ENSG00000106397


Homo sapiens

Features
Gene ID: ENSG00000106397
  
Biological name :PLOD3
  
Synonyms : O60568 / PLOD3 / procollagen-lysine,2-oxoglutarate 5-dioxygenase 3
  
Possible biological names infered from orthology :
  
Species: Homo sapiens
  
Chr. number: 7
Strand: -1
Band: q22.1
Gene start: 101205977
Gene end: 101218420
  
Corresponding Affymetrix probe sets: 202185_at (Human Genome U133 Plus 2.0 Array)   
  
Cross references: Ensembl peptide - ENSP00000407551
Ensembl peptide - ENSP00000407555
Ensembl peptide - ENSP00000416070
Ensembl peptide - ENSP00000407908
Ensembl peptide - ENSP00000223127
Ensembl peptide - ENSP00000394045
Ensembl peptide - ENSP00000404799
NCBI entrez gene - 8985     See in Manteia.
OMIM - 603066
RefSeq - NM_001084
RefSeq Peptide - NP_001075
swissprot - H7C0B8
swissprot - H7C2A8
swissprot - H7C2S8
swissprot - H7C2V1
swissprot - C9JU11
swissprot - O60568
swissprot - C9JIX5
Ensembl - ENSG00000106397
  
Related genetic diseases (OMIM): 612394 - Lysyl hydroxylase 3 deficiency, 612394
See expression report in BioGPS
See gene description in Wikigenes
See gene description in GeneCards
See co-cited genes in PubMed


Ortholog prediction (from Ensembl)
Ortholog nameID Species
 plod3ENSDARG00000076317Danio rerio
 Plod3ENSMUSG00000004846Mus musculus


Paralog prediction (from Ensembl)
Paralog nameIDSimilarity(%)
PLOD2 / O00469 / procollagen-lysine,2-oxoglutarate 5-dioxygenase 2ENSG0000015295258
PLOD1 / Q02809 / procollagen-lysine,2-oxoglutarate 5-dioxygenase 1ENSG0000008344457
Q8IYK4 / COLGALT2 / collagen beta(1-O)galactosyltransferase 2ENSG0000019875616
Q8NBJ5 / COLGALT1 / collagen beta(1-O)galactosyltransferase 1ENSG0000013030915
CERCAM / Q5T4B2 / cerebral endothelial cell adhesion moleculeENSG0000016712314


Protein motifs (from Interpro)
Interpro ID Name
 IPR001006  Procollagen-lysine 5-dioxygenase
 IPR005123  Oxoglutarate/iron-dependent dioxygenase
 IPR006620  Prolyl 4-hydroxylase, alpha subunit
 IPR029044  Nucleotide-diphospho-sugar transferases


Gene Ontology (GO)
TypeGO IDTermEv.Code
 biological_processGO:0001701 in utero embryonic development IEA
 biological_processGO:0001886 endothelial cell morphogenesis IEA
 biological_processGO:0006493 protein O-linked glycosylation IMP
 biological_processGO:0008104 protein localization IEA
 biological_processGO:0017185 peptidyl-lysine hydroxylation IEA
 biological_processGO:0021915 neural tube development IEA
 biological_processGO:0030199 collagen fibril organization IEA
 biological_processGO:0032870 cellular response to hormone stimulus IEA
 biological_processGO:0032963 collagen metabolic process IEA
 biological_processGO:0042311 vasodilation IEA
 biological_processGO:0046947 hydroxylysine biosynthetic process IMP
 biological_processGO:0048730 epidermis morphogenesis IEA
 biological_processGO:0055114 oxidation-reduction process IEA
 biological_processGO:0060425 lung morphogenesis IEA
 biological_processGO:0070831 basement membrane assembly IEA
 cellular_componentGO:0005783 endoplasmic reticulum TAS
 cellular_componentGO:0005789 endoplasmic reticulum membrane TAS
 cellular_componentGO:0005794 Golgi apparatus IDA
 cellular_componentGO:0005802 trans-Golgi network IEA
 cellular_componentGO:0016020 membrane IEA
 cellular_componentGO:0030867 rough endoplasmic reticulum membrane IEA
 cellular_componentGO:0031012 extracellular matrix IEA
 cellular_componentGO:0070062 extracellular exosome HDA
 molecular_functionGO:0005506 iron ion binding IEA
 molecular_functionGO:0005515 protein binding IPI
 molecular_functionGO:0008475 procollagen-lysine 5-dioxygenase activity TAS
 molecular_functionGO:0016491 oxidoreductase activity IEA
 molecular_functionGO:0016705 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen IEA
 molecular_functionGO:0031418 L-ascorbic acid binding IEA
 molecular_functionGO:0033823 procollagen glucosyltransferase activity TAS
 molecular_functionGO:0046872 metal ion binding IEA
 molecular_functionGO:0050211 procollagen galactosyltransferase activity TAS
 molecular_functionGO:0051213 dioxygenase activity IEA


Pathways (from Reactome)
Pathway description
Collagen biosynthesis and modifying enzymes


