Protein classes

The protein classes show a summary of genes identified in various protein classifications. Each row shows the total number of genes for a particular protein class as well as the number of those genes with experimental data in HPA for the corresponding proteins based on antibody-based profiling. All protein classes have been categorized into three different tables: "Function and compartment based", "Disease and drug related", and "Evidence based". Clicking one of the numbers in the tables retrieves a search result with the selection of genes belonging to the class, along with additional data. For each class, where applicable, there is also a link to the original source of the gene list. A number of classes contain a selection of subclasses which unfolds when the parent class (shown in bold and with arrows) is clicked. Some subclasses (marked with an asterisk) are not included in the total number of genes for the parent class.

Protein class	No of genes	No of genes with antibodies	Source
Function and compartment basedⁱ The "Function and compartment based" table contains functional classes of proteins such as transcription factors and enzymes, as well as proteins located to specific compartments of the cell, such as the predicted membrane proteins. The "Predicted membrane proteins" subclasses have been previously described in more detail in a publication. The class "Secreted proteins predicted by MDSEC" includes proteins not containing transmembrane regions and having a signal peptide predicted by at least two of the three signal peptide prediction methods SignalP4.0, Phobius, and SPOCTOPUS.
Enzymes	3706	3463
ENZYME proteins	3453	3246	ENZYME
Oxidoreductases	426	401	ENZYME
Transferases	1565	1477	ENZYME
Hydrolases	1093	1013	ENZYME
Lyases	148	142	ENZYME
Isomerase	112	109	ENZYME
Ligase	112	112	ENZYME
Peptidases	482	429	UniProt/Merops
Aspartic-type peptidases	17	16	UniProt/Merops
Cysteine-type peptidases	159	153	UniProt/Merops
Metallopeptidases	126	108	UniProt/Merops
Serine-type peptidases	160	133	UniProt/Merops
Threonine-type peptidases	20	19	UniProt/Merops
Kinases	510	487	UniProt
AGC Ser/Thr protein kinases	56	56	UniProt
Tyr protein kinases	89	84	UniProt
TKL Ser/Thr protein kinases	34	30	UniProt
STE Ser/Thr protein kinases	56	56	UniProt
RGC receptor guanylate cyclase kinases	5	2	UniProt
NEK Ser/Thr protein kinases	11	11	UniProt
CMGC Ser/Thr protein kinases	62	59	UniProt
CK1 Ser/Thr protein kinases	12	12	UniProt
CAMK Ser/Thr protein kinases	75	72	UniProt
Atypical kinases	30	29	UniProt
Metabolic proteins	3058	2841	Metabolic Atlas
CD markers	384	341	UniProt
Blood group antigen proteins	31	27	UniProt
Nuclear receptors	49	48	NucleaRDB
Transporters	1894	1686	TCDB
Transporter channels and pores	556	483	TCDB
Electrochemical Potential-driven transporters	446	399	TCDB
Primary Active Transporters	178	166	TCDB
Transport Electron Carriers	14	10	TCDB
Accessory Factors Involved in Transport	369	339	TCDB
Ribosomal proteins	178	175	UniProt
G-protein coupled receptors	764	392	UniProt
GPCRs excl olfactory receptors	393	298	UniProt
Adenosine and adenine nucleotide receptors	17	16	UniProt
Chemokines and chemotactic factors receptors	29	24	UniProt
Lysolipids receptors	14	10	UniProt
Odorant/olfactory and gustatory receptors	371	94	UniProt
Opsins	9	6	UniProt
Serotonin receptors	12	10	UniProt
Family 2 (B) receptors	47	41	UniProt
Family 3 (C) receptors	21	17	UniProt
Family T2R receptors (taste receptor GPCRs)	24	8	UniProt
Family fz/smo receptors	11	10	UniProt
Voltage-gated ion channels	132	108	IUPHAR-DB
Calcium-Activated Potassium Channels	7	7	IUPHAR-DB
CatSper and Two-Pore Channels	4	3	IUPHAR-DB
Cyclic Nucleotide-Regulated Channels	9	8	IUPHAR-DB
Inwardly Rectifying Potassium Channels	15	13	IUPHAR-DB
Transient Receptor Potential Channels	24	16	IUPHAR-DB
Two-P Potassium Channels	14	9	IUPHAR-DB
Voltage-Gated Calcium Channels	10	10	IUPHAR-DB
Voltage-Gated Potassium Channels	40	34	IUPHAR-DB
Voltage-Gated Sodium Channels	9	8	IUPHAR-DB
Predicted membrane proteins	5543	4529	MDM
Prediction method-based	5543	4529	MDM
Membrane proteins predicted by MDM	5543	4529	MDM
MEMSAT3 predicted membrane proteins *	7461	6082	MEMSAT3
MEMSAT-SVM predicted membrane proteins *	6412	5262	MEMSAT-SVM
