CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-000963
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Procollagen-lysine,2-oxoglutarate 5-dioxygenase 3 
Protein Synonyms/Alias
 Lysyl hydroxylase 3; LH3 
Gene Name
 PLOD3 
Gene Synonyms/Alias
  
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
215LSLNLDHKSRIFQNLubiquitination[1]
232ALDEVVLKFDRNRVRubiquitination[1, 2]
495DPDMAFCKSFRDKGIubiquitination[1]
500FCKSFRDKGIFLHLSubiquitination[1]
615PTVDIHMKQVGYEDQubiquitination[3]
645LFPGYHTKARAVMNFubiquitination[3, 4]
Reference
 [1] Refined preparation and use of anti-diglycine remnant (K-ε-GG) antibody enables routine quantification of 10,000s of ubiquitination sites in single proteomics experiments.
 Udeshi ND, Svinkina T, Mertins P, Kuhn E, Mani DR, Qiao JW, Carr SA.
 Mol Cell Proteomics. 2013 Mar;12(3):825-31. [PMID: 23266961]
 [2] Ubiquitin ligase substrate identification through quantitative proteomics at both the protein and peptide levels.
 Lee KA, Hammerle LP, Andrews PS, Stokes MP, Mustelin T, Silva JC, Black RA, Doedens JR.
 J Biol Chem. 2011 Dec 2;286(48):41530-8. [PMID: 21987572]
 [3] Global identification of modular cullin-RING ligase substrates.
 Emanuele MJ, Elia AE, Xu Q, Thoma CR, Izhar L, Leng Y, Guo A, Chen YN, Rush J, Hsu PW, Yen HC, Elledge SJ.
 Cell. 2011 Oct 14;147(2):459-74. [PMID: 21963094]
 [4] Systematic and quantitative assessment of the ubiquitin-modified proteome.
 Kim W, Bennett EJ, Huttlin EL, Guo A, Li J, Possemato A, Sowa ME, Rad R, Rush J, Comb MJ, Harper JW, Gygi SP.
 Mol Cell. 2011 Oct 21;44(2):325-40. [PMID: 21906983] 
Functional Description
 Forms hydroxylysine residues in -Xaa-Lys-Gly- sequences in collagens. These hydroxylysines serve as sites of attachment for carbohydrate units and are essential for the stability of the intermolecular collagen cross-links. 
Sequence Annotation
 DOMAIN 647 738 Fe2OG dioxygenase.
 ACT_SITE 729 729 Potential.
 METAL 667 667 Iron (By similarity).
 METAL 669 669 Iron (By similarity).
 METAL 719 719 Iron (By similarity).
 CARBOHYD 63 63 N-linked (GlcNAc...) (Potential).
 CARBOHYD 548 548 N-linked (GlcNAc...) (Potential).  
Keyword
 Complete proteome; Dioxygenase; Disease mutation; Endoplasmic reticulum; Glycoprotein; Iron; Membrane; Metal-binding; Oxidoreductase; Polymorphism; Reference proteome; Signal; Vitamin C. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 738 AA 
Protein Sequence
MTSSGPGPRF LLLLPLLLPP AASASDRPRG RDPVNPEKLL VITVATAETE GYLRFLRSAE 60
FFNYTVRTLG LGEEWRGGDV ARTVGGGQKV RWLKKEMEKY ADREDMIIMF VDSYDVILAG 120
SPTELLKKFV QSGSRLLFSA ESFCWPEWGL AEQYPEVGTG KRFLNSGGFI GFATTIHQIV 180
RQWKYKDDDD DQLFYTRLYL DPGLREKLSL NLDHKSRIFQ NLNGALDEVV LKFDRNRVRI 240
RNVAYDTLPI VVHGNGPTKL QLNYLGNYVP NGWTPEGGCG FCNQDRRTLP GGQPPPRVFL 300
AVFVEQPTPF LPRFLQRLLL LDYPPDRVTL FLHNNEVFHE PHIADSWPQL QDHFSAVKLV 360
GPEEALSPGE ARDMAMDLCR QDPECEFYFS LDADAVLTNL QTLRILIEEN RKVIAPMLSR 420
HGKLWSNFWG ALSPDEYYAR SEDYVELVQR KRVGVWNVPY ISQAYVIRGD TLRMELPQRD 480
VFSGSDTDPD MAFCKSFRDK GIFLHLSNQH EFGRLLATSR YDTEHLHPDL WQIFDNPVDW 540
KEQYIHENYS RALEGEGIVE QPCPDVYWFP LLSEQMCDEL VAEMEHYGQW SGGRHEDSRL 600
AGGYENVPTV DIHMKQVGYE DQWLQLLRTY VGPMTESLFP GYHTKARAVM NFVVRYRPDE 660
QPSLRPHHDS STFTLNVALN HKGLDYEGGG CRFLRYDCVI SSPRKGWALL HPGRLTHYHE 720
GLPTTWGTRY IMVSFVDP 738 
Gene Ontology
 GO:0005789; C:endoplasmic reticulum membrane; TAS:Reactome.
 GO:0030867; C:rough endoplasmic reticulum membrane; IEA:UniProtKB-SubCell.
 GO:0005506; F:iron ion binding; IEA:InterPro.
 GO:0031418; F:L-ascorbic acid binding; IEA:UniProtKB-KW.
 GO:0016702; F:oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen; IEA:UniProtKB-KW.
 GO:0050211; F:procollagen galactosyltransferase activity; TAS:Reactome.
 GO:0033823; F:procollagen glucosyltransferase activity; TAS:Reactome.
 GO:0008475; F:procollagen-lysine 5-dioxygenase activity; TAS:ProtInc.
 GO:0070831; P:basement membrane assembly; IEA:Compara.
 GO:0006464; P:cellular protein modification process; TAS:ProtInc.
 GO:0032870; P:cellular response to hormone stimulus; IEA:Compara.
 GO:0030199; P:collagen fibril organization; IEA:Compara.
 GO:0001886; P:endothelial cell morphogenesis; IEA:Compara.
 GO:0048730; P:epidermis morphogenesis; IEA:Compara.
 GO:0030198; P:extracellular matrix organization; TAS:Reactome.
 GO:0001701; P:in utero embryonic development; IEA:Compara.
 GO:0060425; P:lung morphogenesis; IEA:Compara.
 GO:0021915; P:neural tube development; IEA:Compara.
 GO:0008104; P:protein localization; IEA:Compara.
 GO:0042311; P:vasodilation; IEA:Compara. 
Interpro
 IPR005123; Oxoglu/Fe-dep_dioxygenase.
 IPR006620; Pro_4_hyd_alph.
 IPR001006; Procol_lys_dOase. 
Pfam
 PF03171; 2OG-FeII_Oxy 
SMART
 SM00702; P4Hc 
PROSITE
 PS51471; FE2OG_OXY
 PS01325; LYS_HYDROXYLASE 
PRINTS