CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-014278
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Protein PML 
Protein Synonyms/Alias
  
Gene Name
 Pml 
Gene Synonyms/Alias
  
Created Date
 July 27, 2013 
Organism
 Mus musculus (Mouse) 
NCBI Taxa ID
 10090 
Lysine Modification
Position
Peptide
Type
References
372QEEPQNQKVQLLTRGubiquitination[1]
454TQPVAMVKTVPGAHPubiquitination[1]
633KIDNETQKISQLAAVubiquitination[1]
734IPGASSFKLGNLAKTubiquitination[1]
Reference
 [1] Proteomic analyses reveal divergent ubiquitylation site patterns in murine tissues.
 Wagner SA, Beli P, Weinert BT, Schölz C, Kelstrup CD, Young C, Nielsen ML, Olsen JV, Brakebusch C, Choudhary C.
 Mol Cell Proteomics. 2012 Dec;11(12):1578-85. [PMID: 22790023] 
Functional Description
 Functions via its association with PML-nuclear bodies (PML-NBs) in a wide range of important cellular processes, including tumor suppression, transcriptional regulation, apoptosis, senescence, DNA damage response, and viral defense mechanisms. Acts as the scaffold of PML-NBs allowing other proteins to shuttle in and out, a process which is regulated by SUMO-mediated modifications and interactions. Positively regulates p53/TP53 by acting at different levels (by promoting its acetylation and phosphorylation and by inhibiting its MDM2- dependent degradation). Regulates phosphorylation of ITPR3 and plays a role in the regulation of calcium homeostasis at the endoplasmic reticulum. Regulates RB1 phosphorylation and activity. Acts as both a negative regulator of PPARGC1A acetylation and a potent activator of PPAR signaling and fatty acid oxidation. Regulates translation of HIF1A by sequestering MTOR, and thereby plays a role in neoangiogenesis and tumor vascularization. Regulates PER2 nuclear localization and circadian function. Cytoplasmic PML is involved in the regulation of the TGF-beta signaling pathway. Required for normal development of the brain cortex during embryogenesis. Plays a role in granulopoiesis or monopoiesis of myeloid progenitor cells. May play a role regulating stem and progenitor cell fate in tissues as diverse as blood, brain and breast. Shows antiviral activity towards lymphocytic choriomeningitis virus (LCMV) and the vesicular stomatitis virus (VSV). 
Sequence Annotation
 ZN_FING 62 97 RING-type.
 ZN_FING 129 171 B box-type 1.
 ZN_FING 188 239 B box-type 2.
 REGION 458 565 Interaction with PER2 (By similarity).
 REGION 486 500 Nuclear localization signal (By
 REGION 566 572 Sumo interaction motif (SIM) (By
 METAL 62 62 Zinc 1 (By similarity).
 METAL 65 65 Zinc 1 (By similarity).
 METAL 77 77 Zinc 2 (By similarity).
 METAL 79 79 Zinc 2 (By similarity).
 METAL 82 82 Zinc 1 (By similarity).
 METAL 85 85 Zinc 1 (By similarity).
 METAL 93 93 Zinc 2 (By similarity).
 METAL 96 96 Zinc 2 (By similarity).
 MOD_RES 17 17 Phosphoserine; by HIPK2.
 MOD_RES 45 45 Phosphoserine; by HIPK2 and MAPK1 (By
 MOD_RES 47 47 Phosphoserine; by HIPK2 and MAPK1 (By
 MOD_RES 404 404 Phosphoserine; by MAPK1 and MAPK7 (By
 MOD_RES 497 497 N6-acetyllysine (By similarity).
 MOD_RES 514 514 Phosphoserine.
 MOD_RES 515 515 Phosphoserine; by MAPK1.
 MOD_RES 527 527 Phosphothreonine.
 MOD_RES 528 528 Phosphoserine; by CDK1 and CDK2.
 MOD_RES 540 540 Phosphoserine; by MAPK1 (By similarity).
 MOD_RES 556 556 Phosphothreonine.
 MOD_RES 575 575 Phosphoserine; by CK2 (By similarity).
 MOD_RES 609 609 Phosphoserine.
