ASpdb: an integrative knowledgebase of human protein isoforms from experimental and AI-predicted structures

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	Protein Summary
	AS Summary
	Protein Functional Features
	Gene Isoform Structures and Expression Levels
	Protein Structures
	pLDDT Score Distribution
	Ramachandran Plot of Protein Structures
	Potential Active Site Information
	Protein Structure and Feature Comparision
	Protein-Protein Interaction
	Related Drugs
	Related Diseases
	Clinically Important Variants

Protein:CD36

Protein Summary

Gene summary

Gene name: CD36
ASpdb.0 ID: 948
	Gene
Gene symbol	CD36
Gene ID	948
Gene name	CD36 molecule (CD36 blood group)
Synonyms	BDPLT10\|CHDS7\|FAT\|GP3B\|GP4\|GPIV\|PASIV\|SCARB3
Cytomap	7q21.11
Type of gene	protein-coding
Description	platelet glycoprotein 4CD36 antigen (collagen type I receptor, thrombospondin receptor)CD36 molecule (thrombospondin receptor)GPIIIBPAS IVPAS-4 proteincluster determinant 36fatty acid translocaseglycoprotein IIIbleukocyte differentiation antigen
Modification date	20240411
UniProtAcc	P16671

Gene ontology of this gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner	Gene	GO ID	GO term	PubMed ID
Gene	CD36	GO:0001540	amyloid-beta binding	29518356
Gene	CD36	GO:0001954	positive regulation of cell-matrix adhesion	17416590
Gene	CD36	GO:0005504	fatty acid binding	32958780
Gene	CD36	GO:0005794	Golgi apparatus	16880211
Gene	CD36	GO:0005886	plasma membrane	22022213\|24503477
Gene	CD36	GO:0005901	caveola	32958780
Gene	CD36	GO:0008289	lipid binding	10772654
Gene	CD36	GO:0009986	cell surface	10772654
Gene	CD36	GO:0015911	long-chain fatty acid import across plasma membrane	24503477
Gene	CD36	GO:0019934	cGMP-mediated signaling	17416590
Gene	CD36	GO:0030169	low-density lipoprotein particle binding	10772654
Gene	CD36	GO:0038060	nitric oxide-cGMP-mediated signaling	17416590
Gene	CD36	GO:0044539	long-chain fatty acid import into cell	17416590\|22022213
Gene	CD36	GO:0045121	membrane raft	16880211
Gene	CD36	GO:0071726	cellular response to diacyl bacterial lipopeptide	16880211
Gene	CD36	GO:0071813	lipoprotein particle binding	9568716
Gene	CD36	GO:0071944	cell periphery	26449856
Gene	CD36	GO:1901480	oleate transmembrane transporter activity	24503477

AS Summary

Information of the canonical protein with experimentally identified structure from PDB (2023).

UniProt Acc	File name	PDB ID	Method	Resolution	Chain	Start	End
P16671-1	P16671-1_5lgd_A.pdb	5LGD	X-ray	2.07	A	35	434

ASpdb's canonical and alternatively spliced isoform information.

accession_id

gene_name

canonical_id

alternative_id

canonical_length

alternative_length

canonical_start

canonical_end

type

originalSEQ

variationSEQ

alternative_start

alternative_end

P16671

CD36

P16671-1

P16671-2

472

288

274

288

Substitution

SIYAVFESDVNLKGI

ETCVHFTSSFSVCKS

274

288

P16671

CD36

P16671-1

P16671-2

472

288

289

472

Deletion

none

288

P16671

CD36

P16671-1

P16671-3

472

433

234

272

Deletion

none

233

P16671

CD36

P16671-1

P16671-4

472

412

144

203

Deletion

none

143

Multiple sequence alignment of our canonical and alternatively spliced CD36

Matched gene isoform IDs with Ensembl and RefSeq of our canonical and alternative spliced genes of CD36

