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Protein

Lon protease homolog, mitochondrial

Gene

PIM1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

ATP-dependent serine protease that mediates the selective degradation of misfolded, unassembled or oxidatively damaged polypeptides as well as certain short-lived regulatory proteins in the mitochondrial matrix. May also have a chaperone function in the assembly of inner membrane protein complexes. Participates in the regulation of mitochondrial gene expression and in the maintenance of the integrity of the mitochondrial genome. Binds to mitochondrial DNA in a site-specific manner (PubMed:15870080, PubMed:16428434, PubMed:8146662, PubMed:8276800, PubMed:8354406, PubMed:8810243, PubMed:9405361, PubMed:9724747). Endogenous substrates include ABF2, ACO2, ILV1, ILV2, LSC1, LYS4, MGM101 and several oxidized proteins. The 2 nucleic acid-binding proteins ABF2 and MGM101 are protected from degradation by PIM1 when they are bound to DNA (PubMed:16428434, PubMed:20150421, PubMed:28377575).UniRule annotation10 Publications

Miscellaneous

Present with 14500 molecules/cell in log phase SD medium.1 Publication

Catalytic activityi

Hydrolysis of proteins in presence of ATP.UniRule annotation

Kineticsi

  1. KM=40 µM for ATP for ATPase activity1 Publication

    pH dependencei

    Optimum pH is 7.9.1 Publication

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Active sitei1015UniRule annotation1
    Active sitei1058UniRule annotation1

    Regions

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Nucleotide bindingi632 – 639ATPUniRule annotation8

    GO - Molecular functioni

    • ATP binding Source: UniProtKB-KW
    • ATP-dependent peptidase activity Source: SGD
    • DNA binding Source: UniProtKB-KW
    • serine-type endopeptidase activity Source: InterPro

    GO - Biological processi

    • chaperone-mediated protein complex assembly Source: SGD
    • mitochondrial DNA metabolic process Source: AgBase
    • mitochondrial respiratory chain complex assembly Source: AgBase
    • mitochondrion organization Source: GO_Central
    • protein folding Source: AgBase
    • protein quality control for misfolded or incompletely synthesized proteins Source: SGD
    • response to heat Source: AgBase

    Keywordsi

    Molecular functionDNA-binding, Hydrolase, Protease, Serine protease
    LigandATP-binding, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciYEAST:G3O-28925-MONOMER

    Protein family/group databases

    MEROPSiS16.010

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Lon protease homolog, mitochondrialUniRule annotation (EC:3.4.21.53UniRule annotation)
    Gene namesi
    Name:PIM1UniRule annotation
    Synonyms:LON
    Ordered Locus Names:YBL022C
    ORF Names:YBL0440
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    Proteomesi
    • UP000002311 Componenti: Chromosome II

    Organism-specific databases

    EuPathDBiFungiDB:YBL022C
    SGDiS000000118 PIM1

    Subcellular locationi

    Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

    Keywords - Cellular componenti

    Mitochondrion

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Mutagenesisi638K → N: Abolishes ATP-binding. 2 Publications1
    Mutagenesisi1015S → A: Abolishes peptidase activity. 2 Publications1

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Transit peptidei1 – 37MitochondrionUniRule annotationAdd BLAST37
    PropeptideiPRO_000039576138 – 98Removed in mature form; by autocatalysisUniRule annotation2 PublicationsAdd BLAST61
    ChainiPRO_000002673399 – 1133Lon protease homolog, mitochondrialAdd BLAST1035

    Proteomic databases

    MaxQBiP36775
    PaxDbiP36775
    PRIDEiP36775

    PTM databases

    iPTMnetiP36775

    Interactioni

    Subunit structurei

    Homoheptamer. Organized in a ring with a central cavity. Oligomerization is independent of its proteolytic activity and the autocatalytic maturation of its subunits.UniRule annotation2 Publications

    Protein-protein interaction databases

    BioGridi3267684 interactors.
    DIPiDIP-6629N
    IntActiP36775 20 interactors.
    STRINGi4932.YBL022C

    Structurei

    3D structure databases

    ProteinModelPortaliP36775
    SMRiP36775
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Domaini182 – 478Lon N-terminalPROSITE-ProRule annotationAdd BLAST297
    Domaini923 – 1109Lon proteolyticPROSITE-ProRule annotationAdd BLAST187

    Sequence similaritiesi

    Belongs to the peptidase S16 family.UniRule annotation

    Keywords - Domaini

    Transit peptide

    Phylogenomic databases

    GeneTreeiENSGT00530000063553
    HOGENOMiHOG000261409
    InParanoidiP36775
    KOiK08675
    OMAiRSAENFG
    OrthoDBiEOG092C0S6Z

