Tdark COL28A1 Collagen alpha-1(XXVIII) chain

Protein Summary

Description

May act as a cell-binding protein. COL28A1 belongs to a class of collagens containing von Willebrand factor (VWF; MIM 613160) type A (VWFA) domains (Veit et al., 2006 [PubMed 16330543]).[supplied by OMIM, Nov 2010]

Uniprot Accession IDs

• Q2UY09
• A4D101
• A4D106
• A4D107
• A8MVR2
• B9EGX9
• Q2UY07
• Q2UY08

Gene Name

• COL28A1

Ensembl ID

• ENST00000399429
• ENSP00000382356
• ENSG00000215018

Symbol

• COL28
• COL28

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
cellular component	0.7
tissue	0.62
protein domain	0.58
phenotype	0.57
cell line	0.56

Protein Classes

PANTHER Classes

Protein / Extracellular Matrix Protein / Extracellular Matrix Structural Protein / Collagen Alpha-1(xxviii) Chain

DTO Classes

Protein / Extracellular Structure / Extracellular Matrix Structural Protein / Collagen Alpha-1(xxviii) Chain

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: 0.66   (req: < 5)

Gene RIFs: 4   (req: <= 3)

Antibodies: 18   (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: 0.66   (req: >= 5)

Gene RIFs: 4   (req: > 3)

Antibodies: 18   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 5

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

Protein Sequence and Structure

Residue Counts

Protein Sequence

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Expression Data (0 Tissues)

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No expression data found

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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ARCHS4

ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.

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Approved Drugs (0)

No approved drugs found

Active Ligands (0)

No active ligands found

Protein-Protein Interactions (79)

Explore Interacting Targets

1 – 10 of 79

• See Interactions on String-DB

COL4A6

Tbio

Novelty:  0.02524039

Score:  0.927

Data Source:  STRINGDB

COL1A1

Tbio

Novelty:  0.00063584

Score:  0.927

Data Source:  STRINGDB

COL27A1

Tbio

Novelty:  0.03450245

Score:  0.924

Data Source:  STRINGDB

COL22A1

Tbio

Novelty:  0.12180316

Score:  0.923

Data Source:  STRINGDB

COL5A3

Tbio

Novelty:  0.06365591

Score:  0.922

Data Source:  STRINGDB

COL4A2

Tbio

Novelty:  0.00782053

Score:  0.921

Data Source:  STRINGDB

COL1A2

Tbio

Novelty:  0.00048334

Score:  0.921

Data Source:  STRINGDB

COL4A4

Tbio

Novelty:  0.00833684

Score:  0.92

Data Source:  STRINGDB

COL14A1

Tbio

Novelty:  0.01760399

Score:  0.918

Data Source:  STRINGDB

P3H2

Tbio

Family:  Enzyme

Novelty:  0.04237396

Score:  0.918

Data Source:  STRINGDB

Nearest Tclin Targets

Nearest Tclin calculations are only available for targets with KEGG Pathway annotations.

Pathways (5)

Reactome (4)

KEGG (1)

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

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1 – 4 of 4

Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Collagen biosynthesis and modifying enzymes	67 targets	R-HSA-1650814
Reactome	Collagen chain trimerization	44 targets	R-HSA-8948216
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 chain trimerization	44 targets	R-HSA-8948216
Collagen formation	90 targets	R-HSA-1474290
Extracellular matrix organization	297 targets	R-HSA-1474244

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (12)

Functions (3)

Components (7)

Processes (2)

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10

1 – 3 of 3

GO Term	Evidence	Assigned by
extracellular matrix structural constituent conferring tensile strength	Inferred from High Throughput Direct Assay (HDA)	BHF-UCL
extracellular matrix structural constituent	Inferred from Biological aspect of Ancestor (IBA)	GO_Central
serine-type endopeptidase inhibitor activity	Inferred from Electronic Annotation (IEA)	UniProtKB-KW

Disease Associations ()

No disease associations found

GWAS Traits (1)

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

1 – 1 of 1

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
diastolic blood pressure	EFO_0006336	1	1	1		12.9

• Explore on Target Illumination GWAS Analytics (TIGA)

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GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
diastolic blood pressure	EFO_0006336	1		12.9

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Find similar targets by:

UniProt Keyword Find Similar Targets

No Header	No Header
Alternative splicing
Basement membrane
Cell adhesion
Collagen
Complete proteome
Disulfide bond
Extracellular matrix
Polymorphism
Protease inhibitor
Reference proteome

GWAS Trait Find Similar Targets

No Header	No Header
diastolic blood pressure

IDG Resources

No IDG generated resources found

Orthologs (5)

1 – 5 of 5

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Mouse	collagen, type XXVIII, alpha 1	MGI:2685312	213945
Dog	collagen type XXVIII alpha 1 chain	VGNC:39470	482315
Horse	collagen type XXVIII alpha 1 chain	VGNC:16736	100063901
Anole lizard	collagen type XXVIII alpha 1 chain		100562364
Xenopus	collagen type XXVIII alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:22442]

Species	Name	OMA	EggNOG	Inparanoid
Mouse	collagen, type XXVIII, alpha 1
Dog	collagen type XXVIII alpha 1 chain
Horse	collagen type XXVIII alpha 1 chain
Anole lizard	collagen type XXVIII alpha 1 chain
Xenopus	collagen type XXVIII alpha 1 chain [Source:HGNC Symbol;Acc:HGNC:22442]

Publication Statistics

PubMed Score 0.66

PubMed score by year

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PubTator Score 1.20

PubTator score by year

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Related Publications

Text Mined References (12)

GeneRif Annotations (4)

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PMID	Year	Title