Tbio LAMC1 Laminin subunit gamma-1

Protein Summary

Description

Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organization of cells into tissues during embryonic development by interacting with other extracellular matrix components. Laminins, a family of extracellular matrix glycoproteins, are the major noncollagenous constituent of basement membranes. They have been implicated in a wide variety of biological processes including cell adhesion, differentiation, migration, signaling, neurite outgrowth and metastasis. Laminins, composed of 3 non identical chains: laminin alpha, beta and gamma (formerly A, B1, and B2, respectively), have a cruciform structure consisting of 3 short arms, each formed by a different chain, and a long arm composed of all 3 chains. Each laminin chain is a multidomain protein encoded by a distinct gene. Several isoforms of each chain have been described. Different alpha, beta and gamma chain isomers combine to give rise to different heterotrimeric laminin isoforms which are designated by Arabic numerals in the order of their discovery, i.e. alpha1beta1gamma1 heterotrimer is laminin 1. The biological functions of the different chains and trimer molecules are largely unknown, but some of the chains have been shown to differ with respect to their tissue distribution, presumably reflecting diverse functions in vivo. This gene encodes the gamma chain isoform laminin, gamma 1. The gamma 1 chain, formerly thought to be a beta chain, contains structural domains similar to beta chains, however, lacks the short alpha region separating domains I and II. The structural organization of this gene also suggested that it had diverged considerably from the beta chain genes. Embryos of transgenic mice in which both alleles of the gamma 1 chain gene were inactivated by homologous recombination, lacked basement membranes, indicating that laminin, gamma 1 chain is necessary for laminin heterotrimer assembly. It has been inferred by analogy with the strikingly similar 3' UTR sequence in mouse laminin gamma 1 cDNA, that multiple polyadenylation sites are utilized in human to generate the 2 different sized mRNAs (5.5 and 7.5 kb) seen on Northern analysis. [provided by RefSeq, Aug 2011]

Uniprot Accession IDs

• P11047
• Q5VYE7

Gene Name

• LAMC1

Ensembl ID

• ENST00000258341
• ENSP00000258341
• ENSG00000135862

Symbol

• LAMB2
• LAMB2

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
transcription factor perturbation	1
disease perturbation	0.95
transcription factor binding site profile	0.94
PubMedID	0.9
protein domain	0.85

Protein Classes

PANTHER Classes

Protein / Receptor / Laminin Subunit Gamma-1

Protein / Extracellular Matrix Protein / Extracellular Matrix Linker Protein / Laminin Subunit Gamma-1

Protein / ... / Protease Inhibitor / Laminin Subunit Gamma-1

DTO Classes

Protein / Enzyme Modulator / Protease Inhibitor / Laminin Subunit Gamma-1

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: 82.21   (req: < 5)

Gene RIFs: 45   (req: <= 3)

Antibodies: 469   (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: 82.21   (req: >= 5)

Gene RIFs: 45   (req: > 3)

Antibodies: 469   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 12

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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Show Full Sequence

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Expression Data (0 Tissues)

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No expression data found

Related Tools

Target Illumination GWAS Analytics (TIGA)

TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.

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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 (223)

Explore Interacting Targets

1 – 10 of 223

• See Interactions on String-DB

FAM9C

Tdark

Novelty:  0.86727989

p_int:  0.994922403

p_ni:  0.005077597

Data Source:  BioPlex

ABRAXAS2

Tbio

Novelty:  0.20430604

p_int:  0.960894779

p_ni:  0.039105221

Score:  0.2

Data Source:  BioPlex,STRINGDB

TXLNB

Tbio

Novelty:  0.12751933

p_int:  0.951873511

p_ni:  0.048126489

Score:  0.188

Data Source:  BioPlex,STRINGDB

CLEC11A

Tbio

Novelty:  0.03060601

p_int:  0.937981661

p_ni:  0.062018339

Score:  0.181

Data Source:  BioPlex,STRINGDB

TGFB1

Tbio

Novelty:  0.0001299

p_int:  0.904102275

p_ni:  0.095897725

Score:  0.426

Data Source:  BioPlex,STRINGDB

ABRAXAS1

Tbio

Novelty:  0.07078408

p_int:  0.848421637

p_ni:  0.151578363

Score:  0.309

Data Source:  BioPlex,STRINGDB

PNLIP

Tclin

Family:  Enzyme

Novelty:  0.00043254

p_int:  0.75985577

p_ni:  0.24014423

Score:  0.214

Data Source:  BioPlex,STRINGDB

NID1

Tbio

Novelty:  0.00169075

Score:  0.995

Data Source:  STRINGDB

LAMA5

Tbio

Novelty:  0.02247145

Score:  0.995

Data Source:  Reactome,STRINGDB

LAMB1

Tbio

Novelty:  0.0104285

Score:  0.992

Data Source:  Reactome,STRINGDB

Nearest Tclin Targets (2)