Phobius predicted membrane proteins *	5844	4782	Phobius
SCAMPI predicted membrane proteins *	6494	5418	SCAMPI
SPOCTOPUS predicted membrane proteins *	7774	6572	SPOCTOPUS
THUMBUP predicted membrane proteins *	7246	6041	THUMBUP
TMHMM predicted membrane proteins *	5614	4514	TMHMM
GPCRHMM predicted membrane proteins *	839	443	GPCRHMM
# TM segments-based	5543	4529	MDM
1TM proteins predicted by MDM	3188	2786	MDM
9TM proteins predicted by MDM	142	127	MDM
8TM proteins predicted by MDM	169	145	MDM
7TM proteins predicted by MDM	973	566	MDM
6TM proteins predicted by MDM	324	275	MDM
5TM proteins predicted by MDM	298	251	MDM
4TM proteins predicted by MDM	564	481	MDM
3TM proteins predicted by MDM	579	506	MDM
2TM proteins predicted by MDM	964	858	MDM
>9TM proteins predicted by MDM	493	448	MDM
Predicted secreted proteins	1903	1465	HPA
Secreted proteins predicted by MDSEC	3207	2553	HPA
SignalP predicted secreted proteins *	2793	2183	SignalP
Phobius predicted secreted proteins *	3608	2925	Phobius
SPOCTOPUS predicted secreted proteins *	3970	3253	SPOCTOPUS
Predicted intracellular proteins	15877	14195	HPA
Intracellular proteins predicted by MDM and MDSEC *	15123	13646	HPA
Plasma proteins	3752	3562	Plasma Proteome Database
Transcription factors	1490	1375	UMG
Yet undefined DNA-binding domains	19	18	UMG
Basic domains	173	160	UMG
Zinc-coordinating DNA-binding domains	774	717	UMG
Helix-turn-helix domains	390	354	UMG
Other all-alpha-helical DNA-binding domains	46	42	UMG
alpha-Helices exposed by beta-structures	13	12	UMG
Immunoglobulin fold	62	60	UMG
beta-Hairpin exposed by an alpha/beta-scaffold	14	13	UMG
beta-Sheet binding to DNA	5	5	UMG
beta-Barrel DNA-binding domains	3	3	UMG
RNA polymerase related proteins	31	31	KEGG
RAS pathway related proteins	231	208	KEGG
Citric acid cycle related proteins	30	29	KEGG
Immunoglobulin genes	214	49	Ensembl
Immunoglobulin constant genes	14	9	Ensembl
Immunoglobulin diversity genes	37	0	Ensembl
Immunoglobulin joining genes	18	0	Ensembl
Immunoglobulin variable genes	145	40	Ensembl
T-cell receptor genes	195	0	Ensembl
T-cell receptor constant genes	6	0	Ensembl
T-cell receptor diversity genes	4	0	Ensembl
T-cell receptor joining genes	79	0	Ensembl
T-cell receptor variable genes	106	0	Ensembl
Disease and drug relatedⁱ The "Disease and drug related" table consists of a selection of gene lists related to diseases such as cancer and cardiovascular disease as well as genes associated with drug targets according to Drugbank.
Cancer-related genes	1674	1589
Candidate cancer biomarkers	1038	969	Plasma Proteome Institute
Mutated cancer genes	250	247	Publication
Mutational cancer driver genes	284	279	Publication
COSMIC somatic mutations in cancer genes	570	556	COSMIC
COSMIC Amplifications	24	23	COSMIC
COSMIC Splicing Mutations	73	72	COSMIC
COSMIC Somatic Mutations	530	518	COSMIC
COSMIC Other Mutations	37	37	COSMIC
COSMIC Nonsense Mutations	155	152	COSMIC
COSMIC Missense Mutations	253	249	COSMIC
COSMIC Large Deletions	41	41	COSMIC
COSMIC Germline Mutations	102	97	COSMIC
COSMIC Frameshift Mutations	156	152	COSMIC
COSMIC Translocations	308	299	COSMIC
Candidate cardiovascular disease genes	155	145	Plasma Proteome Institute
Disease related genes	4514	4205	UniProt
FDA approved drug targets	812	734	Drugbank
Biotech drugs	173	153	Drugbank
Small molecule drugs	685	619	Drugbank
Potential drug targets	1575	1465	HPA
Human disease related genes	4085	3797	KEGG
Cancers	232	224	KEGG
Head and neck cancers	21	21	KEGG
Cancers of the digestive system	58	57	KEGG
Cancers of the lung and pleura	21	21	KEGG
Skin cancers	17	16	KEGG
Cancers of soft tissues and bone	30	30	KEGG
Cancers of the breast and female genital organs	29	28	KEGG
Cancers of male genital organs	22	22	KEGG
Cancers of the urinary system	17	17	KEGG
Cancers of eye, brain, and central nervous system	38	38	KEGG
Cancers of endocrine organs	33	31	KEGG
Cancers of haematopoietic and lymphoid tissues	90	87	KEGG
Cardiovascular diseases	344	319	KEGG
Cardiac diseases	102	91	KEGG
Vascular diseases	55	52	KEGG
Hematologic diseases	184	173	KEGG
Hypertensive diseases	14	13	KEGG
Congenital disorders of metabolism	767	715	KEGG
Congenital disorders of carbohydrate metabolism	47	46	KEGG
Congenital disorders of lipid/glycolipid metabolism	142	132	KEGG
Congenital disorders of glycan/glycoprotein metabolism	90	87	KEGG
