ID MPPB_YEAST Reviewed; 462 AA. AC P10507; D6VYG9; DT 01-JUL-1989, integrated into UniProtKB/Swiss-Prot. DT 01-JUL-1989, sequence version 1. DT 27-MAR-2024, entry version 215. DE RecName: Full=Mitochondrial-processing peptidase subunit beta {ECO:0000303|PubMed:9299349}; DE EC=3.4.24.64 {ECO:0000269|PubMed:2007593, ECO:0000269|PubMed:9299349, ECO:0000269|PubMed:9654444}; DE AltName: Full=Beta-MPP; DE AltName: Full=Mitochondrial assembly protein 1 {ECO:0000303|PubMed:3044780}; DE AltName: Full=Processing enhancing protein {ECO:0000303|PubMed:3061797}; DE Short=PEP; DE Flags: Precursor; GN Name=MAS1 {ECO:0000303|PubMed:3044780}; GN Synonyms=MIF1 {ECO:0000303|PubMed:3061797}; GN OrderedLocusNames=YLR163C {ECO:0000312|SGD:S000004153}; GN ORFNames=L9632.10; OS Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast). OC Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; OC Saccharomycetales; Saccharomycetaceae; Saccharomyces. OX NCBI_TaxID=559292; RN [1] RP NUCLEOTIDE SEQUENCE [GENOMIC DNA], AND SUBCELLULAR LOCATION. RX PubMed=3044780; DOI=10.1002/j.1460-2075.1988.tb02961.x; RA Witte C., Jensen R.E., Yaffe M.P., Schatz G.; RT "MAS1, a gene essential for yeast mitochondrial assembly, encodes a subunit RT of the mitochondrial processing protease."; RL EMBO J. 7:1439-1447(1988). RN [2] RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. RC STRAIN=ATCC 204508 / S288c; RX PubMed=9169871; RA Johnston M., Hillier L.W., Riles L., Albermann K., Andre B., Ansorge W., RA Benes V., Brueckner M., Delius H., Dubois E., Duesterhoeft A., RA Entian K.-D., Floeth M., Goffeau A., Hebling U., Heumann K., RA Heuss-Neitzel D., Hilbert H., Hilger F., Kleine K., Koetter P., Louis E.J., RA Messenguy F., Mewes H.-W., Miosga T., Moestl D., Mueller-Auer S., RA Nentwich U., Obermaier B., Piravandi E., Pohl T.M., Portetelle D., RA Purnelle B., Rechmann S., Rieger M., Rinke M., Rose M., Scharfe M., RA Scherens B., Scholler P., Schwager C., Schwarz S., Underwood A.P., RA Urrestarazu L.A., Vandenbol M., Verhasselt P., Vierendeels F., Voet M., RA Volckaert G., Voss H., Wambutt R., Wedler E., Wedler H., Zimmermann F.K., RA Zollner A., Hani J., Hoheisel J.D.; RT "The nucleotide sequence of Saccharomyces cerevisiae chromosome XII."; RL Nature 387:87-90(1997). RN [3] RP GENOME REANNOTATION. RC STRAIN=ATCC 204508 / S288c; RX PubMed=24374639; DOI=10.1534/g3.113.008995; RA Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R., RA Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S., RA Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M., Cherry J.M.; RT "The reference genome sequence of Saccharomyces cerevisiae: Then and now."; RL G3 (Bethesda) 4:389-398(2014). RN [4] RP NUCLEOTIDE SEQUENCE [GENOMIC DNA]. RC STRAIN=ATCC 204508 / S288c; RX PubMed=17322287; DOI=10.1101/gr.6037607; RA Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., RA Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., RA Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J., RA Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G., Kolodner R.D., RA LaBaer J.; RT "Approaching a complete repository of sequence-verified protein-encoding RT clones for Saccharomyces cerevisiae."; RL Genome Res. 17:536-543(2007). RN [5] RP PROTEIN SEQUENCE OF 21-32, FUNCTION, AND CATALYTIC ACTIVITY. RX PubMed=2007593; DOI=10.1016/s0021-9258(18)38134-1; RA Yang M., Geli V., Oppliger W., Suda K., James P., Schatz G.; RT "The MAS-encoded processing protease of yeast mitochondria. Interaction of RT the purified enzyme with signal peptides and a purified precursor RT protein."; RL J. Biol. Chem. 266:6416-6423(1991). RN [6] RP FUNCTION. RX PubMed=3061797; DOI=10.1002/j.1460-2075.1988.tb03225.x; RA Pollock R.A., Hartl F.