    Family and domain databases

    Gene3Di3.30.230.101 hit
    HAMAPiMF_03120 lonm_euk, 1 hit
    InterProiView protein in InterPro
    IPR003593 AAA+_ATPase
    IPR003959 ATPase_AAA_core
    IPR004815 Lon_bac/euk-typ
    IPR008269 Lon_proteolytic
    IPR027065 Lon_Prtase
    IPR003111 Lon_substr-bd
    IPR027503 Lonm_euk
    IPR027417 P-loop_NTPase
    IPR008268 Peptidase_S16_AS
    IPR015947 PUA-like_sf
    IPR020568 Ribosomal_S5_D2-typ_fold
    IPR014721 Ribosomal_S5_D2-typ_fold_subgr
    PANTHERiPTHR43718 PTHR43718, 1 hit
    PfamiView protein in Pfam
    PF00004 AAA, 1 hit
    PF05362 Lon_C, 1 hit
    PF02190 LON_substr_bdg, 1 hit
    SMARTiView protein in SMART
    SM00382 AAA, 1 hit
    SM00464 LON, 1 hit
    SUPFAMiSSF52540 SSF52540, 1 hit
    SSF54211 SSF54211, 1 hit
    SSF88697 SSF88697, 1 hit
    TIGRFAMsiTIGR00763 lon, 1 hit
    PROSITEiView protein in PROSITE
    PS51787 LON_N, 1 hit
    PS51786 LON_PROTEOLYTIC, 1 hit
    PS01046 LON_SER, 1 hit

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    P36775-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MLRTRTTKTL STVARTTRAI QYYRSIAKTA AVSQRRFAST LTVRDVENIK
    60 70 80 90 100
    PSHIIKSPTW QEFQHQLKDP RYMEHFAQLD AQFARHFMAT NSGKSILAKD
    110 120 130 140 150
    DSTSQKKDED VKIVPDEKDT DNDVEPTRDD EIVNKDQEGE ASKNSRSSAS
    160 170 180 190 200
    GGGQSSSSRS DSGDGSSKQK PPKDVPEVYP QMLALPIARR PLFPGFYKAV
    210 220 230 240 250
    VISDERVMKA IKEMLDRQQP YIGAFMLKNS EEDTDVITDK NDVYDVGVLA
    260 270 280 290 300
    QITSAFPSKD EKTGTETMTA LLYPHRRIKI DELFPPNEEK EKSKEQAKDT
    310 320 330 340 350
    DTETTVVEDA NNPEDQESTS PATPKLEDIV VERIPDSELQ HHKRVEATEE
    360 370 380 390 400
    ESEELDDIQE GEDINPTEFL KNYNVSLVNV LNLEDEPFDR KSPVINALTS
    410 420 430 440 450
    EILKVFKEIS QLNTMFREQI ATFSASIQSA TTNIFEEPAR LADFAAAVSA
    460 470 480 490 500
    GEEDELQDIL SSLNIEHRLE KSLLVLKKEL MNAELQNKIS KDVETKIQKR
    510 520 530 540 550
    QREYYLMEQL KGIKRELGID DGRDKLIDTY KERIKSLKLP DSVQKIFDDE
    560 570 580 590 600
    ITKLSTLETS MSEFGVIRNY LDWLTSIPWG KHSKEQYSIP RAKKILDEDH
    610 620 630 640 650
    YGMVDVKDRI LEFIAVGKLL GKVDGKIICF VGPPGVGKTS IGKSIARALN
    660 670 680 690 700
    RKFFRFSVGG MTDVAEIKGH RRTYIGALPG RVVQALKKCQ TQNPLILIDE
    710 720 730 740 750
    IDKIGHGGIH GDPSAALLEV LDPEQNNSFL DNYLDIPIDL SKVLFVCTAN
    760 770 780 790 800
    SLETIPRPLL DRMEVIELTG YVAEDKVKIA EQYLVPSAKK SAGLENSHVD
    810 820 830 840 850
    MTEDAITALM KYYCRESGVR NLKKHIEKIY RKAALQVVKK LSIEDSPTSS
    860 870 880 890 900
    ADSKPKESVS SEEKAENNAK SSSEKTKDNN SEKTSDDIEA LKTSEKINVS
    910 920 930 940 950
    ISQKNLKDYV GPPVYTTDRL YETTPPGVVM GLAWTNMGGC SLYVESVLEQ
    960 970 980 990 1000
    PLHNCKHPTF ERTGQLGDVM KESSRLAYSF AKMYLAQKFP ENRFFEKASI
    1010 1020 1030 1040 1050
    HLHCPEGATP KDGPSAGVTM ATSFLSLALN KSIDPTVAMT GELTLTGKVL
    1060 1070 1080 1090 1100
    RIGGLREKAV AAKRSGAKTI IFPKDNLNDW EELPDNVKEG LEPLAADWYN
    1110 1120 1130
    DIFQKLFKDV NTKEGNSVWK AEFEILDAKK EKD
    Length:1,133
    Mass (Da):127,112
    Last modified:October 1, 1994 - v2
    Checksum:i281CAB94579FFF09
    GO

    Experimental Info

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Sequence conflicti509Q → R in AAA53625 (PubMed:8146662).Curated1

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    X74544 Genomic DNA Translation: CAA52634.1
    L28110 mRNA Translation: AAA53625.1
    Z35783 Genomic DNA Translation: CAA84841.1
    M20318 Genomic DNA Translation: AAA53539.1
    BK006936 Genomic DNA Translation: DAA07098.1
    PIRiS43938
    RefSeqiNP_009531.1, NM_001178262.1

    Genome annotation databases

    EnsemblFungiiYBL022C; YBL022C; YBL022C
    GeneIDi852259
    KEGGisce:YBL022C

    Similar proteinsi

    Entry informationi

    Entry nameiLONM_YEAST
    AccessioniPrimary (citable) accession number: P36775
    Secondary accession number(s): D6VPX8, P13435
    Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 1, 1994
    Last sequence update: October 1, 1994
    Last modified: March 28, 2018
    This is version 163 of the entry and version 2 of the sequence. See complete history.
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Direct protein sequencing, Reference proteome