Congenital disorders of amino acid metabolism	144	136	KEGG
Congenital disorders of nucleotide metabolism	16	16	KEGG
Congenital disorders of cofactor/vitamin metabolism	27	23	KEGG
Congenital disorders of ion transport and metabolism	31	25	KEGG
Lysosomal storage diseases	53	50	KEGG
Peroxisomal diseases	23	22	KEGG
Mitochondrial diseases	191	179	KEGG
Other congenital disorders of metabolism	82	74	KEGG
Congenital malformations	1094	1035	KEGG
Congenital malformations of the nervous system	208	201	KEGG
Congenital malformations of eye	53	45	KEGG
Congenital malformations of ear	3	3	KEGG
Congenital malformations of face and neck	12	11	KEGG
Congenital malformations of the circulatory system	51	50	KEGG
Congenital malformations of the digestive system	19	16	KEGG
Congenital malformations of genital organs	7	7	KEGG
Congenital malformations of the urinary system	51	48	KEGG
Congenital malformations of the musculoskeletal system	225	209	KEGG
Congenital malformations of skin	171	160	KEGG
Other congenital malformations	425	404	KEGG
Other congenital disorders	99	95	KEGG
Chromosomal abnormalities	63	61	KEGG
Ribosomopathies	37	35	KEGG
Digestive system diseases	82	70	KEGG
Mouth and dental diseases	33	25	KEGG
Gastrointestinal diseases	29	26	KEGG
Liver diseases	12	12	KEGG
Pancreas diseases	8	7	KEGG
Endocrine and metabolic diseases	223	200	KEGG
Diabetes	62	55	KEGG
Hypothalamus and pituitary gland diseases	58	50	KEGG
Thyroid gland diseases	22	20	KEGG
Parathyroid diseases	8	7	KEGG
Adrenal gland diseases	45	45	KEGG
Gonadal diseases	3	3	KEGG
Other endocrine and metabolic diseases	46	41	KEGG
Immune system diseases	296	268	KEGG
Allergies and autoimmune diseases	95	82	KEGG
Primary immunodeficiency	169	159	KEGG
Other immune system diseases	52	45	KEGG
Musculoskeletal diseases	163	152	KEGG
Skeletal diseases	46	43	KEGG
Muscular diseases	111	106	KEGG
Other musculoskeletal diseases	10	7	KEGG
Nervous system diseases	959	888	KEGG
Neurodegenerative diseases	280	271	KEGG
Epilepsy	149	137	KEGG
Eye disease	276	247	KEGG
Ear disease	114	102	KEGG
Other nervous and sensory system diseases	192	180	KEGG
Reproductive system diseases	99	84	KEGG
Reproductive system diseases	99	84	KEGG
Respiratory diseases	67	65	KEGG
Lung diseases	19	19	KEGG
Tracheobronchial diseases	48	46	KEGG
Skin diseases	109	97	KEGG
Skin and soft tissue diseases	109	97	KEGG
Urinary system diseases	76	70	KEGG
Kidney diseases	74	68	KEGG
Urinary bladder diseases	2	2	KEGG
Other diseases	309	294	KEGG
Mental and behavioural disorders	295	280	KEGG
Others	16	16	KEGG
Evidence basedⁱ For the "Evidence based" classes, further information can be found in the more detailed description of the protein evidence as well as on the protein evidence page.
Mapped to UniProt SWISS-PROT	19329	16971	UniProt
UniProt - Evidence at protein level	16223	14869	UniProt
UniProt - Evidence at transcript level	2291	1752	UniProt
UniProt - Inferred from homology	653	263	UniProt
UniProt - Predicted	106	52	UniProt
UniProt - Uncertain	73	47	UniProt
Mapped to neXtProt	19326	16971	neXtProt
neXtProt - Evidence at protein level	18152	16430	neXtProt
neXtProt - Evidence at transcript level	1021	472	neXtProt
neXtProt - Inferred from homology	84	25	neXtProt
neXtProt - Predicted	3	0	neXtProt
neXtProt - Uncertain	72	47	neXtProt
Protein evidence (Kim et al 2014)	12308	11704	Kim et al 2014
Protein evidence (Ezkurdia et al 2014)	11725	11258	Ezkurdia et al 2014

Protein classes

Disease and drug relatedi The "Disease and drug related" table consists of a selection of gene lists related to diseases such as cancer and cardiovascular disease as well as genes associated with drug targets according to Drugbank.

Evidence basedi For the "Evidence based" classes, further information can be found in the more detailed description of the protein evidence as well as on the protein evidence page.

Disease and drug relatedⁱ

The "Disease and drug related" table consists of a selection of gene lists related to diseases such as cancer and cardiovascular disease as well as genes associated with drug targets according to Drugbank.

Evidence basedⁱ

For the "Evidence based" classes, further information can be found in the more detailed description of the protein evidence as well as on the protein evidence page.