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PLOD3 procollagen-lysine,2-oxoglutarate 5-dioxygenase 3 [ Homo sapiens (human) ]

Gene ID: 8985, updated on 17-Apr-2020

Summary

Official Symbol
PLOD3provided by HGNC
Official Full Name
procollagen-lysine,2-oxoglutarate 5-dioxygenase 3provided by HGNC
Primary source
HGNC:HGNC:9083
See related
Ensembl:ENSG00000106397 MIM:603066
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LH3
Summary
The protein encoded by this gene is a membrane-bound homodimeric enzyme that is localized to the cisternae of the rough endoplasmic reticulum. The enzyme (cofactors iron and ascorbate) catalyzes the hydroxylation of lysyl residues in collagen-like peptides. The resultant hydroxylysyl groups are attachment sites for carbohydrates in collagen and thus are critical for the stability of intermolecular crosslinks. Some patients with Ehlers-Danlos syndrome type VIB have deficiencies in lysyl hydroxylase activity. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in placenta (RPKM 21.7), endometrium (RPKM 12.9) and 25 other tissues See more
Orthologs

Genomic context

See PLOD3 in Genome Data Viewer
Location:
7q22.1
Exon count:
19
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 7 NC_000007.14 (101205984..101217581, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (100849258..100861011, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene diacylglycerol O-acyltransferase 2 like 7, pseudogene Neighboring gene ribosomal protein SA pseudogene 46 Neighboring gene zinc finger HIT-type containing 1 Neighboring gene claudin 15

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of procollagen-lysine, 2-oxoglutarate 5-dioxygenase 3 (PLOD3) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
L-ascorbic acid binding IEA
Inferred from Electronic Annotation
more info
 
iron ion binding IEA
Inferred from Electronic Annotation
more info
 
procollagen galactosyltransferase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
procollagen galactosyltransferase activity TAS
Traceable Author Statement
more info
 
procollagen glucosyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
procollagen glucosyltransferase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
procollagen-lysine 5-dioxygenase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
procollagen-lysine 5-dioxygenase activity IDA
Inferred from Direct Assay
more info
PubMed 
procollagen-lysine 5-dioxygenase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
basement membrane assembly IEA
Inferred from Electronic Annotation
more info
 
cellular response to hormone stimulus IEA
Inferred from Electronic Annotation
more info
 
collagen fibril organization IEA
Inferred from Electronic Annotation
more info
 
collagen metabolic process IEA
Inferred from Electronic Annotation
more info
 
endothelial cell morphogenesis IEA
Inferred from Electronic Annotation
more info
 
epidermis morphogenesis IEA
Inferred from Electronic Annotation
more info
 
hydroxylysine biosynthetic process IEA
Inferred from Electronic Annotation
more info
 
in utero embryonic development IEA
Inferred from Electronic Annotation
more info
 
lung morphogenesis IEA
Inferred from Electronic Annotation
more info
 
neural tube development IEA
Inferred from Electronic Annotation
more info
 
oxidation-reduction process IEA
Inferred from Electronic Annotation
more info
 
peptidyl-lysine hydroxylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
peptidyl-lysine hydroxylation IDA
Inferred from Direct Assay
more info
PubMed 
peptidyl-lysine hydroxylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein O-linked glycosylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein localization IEA
Inferred from Electronic Annotation
more info
 
vasodilation IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
Golgi apparatus IDA
Inferred from Direct Assay
more info
PubMed 
collagen-containing extracellular matrix IEA
Inferred from Electronic Annotation
more info
 
endoplasmic reticulum IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
endoplasmic reticulum IDA
Inferred from Direct Assay
more info
PubMed 
endoplasmic reticulum TAS
Traceable Author Statement
more info
PubMed 
endoplasmic reticulum lumen IEA
Inferred from Electronic Annotation
more info
 
endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
 
extracellular exosome HDA PubMed 
extracellular space ISS
Inferred from Sequence or Structural Similarity
more info
 
rough endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
 
trans-Golgi network IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
multifunctional procollagen lysine hydroxylase and glycosyltransferase LH3
Names
lysine hydroxylase 3
lysyl hydroxlase 3
lysyl hydroxylase 3
NP_001075.1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_012148.1 RefSeqGene

    Range
    5150..16747
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001084.5NP_001075.1  multifunctional procollagen lysine hydroxylase and glycosyltransferase LH3 precursor

    See identical proteins and their annotated locations for NP_001075.1

    Status: REVIEWED

    Source sequence(s)
    AC004876, AL049952, BC011674
    Consensus CDS
    CCDS5715.1
    UniProtKB/Swiss-Prot
    O60568
    UniProtKB/TrEMBL
    Q9UG85
    Related
    ENSP00000223127.3, ENST00000223127.8
    Conserved Domains (1) summary
    smart00702
    Location:573736
    P4Hc; Prolyl 4-hydroxylase alpha subunit homologues

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p13 Primary Assembly

    Range
    101205984..101217581 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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