Explore Nearest Tclin Targets

Downstream (2)

1 – 2 of 2

ITGB1

Tclin

Family:  Other

KEGG Distance:  1

Common Pathways:  7

1: PI3K-Akt signaling pathway

2: ECM-receptor interaction

3: Focal adhesion

4: Small cell lung cancer

more:  3 more common pathways

SV2A

Tclin

Family:  Other

KEGG Distance:  1

Common Pathways:  1

1: ECM-receptor interaction

Pathways (42)

Reactome (17)

KEGG (9)

PathwayCommons (7)

WikiPathways (9)

Axon guidance (R-HSA-422475)

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Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Axon guidance	533 targets	R-HSA-422475
Reactome	Degradation of the extracellular matrix	111 targets	R-HSA-1474228
Reactome	Developmental Biology	1055 targets	R-HSA-1266738
Reactome	ECM proteoglycans	56 targets	R-HSA-3000178
Reactome	Extracellular matrix organization	297 targets	R-HSA-1474244

Name	Explore in Pharos	Explore in Source
Axon guidance	533 targets	R-HSA-422475
Degradation of the extracellular matrix	111 targets	R-HSA-1474228
Developmental Biology	1055 targets	R-HSA-1266738
ECM proteoglycans	56 targets	R-HSA-3000178
Extracellular matrix organization	297 targets	R-HSA-1474244

Viral Interactions (0)

No viral interactions found

Gene Ontology Terms (21)

Functions (1)

Components (9)

Processes (11)

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10

1 – 1 of 1

GO Term	Evidence	Assigned by
extracellular matrix structural constituent	Inferred from Mutant Phenotype (IMP)	HGNC

Disease Associations ()

No disease associations found

GWAS Traits (16)

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

1 – 5 of 16

GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
colorectal cancer	EFO_0005842	3	3	0	1.1	82.9
chronotype measurement	EFO_0008328	1	1	0	1.2	71.9
colorectal adenoma	EFO_0005406	1	1	0	1.1	66.8
Fuchs endothelial corneal dystrophy	Orphanet_98974	1	1	0	1.4	65.5
heel bone mineral density	EFO_0009270	1	1	1		49.5

• Explore on Target Illumination GWAS Analytics (TIGA)

Items per page:

5

1 – 5 of 16

GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
colorectal cancer	EFO_0005842	0	1.1	82.9
chronotype measurement	EFO_0008328	0	1.2	71.9
colorectal adenoma	EFO_0005406	0	1.1	66.8
Fuchs endothelial corneal dystrophy	Orphanet_98974	0	1.4	65.5
heel bone mineral density	EFO_0009270	1		49.5

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Find similar targets by:

UniProt Keyword Find Similar Targets

No Header	No Header
3D-structure
Basement membrane
Cell adhesion
Coiled coil
Complete proteome
Disulfide bond
Extracellular matrix
Glycoprotein
Laminin EGF-like domain
Phosphoprotein

GWAS Trait Find Similar Targets

No Header	No Header
acne
apolipoprotein A 1 measurement
body height
chronotype measurement
colorectal adenoma
colorectal cancer
diastolic blood pressure
Fuchs endothelial corneal dystrophy
heel bone mineral density
hemoglobin measurement

MGI Phenotype Find Similar Targets

No Header	No Header
behavior/neurological phenotype
cardiovascular system phenotype
cellular phenotype
embryo phenotype
endocrine/exocrine gland phenotype
growth/size/body region phenotype
homeostasis/metabolism phenotype
mortality/aging
muscle phenotype
nervous system phenotype

IDG Resources

No IDG generated resources found

Orthologs (15)

1 – 5 of 15

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	laminin subunit gamma 1	VGNC:6903	457570
Macaque	laminin subunit gamma 1		715265
Mouse	laminin, gamma 1	MGI:99914	226519
Rat	laminin subunit gamma 1	RGD:621052	117036
Dog	laminin subunit gamma 1	VGNC:42571	480034

Species	Name	OMA	EggNOG	Inparanoid
Chimp	laminin subunit gamma 1
Macaque	laminin subunit gamma 1
Mouse	laminin, gamma 1
Rat	laminin subunit gamma 1
Dog	laminin subunit gamma 1

Publication Statistics

PubMed Score 82.21

PubMed score by year

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PubTator Score 46.10

PubTator score by year

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Related Publications

Text Mined References (89)

GeneRif Annotations (45)

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10

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PMID	Year	Title