UniProt-id	ENSG	ENST	ENSP
P16671-1	ENSG00000135218.19	ENST00000309881.11	ENSP00000308165.7
P16671-1	ENSG00000135218.19	ENST00000394788.7	ENSP00000378268.3
P16671-1	ENSG00000135218.19	ENST00000432207.5	ENSP00000411411.1
P16671-1	ENSG00000135218.19	ENST00000435819.5	ENSP00000399421.1
P16671-1	ENSG00000135218.19	ENST00000447544.7	ENSP00000415743.2
P16671-2	ENSG00000135218.19	ENST00000544133.5	ENSP00000441956.1
P16671-3	ENSG00000135218.19	ENST00000433696.6	ENSP00000401863.2
P16671-4	ENSG00000135218.19	ENST00000538969.5	ENSP00000439543.1

UniProt-id	NM ID	NP ID
P16671-1	NM_000072.3	NP_000063.2
P16671-1	NM_001001547.2	NP_001001547.1
P16671-1	NM_001001548.2	NP_001001548.1
P16671-1	NM_001127443.1	NP_001120915.1
P16671-1	NM_001127444.1	NP_001120916.1
P16671-1	XM_005250715.4	XP_005250772.1
P16671-3	NM_001289908.1	NP_001276837.1
P16671-4	NM_001289909.1	NP_001276838.1

Amino acid sequences of our canonical and alternatively spliced CD36

accession_id	Protein sequence
P16671-1	MGCDRNCGLIAGAVIGAVLAVFGGILMPVGDLLIQKTIKKQVVLEEGTIAFKNWVKTGTEVYRQFWIFDVQNPQEVMMNSSNIQVKQRGP YTYRVRFLAKENVTQDAEDNTVSFLQPNGAIFEPSLSVGTEADNFTVLNLAVAAASHIYQNQFVQMILNSLINKSKSSMFQVRTLRELLW GYRDPFLSLVPYPVTTTVGLFYPYNNTADGVYKVFNGKDNISKVAIIDTYKGKRNLSYWESHCDMINGTDAASFPPFVEKSQVLQFFSSD ICRSIYAVFESDVNLKGIPVYRFVLPSKAFASPVENPDNYCFCTEKIISKNCTSYGVLDISKCKEGRPVYISLPHFLYASPDVSEPIDGL NPNEEEHRTYLDIEPITGFTLQFAKRLQVNLLVKPSEKIQVLKNLKRNYIVPILWLNETGTIGDEKANMFRSQVTGKINLLGLIEMILLS
P16671-2	MGCDRNCGLIAGAVIGAVLAVFGGILMPVGDLLIQKTIKKQVVLEEGTIAFKNWVKTGTEVYRQFWIFDVQNPQEVMMNSSNIQVKQRGP YTYRVRFLAKENVTQDAEDNTVSFLQPNGAIFEPSLSVGTEADNFTVLNLAVAAASHIYQNQFVQMILNSLINKSKSSMFQVRTLRELLW GYRDPFLSLVPYPVTTTVGLFYPYNNTADGVYKVFNGKDNISKVAIIDTYKGKRNLSYWESHCDMINGTDAASFPPFVEKSQVLQFFSSD
P16671-3	MGCDRNCGLIAGAVIGAVLAVFGGILMPVGDLLIQKTIKKQVVLEEGTIAFKNWVKTGTEVYRQFWIFDVQNPQEVMMNSSNIQVKQRGP YTYRVRFLAKENVTQDAEDNTVSFLQPNGAIFEPSLSVGTEADNFTVLNLAVAAASHIYQNQFVQMILNSLINKSKSSMFQVRTLRELLW GYRDPFLSLVPYPVTTTVGLFYPYNNTADGVYKVFNGKDNISKVAIIDTYKGKRSIYAVFESDVNLKGIPVYRFVLPSKAFASPVENPDN YCFCTEKIISKNCTSYGVLDISKCKEGRPVYISLPHFLYASPDVSEPIDGLNPNEEEHRTYLDIEPITGFTLQFAKRLQVNLLVKPSEKI
P16671-4	MGCDRNCGLIAGAVIGAVLAVFGGILMPVGDLLIQKTIKKQVVLEEGTIAFKNWVKTGTEVYRQFWIFDVQNPQEVMMNSSNIQVKQRGP YTYRVRFLAKENVTQDAEDNTVSFLQPNGAIFEPSLSVGTEADNFTVLNLAVAYNNTADGVYKVFNGKDNISKVAIIDTYKGKRNLSYWE SHCDMINGTDAASFPPFVEKSQVLQFFSSDICRSIYAVFESDVNLKGIPVYRFVLPSKAFASPVENPDNYCFCTEKIISKNCTSYGVLDI SKCKEGRPVYISLPHFLYASPDVSEPIDGLNPNEEEHRTYLDIEPITGFTLQFAKRLQVNLLVKPSEKIQVLKNLKRNYIVPILWLNETG