 CROSSLNK 70 70 Glycyl lysine isopeptide (Lys-Gly)
 CROSSLNK 165 165 Glycyl lysine isopeptide (Lys-Gly)
 CROSSLNK 384 384 Glycyl lysine isopeptide (Lys-Gly)
 CROSSLNK 486 486 Glycyl lysine isopeptide (Lys-Gly)
 CROSSLNK 500 500 Glycyl lysine isopeptide (Lys-Gly)  
Keyword
 Acetylation; Activator; Alternative splicing; Antiviral defense; Apoptosis; Coiled coil; Complete proteome; Cytoplasm; DNA-binding; Endoplasmic reticulum; Endosome; Host-virus interaction; Immunity; Innate immunity; Isopeptide bond; Membrane; Metal-binding; Nucleus; Phosphoprotein; Reference proteome; Repeat; Transcription; Transcription regulation; Tumor suppressor; Ubl conjugation; Zinc; Zinc-finger. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 885 AA 
Protein Sequence
METEPVSVQK VPAPPGSPCR QQDSALTPTP TMPPPEEPSE DYEHSQSPAE QAIQEEFQFL 60
RCPSCQAQAK CPKLLPCLHT LCSGCLEAPG LQCPICKAPG QADANGEALD NVFFESLQRR 120
LAVFRQIVDA QAACTRCKGL ADFWCFECEQ LICSKCFEAH QWYLKHEARP LADLRDNSVS 180
SFLDSTRKSN IFCSNTNHRN PALTDIYCRG CAKPLCCTCA LLDRNHSHLH CDIGEEIQQW 240
HEELGTMTQT LEEQGRTFDS AHAQMCSAIG QLDHARADIE KQIRARVRQV VDYVQAQERE 300
LLEAVNDRYQ RDYQEIAGQL SCLEAVLQRI RTSGALVKRM KLYASDQEVL DMHSFLRKAL 360
CSLRQEEPQN QKVQLLTRGF EEFKLCLQDF ISCITQRINA AVASPEAASN QPEAASTHPV 420
TTSTPEDLEQ PKEVQSVQAQ ALELSKTQPV AMVKTVPGAH PVPVYAFSMQ GPTYREEASQ 480
TVGSMKRKCS HEDCSRKIIK MESTEENEDR LATSSPEQSW PSTFKATSPP HLDGTSNPES 540
TVPEKKILLP NNNHVTSDTG ETEERVVVIS SSEDSDTENL SSHELDDSSS ESSSLQLEGP 600
NSLKALDESL AEPHLEDRTL VFFDLKIDNE TQKISQLAAV NRESKFRVLI QPEAFSVYSK 660
AVSLEAGLRH FLSFLTTMHR PILACSRLWG PGLPIFFQTL SDINKLWEFQ DTISGFLAVL 720
PLIRERIPGA SSFKLGNLAK TYLARNMSER SALASVLAMR DLCCLLEISP GLPLAQHIYS 780
FSSLQCFASL QPLIQASVLP QSEARLLALH NVSFVELLNA YRTNRQEGLK KYVHYLSLQT 840
TPLSSSASTQ VAQFLQALST HMEGLLEGHA PAGAEGKAES KGCLA 885 
Gene Ontology
 GO:0005829; C:cytosol; IDA:UniProtKB.
 GO:0031901; C:early endosome membrane; IEA:UniProtKB-SubCell.
 GO:0042406; C:extrinsic to endoplasmic reticulum membrane; IDA:UniProtKB.
 GO:0016363; C:nuclear matrix; IDA:MGI.
 GO:0031965; C:nuclear membrane; IEA:Compara.
 GO:0005730; C:nucleolus; ISS:UniProtKB.
 GO:0016605; C:PML body; IMP:UniProtKB.
 GO:0050897; F:cobalt ion binding; IEA:Compara.
 GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
 GO:0046332; F:SMAD binding; IDA:MGI.
 GO:0003713; F:transcription coactivator activity; TAS:UniProtKB.
 GO:0008270; F:zinc ion binding; IEA:InterPro.