-U., Cheng M.Y., Ostermann J., Horwich A., RA Neupert W.; RT "The processing peptidase of yeast mitochondria: the two co-operating RT components MPP and PEP are structurally related."; RL EMBO J. 7:3493-3500(1988). RN [7] RP FUNCTION, CATALYTIC ACTIVITY, ACTIVITY REGULATION, INTERACTION WITH MAS2, RP AND MUTAGENESIS OF GLU-89; SER-133; TYR-198; LYS-234; PRO-249; THR-301; RP SER-333; LYS-364 AND ARG-400. RX PubMed=9299349; DOI=10.1006/jmbi.1997.1231; RA Luciano P., Geoffroy S., Brandt A., Hernandez J.F., Geli V.; RT "Functional cooperation of the mitochondrial processing peptidase RT subunits."; RL J. Mol. Biol. 272:213-225(1997). RN [8] RP FUNCTION, CATALYTIC ACTIVITY, COFACTOR, ACTIVITY REGULATION, AND RP MUTAGENESIS OF HIS-70. RX PubMed=9654444; DOI=10.1006/jmbi.1998.1858; RA Luciano P., Tokatlidis K., Chambre I., Germanique J.C., Geli V.; RT "The mitochondrial processing peptidase behaves as a zinc- RT metallopeptidase."; RL J. Mol. Biol. 280:193-199(1998). RN [9] RP LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS]. RX PubMed=14562106; DOI=10.1038/nature02046; RA Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., RA O'Shea E.K., Weissman J.S.; RT "Global analysis of protein expression in yeast."; RL Nature 425:737-741(2003). RN [10] RP PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-243, AND IDENTIFICATION BY RP MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. RX PubMed=18407956; DOI=10.1074/mcp.m700468-mcp200; RA Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H.; RT "A multidimensional chromatography technology for in-depth phosphoproteome RT analysis."; RL Mol. Cell. Proteomics 7:1389-1396(2008). RN [11] RP DISRUPTION PHENOTYPE. RX PubMed=25176146; DOI=10.1016/j.cmet.2014.07.024; RA Mossmann D., Voegtle F.N., Taskin A.A., Teixeira P.F., Ring J., RA Burkhart J.M., Burger N., Pinho C.M., Tadic J., Loreth D., Graff C., RA Metzger F., Sickmann A., Kretz O., Wiedemann N., Zahedi R.P., Madeo F., RA Glaser E., Meisinger C.; RT "Amyloid-beta peptide induces mitochondrial dysfunction by inhibition of RT preprotein maturation."; RL Cell Metab. 20:662-669(2014). RN [12] RP X-RAY CRYSTALLOGRAPHY (2.5 ANGSTROMS) OF 21-462 IN COMPLEX WITH MAS2; ZINC RP AND SUBSTRATES, AND ACTIVE SITE. RX PubMed=11470436; DOI=10.1016/s0969-2126(01)00621-9; RA Taylor A.B., Smith B.S., Kitada S., Kojima K., Miyaura H., Otwinowski Z., RA Ito A., Deisenhofer J.; RT "Crystal structures of mitochondrial processing peptidase reveal the mode RT for specific cleavage of import signal sequences."; RL Structure 9:615-625(2001). CC -!- FUNCTION: Catalytic subunit of the essential mitochondrial processing CC protease (MPP), which cleaves the mitochondrial sequence off newly CC imported precursors proteins (PubMed:2007593, PubMed:9299349, CC PubMed:9654444). Preferentially, cleaves after an arginine at position CC P2 (By similarity). {ECO:0000250|UniProtKB:Q03346, CC ECO:0000269|PubMed:2007593, ECO:0000269|PubMed:9299349, CC ECO:0000269|PubMed:9654444}. CC -!