Tbio P3H3 Prolyl 3-hydroxylase 3

Protein Classes

PANTHER Classes

Protein / Extracellular Matrix Protein / Extracellular Matrix Glycoprotein / Prolyl 3-Hydroxylase 3

DTO Classes

Protein / Extracellular Structure / Extracellular Matrix Glycoprotein / Prolyl 3-Hydroxylase 3

Protein Summary

Description

Part of a complex composed of PLOD1, P3H3 and P3H4 that catalyzes hydroxylation of lysine residues in collagen alpha chains and is required for normal assembly and cross-linkling of collagen fibrils. Required for normal hydroxylation of lysine residues in type I collagen chains in skin, bone, tendon, aorta and cornea. Required for normal skin stability via its role in hydroxylation of lysine residues in collagen alpha chains and in collagen fibril assembly. Apparently not required for normal prolyl 3-hydroxylation on collagen chains, possibly because it functions redundantly with other prolyl 3-hydroxylases. The protein encoded by this gene belongs to the leprecan family of proteoglycans, which function as collagen prolyl hydroxylases that are required for proper collagen biosynthesis, folding and assembly. This protein, like other family members, is thought to reside in the endoplasmic reticulum. Epigenetic inactivation of this gene is associated with breast and other cancers, suggesting that it may function as a tumor suppressor. [provided by RefSeq, Aug 2013]

Uniprot Accession IDs

• Q8IVL6
• Q13512
• Q15740
• Q66K32
• Q6NX61
• Q7L2T1

Gene Name

• P3H3

Ensembl ID

• ENST00000290510
• ENSP00000478600
• ENSG00000110811

Symbol

• LEPREL2
• GRCB
• LEPREL2
• HSU47926

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
tissue	0.87
molecular function	0.81
gene perturbation	0.73
cellular component	0.61
tissue sample	0.6

Related Tools

Target Illumination GWAS Analytics (TIGA)

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GENEVA

GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.

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GlyGen

GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.

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IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 883.04   (req: < 5)

Gene RIFs: 1   (req: <= 3)

Antibodies: 98   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 883.04   (req: >= 5)

Gene RIFs: 1   (req: > 3)

Antibodies: 98   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 7

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0

GWAS Traits (10)

• Explore on Target Illumination GWAS Analytics (TIGA)

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1 – 5 of 10

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
sex hormone-binding globulin measurement	EFO_0004696	5	2	9		86.1
refractive error measurement	EFO_0007814	2	1	1	7.8	82.4
age at onset	EFO_0004847	1	1	0	7.8	63.4
Myopia	HP_0000545	3	1	0	1.3	63.4
ganglion cell inner plexiform layer thickness measurement	EFO_0600005	1	1	1		58.4

• Explore on Target Illumination GWAS Analytics (TIGA)

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GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
sex hormone-binding globulin measurement	EFO_0004696	9		86.1
refractive error measurement	EFO_0007814	1	7.8	82.4
age at onset	EFO_0004847	0	7.8	63.4
Myopia	HP_0000545	0	1.3	63.4
ganglion cell inner plexiform layer thickness measurement	EFO_0600005	1		58.4

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Orthologs (1)

1 – 1 of 1

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Mouse	prolyl 3-hydroxylase 3	MGI:1315208	14789

Species	Name	OMA	EggNOG	Inparanoid
Mouse	prolyl 3-hydroxylase 3

Protein Structure (0 Structures, 1 AlphaFold Model)

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Representation

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Color Scheme

  target   atomindex   bfactor   chainname   electrostatic   element   hydrophobicity   resname   sstruc

AF-Q8IVL6-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

Pathways (3)

Reactome (3)

Collagen biosynthesis and modifying enzymes (R-HSA-1650814)

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Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Collagen biosynthesis and modifying enzymes	67 targets	R-HSA-1650814
Reactome	Collagen formation	90 targets	R-HSA-1474290
Reactome	Extracellular matrix organization	297 targets	R-HSA-1474244

Name	Explore in Pharos	Explore in Source
Collagen biosynthesis and modifying enzymes	67 targets	R-HSA-1650814
Collagen formation	90 targets	R-HSA-1474290
Extracellular matrix organization	297 targets	R-HSA-1474244

Gene Ontology Terms (9)

Functions (3)

Components (2)

Processes (4)

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10

1 – 3 of 3

GO Term	Evidence	Assigned by
procollagen-proline 3-dioxygenase activity	Inferred from Biological aspect of Ancestor (IBA)	GO_Central
iron ion binding	Inferred from Electronic Annotation (IEA)	InterPro
L-ascorbic acid binding	Inferred from Electronic Annotation (IEA)	UniProtKB-KW

Protein-Protein Interactions (107)

Explore Interacting Targets

1 – 10 of 107

• See Interactions on String-DB

COLQ

Tbio

Family:  Enzyme

Novelty:  0.01414634

p_int:  0.99968181

p_ni:  0.00031819

Score:  0.195

Data Source:  BioPlex,STRINGDB

HRG

Tbio

Novelty:  0.0027048

p_int:  0.999324356

p_ni:  0.000675644

Data Source:  BioPlex

PLOD1

Tbio

Family:  Enzyme

Novelty:  0.00905345

p_int:  0.997593374

p_ni:  0.002406626

Score:  0.428

Data Source:  BioPlex,STRINGDB

DCAF8L2

Tdark

Novelty:  6.73057868

p_int:  0.995629364

p_ni:  0.004370636

Data Source:  BioPlex

KNG1

Tbio

Novelty:  0.00007684

p_int:  0.994106249

p_ni:  0.005893751

Score:  0.17

Data Source:  BioPlex,STRINGDB

SFTPA2

Tbio

Novelty:  0.00283745

p_int:  0.982384134

p_ni:  0.017615866

Data Source:  BioPlex

KEAP1

Tclin

Novelty:  0.00062812

p_int:  0.981224285

p_ni:  0.018775715

Score:  0.173

Data Source:  BioPlex,STRINGDB

SCGB2A2

Tbio

Novelty:  0.01594053

p_int:  0.981102415

p_ni:  0.018897585

Data Source:  BioPlex

C1QTNF9B

Tdark

Novelty:  0.7643008

p_int:  0.973747059

p_ni:  0.026252941

Data Source:  BioPlex

C1QTNF2

Tbio

Novelty:  0.18607978

p_int:  0.968902547

p_ni:  0.031097452

p_wrong:  1e-9

Data Source:  BioPlex

Publication Statistics

PubMed Score  883.04

PubMed score by year

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PubTator Score  41.02

PubTator score by year

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Amino Acid Sequence

Residue Counts

Protein Sequence

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UniProt Keyword Find Similar Targets

No Header	No Header
Alternative splicing
Coiled coil
Complete proteome
Dioxygenase
Endoplasmic reticulum
Glycoprotein
Iron
Metal-binding
Oxidoreductase
Polymorphism

GWAS Trait Find Similar Targets

No Header	No Header
age at onset
colorectal cancer
ganglion cell inner plexiform layer thickness measurement
high density lipoprotein cholesterol measurement
insomnia measurement
Myopia
refractive error measurement
retinal vasculature measurement
sex hormone-binding globulin measurement
smoking status measurement

MGI Phenotype Find Similar Targets

No Header	No Header
behavior/neurological phenotype
homeostasis/metabolism phenotype
integument phenotype