 GO:0006919; P:activation of cysteine-type endopeptidase activity involved in apoptotic process; IMP:MGI.
 GO:0060444; P:branching involved in mammary gland duct morphogenesis; IMP:MGI.
 GO:0007050; P:cell cycle arrest; IMP:UniProtKB.
 GO:0045165; P:cell fate commitment; IMP:MGI.
 GO:0071353; P:cellular response to interleukin-4; IDA:MGI.
 GO:0090398; P:cellular senescence; ISS:UniProtKB.
 GO:0007182; P:common-partner SMAD protein phosphorylation; IMP:MGI.
 GO:0051607; P:defense response to virus; IEA:UniProtKB-KW.
 GO:0006977; P:DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest; IMP:UniProtKB.
 GO:0032469; P:endoplasmic reticulum calcium ion homeostasis; IMP:UniProtKB.
 GO:0006917; P:induction of apoptosis; IMP:UniProtKB.
 GO:0045087; P:innate immune response; IEA:UniProtKB-KW.
 GO:0042771; P:intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator; IMP:UniProtKB.
 GO:0051457; P:maintenance of protein location in nucleus; ISO:MGI.
 GO:0030099; P:myeloid cell differentiation; IMP:MGI.
 GO:0016525; P:negative regulation of angiogenesis; ISS:UniProtKB.
 GO:0030308; P:negative regulation of cell growth; ISS:UniProtKB.
 GO:0008285; P:negative regulation of cell proliferation; IMP:MGI.
 GO:0045930; P:negative regulation of mitotic cell cycle; IEA:Compara.
 GO:2000059; P:negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process; IEA:Compara.
 GO:0051974; P:negative regulation of telomerase activity; IEA:Compara.
 GO:0032211; P:negative regulation of telomere maintenance via telomerase; IEA:Compara.
 GO:0045892; P:negative regulation of transcription, DNA-dependent; ISS:UniProtKB.
 GO:0032938; P:negative regulation of translation in response to oxidative stress; IEA:Compara.
 GO:0030578; P:PML body organization; IDA:MGI.
 GO:0002230; P:positive regulation of defense response to virus by host; IEA:Compara.
 GO:2001238; P:positive regulation of extrinsic apoptotic signaling pathway; IEA:Compara.
 GO:0031065; P:positive regulation of histone deacetylation; ISS:UniProtKB.
 GO:0043161; P:proteasomal ubiquitin-dependent protein catabolic process; ISS:UniProtKB.
 GO:0006461; P:protein complex assembly; ISS:UniProtKB.
 GO:0050821; P:protein stabilization; IEA:Compara.
 GO:0010522; P:regulation of calcium ion transport into cytosol; IMP:UniProtKB.
 GO:2000779; P:regulation of double-strand break repair; ISS:UniProtKB.
 GO:0045343; P:regulation of MHC class I biosynthetic process; IDA:MGI.
 GO:0001932; P:regulation of protein phosphorylation; IMP:UniProtKB.
 GO:0010332; P:response to gamma radiation; IMP:MGI.
 GO:0001666; P:response to hypoxia; ISS:UniProtKB.
 GO:0009411; P:response to UV; IMP:MGI.
 GO:0048384; P:retinoic acid receptor signaling pathway; IMP:MGI.
 GO:0007184; P:SMAD protein import into nucleus; IMP:MGI.
 GO:0006351; P:transcription, DNA-dependent; IEA:UniProtKB-KW.
 GO:0007179; P:transforming growth factor beta receptor signaling pathway; IMP:MGI.
 GO:0019048; P:virus-host interaction; IEA:UniProtKB-KW. 
Interpro
 IPR021978; DUF3583.
 IPR000315; Znf_B-box.
 IPR001841; Znf_RING.
 IPR013083; Znf_RING/FYVE/PHD.
 IPR017907; Znf_RING_CS. 
Pfam
 PF12126; DUF3583
 PF00643; zf-B_box 
SMART
 SM00336; BBOX
 SM00184; RING 
PROSITE
 PS50119; ZF_BBOX
 PS00518; ZF_RING_1
 PS50089; ZF_RING_2 
PRINTS