Phenotype (from MGI, Zfin or HPO)
IDPhenotypeDefinition Genetic BG
 HP:0000007 Autosomal recessive inheritance "A mode of inheritance that is observed for traits related to a gene encoded on one of the autosomes (i.e., the human chromosomes 1-22) in which a trait manifests in homozygotes. In the context of medical genetics, autosomal recessive disorders manifest in homozygotes (with two copies of the mutant allele) or compound heterozygotes (whereby each copy of a gene has a distinct mutant allele)." [HPO:curators]
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 HP:0000272 Malar hypoplasia "Underdeveloped midface region." [HPO:curators]
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 HP:0000343 Long philtrum 
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 HP:0000365 Hearing loss 
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 HP:0000369 Low-set ears "Low-set ears are defined to be set below an arbitrary line drawn between the lateral canthus of the eye and the occipital protruberance." [HPO:curators]
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 HP:0000377 Abnormal form of ears "Abnormal form of the out part of the ear (also referred to as the auricle or pinna)." [HPO:curators]
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 HP:0000463 Nares, anteverted "Anteriorly-facing nostrils viewed with the head in the Frankfurt horizontal and the eyes of the observer level with the eyes of the subject." [pmid:19152422]
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 HP:0000518 Cataract "A cataract is an opacity or clouding that develops in the crystalline `lens` (FMA:58241) of the eye or in its `capsule` (FMA:58881)." [HPO:probinson]
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 HP:0000545 Myopia 
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 HP:0000586 Shallow orbits 
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 HP:0000926 Platyspondyly 
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 HP:0000938 Osteopenia "Osteopenia refers to a reduction in bone mineral density (BMD) below normal peak BMD but not low enough to be classified as osteoporosis. According to the WHO, osteopenia is characterized by a value of BMD more than 1 standard deviation below the young adult mean, but less than 2 standard deviations below this value." [HPO:curators]
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 HP:0000978 Ecchymoses 
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 HP:0001263 Developmental retardation "A delay in the achievement of motor or mental milestones manifested prior to age 18 and generally associated with lifelong mental and/or physical impairments." [HPO:curators]
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 HP:0001511 Intrauterine growth retardation 
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 HP:0001762 Talipes equinovarus "Also called clubfoot typically has 4 main components: inversion and adduction of the forefoot; inversion of the heel and hindfoot; equinus (limitation of extension) of the ankle and subtalar joint; and internal rotation of the leg. Clubfoot is a complex, multifactorial deformity with genetic and intrauterine factors. One popular theory postulates that a clubfoot is a result of intrauterine maldevelopment of the talus that leads to adduction and plantarflexion of the foot. On radiographic projection a clubfoot can be noted as parallel axes of talus and calcaneus." [HPO:curators]
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 HP:0002164 Nail dysplasia 
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 HP:0002208 Coarse hair 
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 HP:0002650 Scoliosis "The presence of an abnormal lateral curvature of the spine." [HPO:curators]
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 HP:0002680 J-shaped sella turcica "A deformity of the sella turcica whereby the sella extends further anterior than normal such that the anterior clinoid process appears to overhang it, giving the appearance of the letter J on imaging of the skull." [HPO:curators]
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 HP:0002714 Downturned corners of mouth "A morphological `abnormality of the mouth` (HP:0000153) in which the `angle of the mouth` (FMA:77269) is downturned." [HPO:probinson]
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 HP:0002756 Pathologic fracture "A pathologic fracture occurs when a bone breaks in an area that is weakened secondary to another disease process such as tumor, infection, and certain inherited bone disorders. A pathologic fracture can occur without a degree of trauma required to cause fracture in healthy bone." [HPO:curators]
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 HP:0002987 Elbow contractures 
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 HP:0003090 Small capital femoral epiphyses 
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 HP:0003196 Nasal hypoplasia "Underdevelopment of the `nose` (FMA:46472)." [HPO:probinson]
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 HP:0003393 Thenar muscle atrophy 
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 HP:0004944 Cerebral aneurysm "The presence of a localized dilatation or ballooning of a cerebral artery." [HPO:curators]
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 HP:0006184 Hypoplastic palmar creases 
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 HP:0008897 Growth retardation, progressive 
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 HP:0009110 Diaphragmatic eventration "A congenital failure of muscular development of part or all of one or both hemidiaphragms, resulting in superior displacement of abdominal viscera and altered lung development." [HPO:curators]
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 HP:0012368 Flat face "Absence of concavity or convexity of the face when viewed in profile." [pmid:19125436]
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 HP:0025019 Arterial rupture "Sudden breakage of an artery leading to leakage of blood from the circulation." [] {comment="HPO:probinson"}
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Interacting proteins (from Reactome)
Interactor ID Name Interaction type
 ENSG00000083444 PLOD1 / Q02809 / procollagen-lysine,2-oxoglutarate 5-dioxygenase 1  / reaction
 ENSG00000106397 PLOD3 / O60568 / procollagen-lysine,2-oxoglutarate 5-dioxygenase 3  / complex / reaction
 ENSG00000152952 PLOD2 / O00469 / procollagen-lysine,2-oxoglutarate 5-dioxygenase 2  / reaction






 

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