- CATALYTIC ACTIVITY: CC Reaction=Release of N-terminal transit peptides from precursor proteins CC imported into the mitochondrion, typically with Arg in position P2.; CC EC=3.4.24.64; Evidence={ECO:0000269|PubMed:2007593, CC ECO:0000269|PubMed:9299349, ECO:0000269|PubMed:9654444}; CC -!- COFACTOR: CC Name=Zn(2+); Xref=ChEBI:CHEBI:29105; CC Evidence={ECO:0000269|PubMed:9654444}; CC Note=Binds 1 zinc ion per subunit. {ECO:0000269|PubMed:11470436, CC ECO:0000269|PubMed:9654444}; CC -!- ACTIVITY REGULATION: Binding to MAS2 is required for catalytic activity CC (PubMed:9654444, PubMed:9299349). Inhibited by high levels (> 1uM) of CC zinc (PubMed:9654444). Inhibited by metal chelators CC ethylenediaminetetraacetic acid (EDTA) and O-phenanthroline CC (PubMed:9654444). {ECO:0000269|PubMed:9299349, CC ECO:0000269|PubMed:9654444}. CC -!- SUBUNIT: Heterodimer of MAS2 (alpha) and MAS1 (beta) subunits, forming CC the mitochondrial processing protease (MPP) in which MAS2 is involved CC in substrate recognition and binding and MAS1 is the catalytic subunit. CC {ECO:0000269|PubMed:11470436, ECO:0000269|PubMed:9299349}. CC -!- INTERACTION: CC P10507; P11914: MAS2; NbExp=4; IntAct=EBI-11212, EBI-11205; CC -!- SUBCELLULAR LOCATION: Mitochondrion matrix CC {ECO:0000269|PubMed:3044780}. CC -!- DISRUPTION PHENOTYPE: Simultaneous disruption of the mitochondrial CC presequence protease CYM1 results in synthetic lethality in respiratory CC conditions. {ECO:0000269|PubMed:25176146}. CC -!- MISCELLANEOUS: Present with 1360 molecules/cell in log phase SD medium. CC {ECO:0000269|PubMed:14562106}. CC -!- SIMILARITY: Belongs to the peptidase M16 family. {ECO:0000305}. CC --------------------------------------------------------------------------- CC Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms CC Distributed under the Creative Commons Attribution (CC BY 4.0) License CC --------------------------------------------------------------------------- DR EMBL; X07649; CAA30489.1; -; Genomic_DNA. DR EMBL; U51921; AAB67487.1; -; Genomic_DNA. DR EMBL; AY693198; AAT93217.1; -; Genomic_DNA. DR EMBL; BK006945; DAA09485.1; -; Genomic_DNA. DR PIR; S00552; S00552. DR RefSeq; NP_013264.1; NM_001182050.1. DR PDB; 1HR6; X-ray; 2.50 A; B/D/F/H=21-462. DR PDB; 1HR7; X-ray; 2.55 A; B/D/F/H=21-462. DR PDB; 1HR8; X-ray; 2.70 A; B/D/F/H=21-462. DR PDB; 1HR9; X-ray; 3.01 A; B/D/F/H=21-462. DR PDBsum; 1HR6; -. DR PDBsum; 1HR7; -. DR PDBsum; 1HR8; -. DR PDBsum; 1HR9; -. DR AlphaFoldDB; P10507; -. DR SMR; P10507; -. DR BioGRID; 31436; 101. DR ComplexPortal; CPX-1630; Mitochondrial processing peptidase complex. DR DIP; DIP-2402N; -. DR IntAct; P10507; 16. DR MINT; P10507; -. DR STRING; 4932.YLR163C; -. DR MEROPS; M16.003; -. DR MEROPS; M16.980; -. DR iPTMnet; P10507; -. DR MaxQB; P10507; -. DR PaxDb; 4932-YLR163C; -. DR PeptideAtlas; P10507; -. DR EnsemblFungi; YLR163C_mRNA; YLR163C; YLR163C. DR GeneID; 850860; -. DR KEGG; sce:YLR163C; -. DR AGR; SGD:S000004153; -. DR SGD; S000004153; MAS1. DR VEuPathDB; FungiDB:YLR163C; -. DR eggNOG; KOG0960; Eukaryota. DR GeneTree; ENSGT00940000156608; -. DR HOGENOM; CLU_009902_4_0_1; -. DR InParanoid; P10507; -. DR OMA; IDVVCDM; -. DR OrthoDB; 167798at2759; -. DR BioCyc; MetaCyc:G3O-32293-MONOMER; -. DR BioCyc; YEAST:G3O-32293-MONOMER; -. DR