Plod2 procollagen lysine, 2-oxoglutarate 5-dioxygenase 2 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Plod2provided by MGI
Official Full Name: procollagen lysine, 2-oxoglutarate 5-dioxygenase 2provided by MGI
Primary source: MGI:MGI:1347007
See related: Ensembl:ENSMUSG00000032374 AllianceGenome:MGI:1347007
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: LH2; Plod-2; D530025C14Rik
Summary: Predicted to enable procollagen-lysine 5-dioxygenase activity. Predicted to be involved in hydroxylysine biosynthetic process and peptidyl-lysine hydroxylation. Predicted to be located in membrane. Predicted to be active in endoplasmic reticulum. Is expressed in several structures, including alimentary system; brain; cardiovascular system; sensory organ; and skeleton. Orthologous to human PLOD2 (procollagen-lysine,2-oxoglutarate 5-dioxygenase 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in limb E14.5 (RPKM 27.1), adrenal adult (RPKM 20.7) and 16 other tissues See more
Orthologs: human all
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Genomic context

Location:: 9 E3.3; 9 48.4 cM

Exon count:: 21

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	9	NC_000075.7 (92421828..92490481)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	9	NC_000075.6 (92539636..92608428)

Chromosome 9 - NC_000075.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The HIF-1alpha/PLOD2 axis integrates extracellular matrix organization and cell metabolism leading to aberrant musculoskeletal repair.
Title: The HIF-1α/PLOD2 axis integrates extracellular matrix organization and cell metabolism leading to aberrant musculoskeletal repair.
PLOD2, a key factor for MRL MSC metabolism and chondroprotective properties.
Title: PLOD2, a key factor for MRL MSC metabolism and chondroprotective properties.
Lysyl hydroxylase 2 deficiency promotes filopodia formation and fibroblast migration.
Title: Lysyl hydroxylase 2 deficiency promotes filopodia formation and fibroblast migration.
Homozygous lysyl hydroxylase 2 knockout (LH2(-/-)) embryos failed to develop normally and died at early embryonic stage E10.5 with abnormal common ventricle in a heart, i.e., an insufficient wall, a thin ventricular wall, and loosely packed cells.
Title: Deficiency of lysyl hydroxylase 2 in mice causes systemic endoplasmic reticulum stress leading to early embryonic lethality.
Data suggest a pro-metastatic GATA3 Transcription Factor (GATA3)- lysyl hydroxylases (LHs) axis for lung cancer, supporting the notion that targeting LHs may be useful for treating lung cancer.
Title: Lysyl hydroxylases are transcription targets for GATA3 driving lung cancer cell metastasis.
FKBP65 regulates LH2-mediated collagen cross-linking.
Title: FKBP65-dependent peptidyl-prolyl isomerase activity potentiates the lysyl hydroxylase 2-driven collagen cross-link switch.
The finding that LH2 modifies collagen in the extracellular space challenges the current view that LH2 functions solely on the endoplasmic reticulum and could also have important implications for cancer biology.
Title: Lysyl Hydroxylase 2 Is Secreted by Tumor Cells and Can Modify Collagen in the Extracellular Space.
Authors propose that lysyl hydroxylase 2, and the subsequent increase in pyridinoline cross-links, is responsible for the persistent fibrosis in experimental osteoarthritis.
Title: Osteoarthritis-related fibrosis is associated with both elevated pyridinoline cross-link formation and lysyl hydroxylase 2b expression.
TIA1 and TIAL1 regulate the alternate splicing of lysyl hydroxylase 2
Title: TIA nuclear proteins regulate the alternate splicing of lysyl hydroxylase 2.
LH2b catalyzes post-translational modification of collagen in collagen matrix formation and mineralization in bone.
Title: Overexpression of lysyl hydroxylase-2b leads to defective collagen fibrillogenesis and matrix mineralization.

Submit: New GeneRIF Correction See all GeneRIFs (12)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (7) 1 citation
Targeted (1) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Plod2 (e-PCR), detects polymorphism
- UniSTS:205461

Plod2 (e-PCR), detects polymorphism
- UniSTS:259245

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables L-ascorbic acid binding	IEA Inferred from Electronic Annotation more info
enables dioxygenase activity	IEA Inferred from Electronic Annotation more info
enables iron ion binding	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables oxidoreductase activity	IEA Inferred from Electronic Annotation more info
enables oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen	IEA Inferred from Electronic Annotation more info
enables procollagen-lysine 5-dioxygenase activity	IBA Inferred from Biological aspect of Ancestor more info
enables procollagen-lysine 5-dioxygenase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in hydroxylysine biosynthetic process	ISO Inferred from Sequence Orthology more info
involved_in peptidyl-lysine hydroxylation	IBA Inferred from Biological aspect of Ancestor more info
involved_in peptidyl-lysine hydroxylation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in endoplasmic reticulum	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: procollagen-lysine,2-oxoglutarate 5-dioxygenase 2

Names: lysyl hydroxylase 2

NP_001136388.1

EC 1.14.11.4

NP_036091.2

EC 1.14.11.4

XP_030100253.1

EC 1.14.11.4

XP_036010914.1

EC 1.14.11.4

XP_036010915.1

EC 1.14.11.4

NCBI Reference Sequences (RefSeq)

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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.

mRNA and Protein(s)

NM_001142916.1 → NP_001136388.1 procollagen-lysine,2-oxoglutarate 5-dioxygenase 2 isoform 1 precursor

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1, also known as LH2b).

Source sequence(s)

AC165156, AF080572, AK033363, AV488215, BB644981, CF615856

Consensus CDS

CCDS52887.1

UniProtKB/TrEMBL

E9Q718, Q3U055

Related

ENSMUSP00000125373.2, ENSMUST00000160359.2

Conserved Domains (1) summary

smart00702
Location:593 → 756

P4Hc; Prolyl 4-hydroxylase alpha subunit homologues
NM_011961.3 → NP_036091.2 procollagen-lysine,2-oxoglutarate 5-dioxygenase 2 isoform 2 precursor

See identical proteins and their annotated locations for NP_036091.2

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an internal in-frame coding exon compared to transcript variant 1, resulting in a shorter isoform (2, also known as LH2a) missing a 21 aa protein segment compared to isoform 1.

Source sequence(s)

AC165156, AF080572, AV488215, BB644981, CF615856

Consensus CDS

CCDS23408.1

UniProtKB/Swiss-Prot

E9QM54, Q8VDT4, Q9R0B9

UniProtKB/TrEMBL

Q3U055

Related

ENSMUSP00000068611.8, ENSMUST00000070522.14

Conserved Domains (2) summary

smart00702
Location:572 → 735

P4Hc; Prolyl 4-hydroxylase alpha subunit homologues

COG0463
Location:347 → 572

WcaA; Glycosyltransferase involved in cell wall bisynthesis [Cell wall/membrane/envelope biogenesis]

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000075.7 Reference GRCm39 C57BL/6J

Range

92421828..92490481

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036155022.1 → XP_036010915.1 procollagen-lysine,2-oxoglutarate 5-dioxygenase 2 isoform X2

Conserved Domains (1) summary

smart00702
Location:220 → 383

P4Hc; Prolyl 4-hydroxylase alpha subunit homologues
XM_030244393.2 → XP_030100253.1 procollagen-lysine,2-oxoglutarate 5-dioxygenase 2 isoform X2

Conserved Domains (1) summary

smart00702
Location:220 → 383

P4Hc; Prolyl 4-hydroxylase alpha subunit homologues
XM_036155021.1 → XP_036010914.1 procollagen-lysine,2-oxoglutarate 5-dioxygenase 2 isoform X1