Tbio PICALM Phosphatidylinositol-binding clathrin assembly protein

Protein Summary

Description

Assembly protein recruiting clathrin and adapter protein complex 2 (AP2) to cell membranes at sites of coated-pit formation and clathrin-vesicle assembly. May be required to determine the amount of membrane to be recycled, possibly by regulating the size of the clathrin cage. Involved in AP2-dependent clathrin-mediated endocytosis at the neuromuscular junction. This gene encodes a clathrin assembly protein, which recruits clathrin and adaptor protein complex 2 (AP2) to cell membranes at sites of coated-pit formation and clathrin-vesicle assembly. The protein may be required to determine the amount of membrane to be recycled, possibly by regulating the size of the clathrin cage. The protein is involved in AP2-dependent clathrin-mediated endocytosis at the neuromuscular junction. A chromosomal translocation t(10;11)(p13;q14) leading to the fusion of this gene and the MLLT10 gene is found in acute lymphoblastic leukemia, acute myeloid leukemia and malignant lymphomas. The polymorphisms of this gene are associated with the risk of Alzheimer disease. Multiple alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, May 2011]

Uniprot Accession IDs

• Q13492
• B4DTM3
• E9PN05
• F8VPG7
• O60700
• Q4LE54
• Q6GMQ6
• Q86XZ9

Gene Name

• PICALM

Ensembl ID

• ENST00000356360
• ENSP00000348718
• ENSG00000073921
• ENST00000393346
• ENSP00000377015
• ENST00000526033
• ENSP00000433846
• ENST00000528398
• ENSP00000434884
• ENST00000532317
• ENSP00000436958

Symbol

• CALM
• LAP
• CALM
• CLTH

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
interacting protein	0.99
transcription factor perturbation	0.97
virus perturbation	0.97
biological process	0.95
disease perturbation	0.93

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: 122.18   (req: < 5)

Gene RIFs: 86   (req: <= 3)

Antibodies: 179   (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: 122.18   (req: >= 5)

Gene RIFs: 86   (req: > 3)

Antibodies: 179   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 45

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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Target Illumination GWAS Analytics (TIGA)

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GENEVA

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GlyGen

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ARCHS4

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Protein-Protein Interactions (262)

Explore Interacting Targets

1 – 10 of 262

• See Interactions on String-DB

CLTCL1

Tbio

Novelty:  0.05667807

p_int:  0.999982724

p_ni:  0.000017276

Score:  0.983

Data Source:  BioPlex,STRINGDB

BMP2K

Tchem

Family:  Kinase

Novelty:  0.10145601

p_int:  0.999954359

p_ni:  0.000045641

Score:  0.876

Data Source:  BioPlex,STRINGDB

PIK3C2A

Tchem

Family:  Kinase

Novelty:  0.0002219

p_int:  0.99986396

p_ni:  0.000136033

p_wrong:  6e-9

Score:  0.971

Data Source:  BioPlex,STRINGDB

STAMBPL1

Tbio

Family:  Enzyme

Novelty:  0.08532786

p_int:  0.999529058

p_ni:  0.000470942

Score:  0.826

Data Source:  BioPlex,STRINGDB

GTSE1

Tbio

Family:  Enzyme

Novelty:  0.0460569

p_int:  0.995942244

p_ni:  0.004057755

Score:  0.604

Data Source:  BioPlex,STRINGDB

AP2A1

Tbio

Novelty:  0.08554974

p_int:  0.972074487

p_ni:  0.027925513

Score:  0.984

Data Source:  BioPlex,STRINGDB

RALBP1

Tbio

Novelty:  0.01525176

p_int:  0.969693083

p_ni:  0.030306916

Score:  0.524

Data Source:  BioPlex,STRINGDB

CLINT1

Tbio

Novelty:  0.00945381

p_int:  0.943880344

p_ni:  0.056119656

Score:  0.995

Data Source:  BioPlex,STRINGDB

EPS15

Tchem

Novelty:  0.00451447

p_int:  0.848059761

p_ni:  0.151940239

Score:  0.989

Data Source:  BioPlex,STRINGDB

SNRNP27

Tbio

Novelty:  0.0175187

p_int:  0.76823135

p_ni:  0.231758885

p_wrong:  0.000009765

Data Source:  BioPlex

Pathways (6)

Reactome (6)

Cargo recognition for clathrin-mediated endocytosis (R-HSA-8856825)