BRENDA; 3.4.24.64; 984. DR Reactome; R-SCE-611105; Respiratory electron transport. DR SABIO-RK; P10507; -. DR BioGRID-ORCS; 850860; 0 hits in 10 CRISPR screens. DR EvolutionaryTrace; P10507; -. DR PRO; PR:P10507; -. DR Proteomes; UP000002311; Chromosome XII. DR RNAct; P10507; Protein. DR GO; GO:0005759; C:mitochondrial matrix; TAS:Reactome. DR GO; GO:0017087; C:mitochondrial processing peptidase complex; IDA:UniProtKB. DR GO; GO:0005739; C:mitochondrion; IDA:ComplexPortal. DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW. DR GO; GO:0004222; F:metalloendopeptidase activity; IDA:UniProtKB. DR GO; GO:0006627; P:protein processing involved in protein targeting to mitochondrion; IDA:SGD. DR Gene3D; 3.30.830.10; Metalloenzyme, LuxS/M16 peptidase-like; 2. DR InterPro; IPR011249; Metalloenz_LuxS/M16. DR InterPro; IPR011765; Pept_M16_N. DR InterPro; IPR001431; Pept_M16_Zn_BS. DR InterPro; IPR007863; Peptidase_M16_C. DR PANTHER; PTHR11851:SF149; GH01077P; 1. DR PANTHER; PTHR11851; METALLOPROTEASE; 1. DR Pfam; PF00675; Peptidase_M16; 1. DR Pfam; PF05193; Peptidase_M16_C; 1. DR SUPFAM; SSF63411; LuxS/MPP-like metallohydrolase; 2. DR PROSITE; PS00143; INSULINASE; 1. PE 1: Evidence at protein level; KW 3D-structure; Direct protein sequencing; Hydrolase; Metal-binding; KW Metalloprotease; Mitochondrion; Phosphoprotein; Protease; KW Reference proteome; Transit peptide; Zinc. FT TRANSIT 1..20 FT /note="Mitochondrion" FT /evidence="ECO:0000269|PubMed:2007593" FT CHAIN 21..462 FT /note="Mitochondrial-processing peptidase subunit beta" FT /id="PRO_0000026784" FT ACT_SITE 73 FT /note="Proton acceptor" FT /evidence="ECO:0000269|PubMed:11470436, FT ECO:0007744|PDB:1HR6" FT BINDING 70 FT /ligand="Zn(2+)" FT /ligand_id="ChEBI:CHEBI:29105" FT /evidence="ECO:0000255|PROSITE-ProRule:PRU10096, FT ECO:0000269|PubMed:11470436, ECO:0000269|PubMed:9654444, FT ECO:0007744|PDB:1HR6, ECO:0007744|PDB:1HR7, FT ECO:0007744|PDB:1HR8, ECO:0007744|PDB:1HR9" FT BINDING 74 FT /ligand="Zn(2+)" FT /ligand_id="ChEBI:CHEBI:29105" FT /evidence="ECO:0000255|PROSITE-ProRule:PRU10096, FT ECO:0000269|PubMed:11470436, ECO:0007744|PDB:1HR6, FT ECO:0007744|PDB:1HR7, ECO:0007744|PDB:1HR8, FT ECO:0007744|PDB:1HR9" FT BINDING 150 FT /ligand="Zn(2+)" FT /ligand_id="ChEBI:CHEBI:29105" FT /evidence="ECO:0000255|PROSITE-ProRule:PRU10096, FT ECO:0000269|PubMed:11470436, ECO:0007744|PDB:1HR6, FT ECO:0007744|PDB:1HR7, ECO:0007744|PDB:1HR8, FT ECO:0007744|PDB:1HR9" FT MOD_RES 243 FT /note="Phosphoserine" FT /evidence="ECO:0007744|PubMed:18407956" FT MUTAGEN 70 FT /note="H->R: Loss of zinc binding. Loss of catalytic FT activity." FT /evidence="ECO:0000269|PubMed:9654444" FT MUTAGEN 89 FT /note="E->A: Loss of catalytic activity and loss of binding FT to MAS2." FT /evidence="ECO:0000269|PubMed:9299349" FT MUTAGEN 133 FT /note="S->A: Loss of catalytic activity. No effect on the FT binding to MAS2." FT /evidence="ECO:0000269|PubMed:9299349" FT MUTAGEN 198 FT /note="Y->A: No effect on catalytic activity." FT /evidence="ECO:0000269|PubMed:9299349" FT MUTAGEN 234 FT /note="K->A: Loss of catalytic activity and loss of binding FT to MAS2." FT /evidence="ECO:0000269|PubMed:9299349" FT MUTAGEN 249 FT /note="P->A: No effect on catalytic activity." FT /evidence="ECO:0000269|PubMed:9299349" FT MUTAGEN 301 FT /note="T->A: No