Protein Functional Features

Main function of this protein. (from UniProt)

CD36 (go to UniProt):P16671

Retention analysis result of protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at
download page
* Minus value of BPloci means that the break pointn is located before the CDS.

- Retained protein feature among the 13 regional features.

Accession_id	Subsection	Start	End	Funcitonal feature	Splicing information
P16671	Topological domain	30	439	Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255	Type=Substitution;Start=274;End=288
P16671	Topological domain	30	439	Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255	Type=Deletion;Start=289;End=472
P16671	Topological domain	30	439	Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255	Type=Deletion;Start=234;End=272
P16671	Topological domain	30	439	Note=Extracellular;Ontology_term=ECO:0000255;evidence=ECO:0000255	Type=Deletion;Start=144;End=203
P16671	Transmembrane	440	461	Note=Helical;Ontology_term=ECO:0000255;evidence=ECO:0000255	Type=Deletion;Start=289;End=472
P16671	Topological domain	462	472	Note=Cytoplasmic;Ontology_term=ECO:0000255;evidence=ECO:0000255	Type=Deletion;Start=289;End=472
P16671	Region	460	472	Note=Interaction with PTK2%2C PXN and LYN;Ontology_term=ECO:0000269;evidence=ECO:0000269\|PubMed:20037584;Dbxref=PMID:20037584	Type=Deletion;Start=289;End=472

Gene Isoform Structures and Expression Levels for CD36

Gene structures of our canonical and alternative spliced genes of CD36
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Expression levels of gene isoforms across GTEx.

Expression levels of gene isoforms across TCGA.

Protein Structures

PDB and CIF files of the predicted protein structures
* Here we show the 3D structure of the proteins using Mol*. AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Model confidence is shown from the pLDDT values per residue. pLDDT corresponds to the model’s prediction of its score on the local Distance Difference Test. It is a measure of local accuracy (from AlphfaFold website). To color code individual residues, we transformed individual PDB files into CIF format.

3D view using mol* of P16671-1

3D view using mol* of P16671-2

3D view using mol* of P16671-3

3D view using mol* of P16671-4

pLDDT Score Distribution

pLDDT score distribution of the predicted protein structures from AlphaFold2
* AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100.

pLDDT distribution across the protein length of P16671-1

pLDDT distribution across the protein length of P16671-2

pLDDT distribution across the protein length of P16671-3

pLDDT distribution across the protein length of P16671-4

Ramachandran Plot of Protein Structures

Ramachandran plot of the torsional angles - phi (φ)and psi (ψ) - of the residues (amino acids) contained in this protein peptide.

Ramachandran plot of P16671-1

Ramachandran plot of P16671-3

Ramachandran plot of P16671-4

Potential Active Site Information

The potential binding sites of these proteins were identified using SiteMap, a module of the Schrodinger suite.

