty acid coenzyme A ligase, long chain 3	999
IPI00169772	Long-chain-fatty-acid – coA ligase 3
IPI00330207	Splicing factor 3B subunit 1	999	[57]
IPI00366952	Splicing factor 3b, subunit 1, 155kd
IPI00118235	Mitochondrial 60S ribosomal protein L3	999
IPI00115094	[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial precursor	999
IPI00409229	Ensembl_locations(Chr-bp):7-120047962
IPI00204344	[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase, mitochondrial precursor
IPI00324180	Breast cancer type 2 susceptibility protein homolog	999
IPI00366614	Breast cancer susceptibility protein BRCA2
IPI00118021	Gtrgeo22	999
IPI00313998	Sulfide:quinone oxidoreductase, mitochondrial precursor	999
IPI00357889	Similar to 28S ribosomal protein S9, mitochondrial precursor (MRP-S9)	999
IPI00132700	39S ribosomal protein L35, mitochondrial precursor	999
IPI00189766	Membrane associated progesterone receptor component 1	999
IPI00208648	Disks large-associated protein 2	999
IPI00117912	Semaphorin 5B precursor	999
IPI00400269	Hypothetical protein
IPI00365296	Similar to sema domain, seven thrombospondin repeats (type 1 and type 1-like), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 5B
IPI00403907	Sema domain, seven thrombospondin repeats (type 1 and type 1-like), transmembrane domain (TM) and short cytoplasmic domain
IPI00127131	Osa1 nuclear protein	999
IPI00113214	Ubiquitin carboxyl-terminal hydrolase 5	999	[58]
IPI00118333	RW1 protein	999
IPI00362105	Similar to proteasome 26S ATPase subunit 6	999
IPI00125971	26S protease regulatory subunit S10B
IPI00231757	Proteasome (prosome, macropain) subunit, alpha type 2	999	[59]
IPI00404117	Proteasome subunit alpha type 2
IPI00318970	Proteasome (Prosome, macropain) subunit, alpha type 2
IPI00337930	RIKEN cDNA 4930432B04	999
IPI00203604	Brain protein 44-like protein	999
IPI00402961	Ensembl_locations(Chr-bp):12-106426680
IPI00124292	Brain protein 44-like protein
IPI00406403	Ensembl_locations(Chr-bp):Un_random_NT_060620-5611	999
IPI00381837	similar to putative pheromone receptor
IPI00372549	Similar to MHC class I cell surface glycoprotein	999
IPI00367751	Similar to pecanex 1	999
IPI00365997	Similar to PHD finger protein 2	999
IPI00114424	RIKEN cDNA D930036F22 gene	999
IPI00326141	Augmenter of liver regeneration	999
IPI00191045	Similar to zinc finger protein 296	999
IPI00210183	Nuclear receptor binding factor-1	999

IPI: International protein index. ASAP Ratio: Automated Statistical Analysis of Protein abundance ratio. The results are expressed as ¹²C (DMSO)/¹³C (Rotenone). *: Ratio was expressed as 0 and 999 when only the ¹³C- and ¹²C-labeled peptides were found, respectively, in the sample. Proteins sharing the same peptides but with different protein identification numbers are listed in one cell.

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ISSN: 1471-2202

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