effect on catalytic activity." FT /evidence="ECO:0000269|PubMed:9299349" FT MUTAGEN 333 FT /note="S->A: Loss of catalytic activity. No effect on the FT binding to MAS2." FT /evidence="ECO:0000269|PubMed:9299349" FT MUTAGEN 364 FT /note="K->A: No effect on catalytic activity." FT /evidence="ECO:0000269|PubMed:9299349" FT MUTAGEN 400 FT /note="R->A: No effect on catalytic activity." FT /evidence="ECO:0000269|PubMed:9299349" FT STRAND 27..30 FT /evidence="ECO:0007829|PDB:1HR6" FT STRAND 36..41 FT /evidence="ECO:0007829|PDB:1HR6" FT STRAND 46..55 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 58..60 FT /evidence="ECO:0007829|PDB:1HR6" FT TURN 63..67 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 68..75 FT /evidence="ECO:0007829|PDB:1HR6" FT STRAND 78..82 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 85..94 FT /evidence="ECO:0007829|PDB:1HR6" FT STRAND 98..103 FT /evidence="ECO:0007829|PDB:1HR6" FT STRAND 105..115 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 116..118 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 119..131 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 137..154 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 158..170 FT /evidence="ECO:0007829|PDB:1HR6" FT TURN 171..173 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 175..177 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 184..189 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 192..202 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 205..207 FT /evidence="ECO:0007829|PDB:1HR6" FT STRAND 208..215 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 218..229 FT /evidence="ECO:0007829|PDB:1HR6" FT STRAND 254..259 FT /evidence="ECO:0007829|PDB:1HR6" FT STRAND 264..273 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 282..292 FT /evidence="ECO:0007829|PDB:1HR6" FT STRAND 294..296 FT /evidence="ECO:0007829|PDB:1HR6" FT TURN 297..299 FT /evidence="ECO:0007829|PDB:1HR6" FT STRAND 302..305 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 308..314 FT /evidence="ECO:0007829|PDB:1HR6" FT STRAND 321..329 FT /evidence="ECO:0007829|PDB:1HR6" FT STRAND 334..343 FT /evidence="ECO:0007829|PDB:1HR6" FT TURN 344..346 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 349..364 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 370..385 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 391..405 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 411..419 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 423..433 FT /evidence="ECO:0007829|PDB:1HR6" FT STRAND 434..436 FT /evidence="ECO:0007829|PDB:1HR6" FT STRAND 439..445 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 447..449 FT /evidence="ECO:0007829|PDB:1HR6" FT HELIX 453..461 FT /evidence="ECO:0007829|PDB:1HR6" SQ SEQUENCE 462 AA; 51084 MW; 084CE63C495EDFC4 CRC64; MFSRTASKFR NTRRLLSTIS SQIPGTRTSK LPNGLTIATE YIPNTSSATV GIFVDAGSRA ENVKNNGTAH FLEHLAFKGT QNRSQQGIEL EIENIGSHLN AYTSRENTVY YAKSLQEDIP KAVDILSDIL TKSVLDNSAI ERERDVIIRE SEEVDKMYDE VVFDHLHEIT YKDQPLGRTI LGPIKNIKSI TRTDLKDYIT KNYKGDRMVL AGAGAVDHEK LVQYAQKYFG HVPKSESPVP LGSPRGPLPV FCRGERFIKE NTLPTTHIAI ALEGVSWSAP DYFVALATQA IVGNWDRAIG TGTNSPSPLA VAASQNGSLA NSYMSFSTSY ADSGLWGMYI VTDSNEHNVQ LIVNEILKEW KRIKSGKISD AEVNRAKAQL KAALLLSLDG STAIVEDIGR QVVTTGKRLS PEEVFEQVDK ITKDDIIMWA NYRLQNKPVS MVALGNTSTV PNVSYIEEKL NQ //