UniProt-id	Site score	Size	D score	Volume	Exposure	Enclosure	Contact	Phobic	Philic	Balance	Don/Acc	Residues
P16671-1	1.115	130	1.038	215.061	0.378	0.869	1.198	0.685	1.299	0.527	1.3	273,300,301,302,303,309,312,313,314,315,317,318,31 9,320,322,324,325,326,327,328,329,340,352,353,356, 357,407,408,409,410
P16671-2	1.006	177	1.032	473.34	0.606	0.691	0.841	0.436	0.989	0.441	0.714	41,42,44,49,50,53,54,55,56,57,58,59,63,95,96,98,99 ,100,114,116,117,118,119,201,204,209,212,224,225,2 27,230,231,233,236,238,246,250,251,252,253,254,267 ,268,269,270,272
P16671-3	1.083	172	1.127	604.366	0.575	0.759	0.999	1.197	0.825	1.451	1.086	35,38,39,42,44,49,50,53,54,55,56,57,58,59,60,61,94 ,95,96,97,98,99,100,116,221,224,225,337,338,339,34 0,341,342,344,383,387,390,391,394,395
P16671-4	1.246	136	1.29	202.713	0.284	0.972	1.371	2.843	0.715	3.976	1.445	191,206,208,211,213,215,235,239,240,241,242,243,24 9,252,253,254,255,258,259,262,264,265,266,267,268, 269,280,281,282,283,309,311,325,326,327,350

Protein Structure and Feature Comparision

Protein Structure Comparision Using Template Modeling Scores (TM-score).

Protein Structure Comparision Visualization with mol*. between Canonical predicted structure (AF2)(orange) vs Canonical validated structure (PDB)(green)

3D view using mol* of P16671-1_P16671-1_5lgd_A.pdb

Protein Structure Comparision Visualization with mol*. between Canonical validated structure (PDB)(orange) vs Alternative predicted structure (AF2)(green)

3D view using mol* of P16671-1_5lgd_A_P16671-2.pdb

3D view using mol* of P16671-1_5lgd_A_P16671-3.pdb

3D view using mol* of P16671-1_5lgd_A_P16671-4.pdb

Protein Structure Comparision Visualization with mol*. between Canonical predicted structure (AF2)(orange) vs Alternative predicted structure (AF2)(green)

3D view using mol* of P16671-1_P16671-2.pdb

3D view using mol* of P16671-1_P16671-3.pdb

3D view using mol* of P16671-1_P16671-4.pdb

Protein Feature Comparison of the protein sequendary structures among the protiens.

./stats/secondary_structure/figure/P16671-1_vs_P16671-2.png

./stats/secondary_structure/figure/P16671-1_vs_P16671-3.png

./stats/secondary_structure/figure/P16671-1_vs_P16671-4.png

Protein Feature Comparison of the relative accessible surface area (ASA) among the protiens.

./stats/relative_asa/P16671-1_vs_P16671-2.png

./stats/relative_asa/P16671-1_vs_P16671-3.png

./stats/relative_asa/P16671-1_vs_P16671-4.png

Protein-Protein Interaction

Interactors from UniProt.

Accession_id	Subsection	Start	End	Funcitonal feature	Splicing information
P16671	Region	460	472	Note=Interaction with PTK2%2C PXN and LYN;Ontology_term=ECO:0000269;evidence=ECO:0000269\|PubMed:20037584;Dbxref=PMID:20037584	Type=Deletion;Start=289;End=472

Interactors from STRING.

Gene name

Interactors

Related Drugs to CD36

Drugs targeting this gene/protein.
(DrugBank)

UniProt accession

Gene name

DrugBank ID

Drug name

Drug group

Actions

Related Diseases to CD36

Previous studies relating to the alternative splicing of CD36 and disease information from the MeSH term (PubMed)

Gene

PMID

Title

Abstract

MeSH ID

MeSH term

Clinically important variants in CD36

(ClinVar, 04/20/2024)

accession_id

uniprot_id

gene_name

Type

Variant

Clinical_significance