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Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Cargo recognition for clathrin-mediated endocytosis	105 targets	R-HSA-8856825
Reactome	Clathrin-mediated endocytosis	143 targets	R-HSA-8856828
Reactome	Golgi Associated Vesicle Biogenesis	56 targets	R-HSA-432722
Reactome	Membrane Trafficking	612 targets	R-HSA-199991
Reactome	Vesicle-mediated transport	725 targets	R-HSA-5653656

Name	Explore in Pharos	Explore in Source
Cargo recognition for clathrin-mediated endocytosis	105 targets	R-HSA-8856825
Clathrin-mediated endocytosis	143 targets	R-HSA-8856828
Golgi Associated Vesicle Biogenesis	56 targets	R-HSA-432722
Membrane Trafficking	612 targets	R-HSA-199991
Vesicle-mediated transport	725 targets	R-HSA-5653656

Gene Ontology Terms (63)

Functions (8)

Components (18)

Processes (37)

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1 – 8 of 8

GO Term	Evidence	Assigned by
clathrin binding	Inferred from Direct Assay (IDA)	UniProtKB
clathrin heavy chain binding	Inferred from Direct Assay (IDA)	BHF-UCL
low-density lipoprotein particle receptor binding	Inferred from Physical Interaction (IPI)	ARUK-UCL
Rab GTPase binding	Inferred from Physical Interaction (IPI)	ARUK-UCL
tau protein binding	Inferred from Physical Interaction (IPI)	Alzheimers_University_of_Toronto
cadherin binding	Inferred from High Throughput Direct Assay (HDA)	BHF-UCL
1-phosphatidylinositol binding	Inferred from Sequence or structural Similarity (ISS)	UniProtKB
phosphatidylinositol-4,5-bisphosphate binding	Inferred from Sequence or structural Similarity (ISS)	ARUK-UCL

GWAS Traits (10)

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GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
Alzheimer's disease	EFO_0000249	12	7	0	1.2	95.9
family history of Alzheimer’s disease	EFO_0009268	3	3	0	1.1	91.3
platelet count	EFO_0004309	2	2	2		79.8
mean platelet volume	EFO_0004584	2	2	2		55.2
serum albumin measurement	EFO_0004535	1	1	1		30.2

• Explore on Target Illumination GWAS Analytics (TIGA)

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5

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GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
Alzheimer's disease	EFO_0000249	0	1.2	95.9
family history of Alzheimer’s disease	EFO_0009268	0	1.1	91.3
platelet count	EFO_0004309	2		79.8
mean platelet volume	EFO_0004584	2		55.2
serum albumin measurement	EFO_0004535	1		30.2

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Find similar targets by:

UniProt Keyword Find Similar Targets

No Header	No Header
Acetylation
Alternative splicing
Chromosomal rearrangement
Coated pit
Complete proteome
Cytoplasmic vesicle
Endocytosis
Golgi apparatus
Isopeptide bond
Membrane

GWAS Trait Find Similar Targets

No Header	No Header
Alzheimer's disease
family history of Alzheimer’s disease
mathematical ability
mean platelet volume
platelet count
red blood cell distribution width
reticulocyte count
reticulocyte measurement
self reported educational attainment
serum albumin measurement

MGI Phenotype Find Similar Targets

No Header	No Header
cellular phenotype
embryo phenotype
growth/size/body region phenotype
hematopoietic system phenotype
homeostasis/metabolism phenotype
immune system phenotype
integument phenotype
liver/biliary system phenotype
mortality/aging
pigmentation phenotype

Orthologs (9)

1 – 5 of 9

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	phosphatidylinositol binding clathrin assembly protein	VGNC:3070	451725
Macaque	phosphatidylinositol binding clathrin assembly protein		706003
Mouse	phosphatidylinositol binding clathrin assembly protein	MGI:2385902	233489
Rat	phosphatidylinositol binding clathrin assembly protein	RGD:621054	89816
Dog	phosphatidylinositol binding clathrin assembly protein	VGNC:44524	476780

Species	Name	OMA	EggNOG	Inparanoid
Chimp	phosphatidylinositol binding clathrin assembly protein
Macaque	phosphatidylinositol binding clathrin assembly protein
Mouse	phosphatidylinositol binding clathrin assembly protein
Rat	phosphatidylinositol binding clathrin assembly protein
Dog	phosphatidylinositol binding clathrin assembly protein

Publication Statistics

PubMed Score 122.18

PubMed score by year

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PubTator Score 97.91

PubTator score by year

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