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	3777	3532
ENZYME proteins	3531	3319	ENZYME
Oxidoreductases	432	405	ENZYME
Transferases	1597	1509	ENZYME
Hydrolases	1122	1039	ENZYME
Lyases	147	141	ENZYME
Isomerase	118	115	ENZYME
Ligase	113	113	ENZYME
Peptidases	481	430	UniProt/Merops
Aspartic-type peptidases	17	16	UniProt/Merops
Cysteine-type peptidases	159	153	UniProt/Merops
Metallopeptidases	126	108	UniProt/Merops
Serine-type peptidases	158	132	UniProt/Merops
Threonine-type peptidases	21	21	UniProt/Merops
Kinases	509	486	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	74	71	UniProt
Atypical kinases	30	29	UniProt
Metabolic proteins	2912	2707	Metabolic Atlas
CD markers	384	341	UniProt
Blood group antigen proteins	31	27	UniProt
Nuclear receptors	49	48	NucleaRDB
Transporters	2138	1904	TCDB
Transporter channels and pores	597	515	TCDB
Electrochemical Potential-driven transporters	461	412	TCDB
Primary Active Transporters	195	178	TCDB
Transport Electron Carriers	16	11	TCDB
Accessory Factors Involved in Transport	486	451	TCDB
Ribosomal proteins	180	176	UniProt
G-protein coupled receptors	743	381	UniProt
GPCRs excl olfactory receptors	391	297	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	352	84	UniProt
Opsins	9	6	UniProt
Serotonin receptors	12	10	UniProt
Family 2 (B) receptors	45	40	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	107	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	12	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	5580	4520	MDM
Prediction method-based	5580	4520	MDM
Membrane proteins predicted by MDM	5580	4520	MDM
MEMSAT3 predicted membrane proteins *	7505	6074	MEMSAT3
MEMSAT-SVM predicted membrane proteins *	6459	5264	MEMSAT-SVM
Phobius predicted membrane proteins *	5883	4772	Phobius
SCAMPI predicted membrane proteins *	6560	5438	SCAMPI
SPOCTOPUS predicted membrane proteins *	7826	6573	SPOCTOPUS
THUMBUP predicted membrane proteins *	7290	6041	THUMBUP
TMHMM predicted membrane proteins *	5648	4501	TMHMM
GPCRHMM predicted membrane proteins *	856	434	GPCRHMM
# TM segments-based	5580	4520	MDM
1TM proteins predicted by MDM	3193	2777	MDM
9TM proteins predicted by MDM	148	133	MDM
8TM proteins predicted by MDM	176	150	MDM
7TM proteins predicted by MDM	997	571	MDM
6TM proteins predicted by MDM	333	278	MDM
5TM proteins predicted by MDM	302	253	MDM
4TM proteins predicted by MDM	565	483	MDM
3TM proteins predicted by MDM	585	511	MDM
2TM proteins predicted by MDM	961	853	MDM
>9TM proteins predicted by MDM	495	448	MDM
Predicted secreted proteins	1891	1461	HPA
Secreted proteins predicted by MDSEC	3218	2554	HPA
SignalP predicted secreted proteins *	2801	2179	SignalP
Phobius predicted secreted proteins *	3616	2923	Phobius
SPOCTOPUS predicted secreted proteins *	3947	3230	SPOCTOPUS
Predicted intracellular proteins	15894	14181	HPA
Intracellular proteins predicted by MDM and MDSEC *	15128	13633	HPA
Plasma proteins	3750	3563	Plasma Proteome Database
Transcription factors	1485	1372	UMG
Yet undefined DNA-binding domains	19	18	UMG
Basic domains	171	159	UMG
Zinc-coordinating DNA-binding domains	772	716	UMG
Helix-turn-helix domains	389	353	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	34	34	KEGG
RAS pathway related proteins	235	212	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	196	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	107	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	1672	1587
Candidate cancer biomarkers	1038	970	Plasma Proteome Institute
Mutated cancer genes	250	247	Publication
Mutational cancer driver genes	283	277	Publication
COSMIC somatic mutations in cancer genes	572	558	COSMIC
COSMIC Amplifications	24	23	COSMIC
COSMIC Splicing Mutations	73	72	COSMIC
COSMIC Somatic Mutations	532	520	COSMIC
COSMIC Other Mutations	38	38	COSMIC
COSMIC Nonsense Mutations	157	154	COSMIC
COSMIC Missense Mutations	256	252	COSMIC
COSMIC Large Deletions	43	43	COSMIC
COSMIC Germline Mutations	102	97	COSMIC
COSMIC Frameshift Mutations	159	155	COSMIC
COSMIC Translocations	309	300	COSMIC
Candidate cardiovascular disease genes	155	145	Plasma Proteome Institute
Disease related genes	4906	4584	UniProt
FDA approved drug targets	854	768	Drugbank
Biotech drugs	189	161	Drugbank
Small molecule drugs	715	646	Drugbank
Potential drug targets	1757	1639	HPA
Human disease related genes	4555	4239	KEGG
Cancers	326	311	KEGG
Head and neck cancers	24	24	KEGG
Cancers of the digestive system	81	79	KEGG
Cancers of the lung and pleura	25	25	KEGG
Skin cancers	27	26	KEGG
Cancers of soft tissues and bone	35	34	KEGG
Cancers of the breast and female genital organs	49	46	KEGG
Cancers of male genital organs	34	34	KEGG
Cancers of the urinary system	24	23	KEGG
Cancers of eye, brain, and central nervous system	48	48	KEGG
Cancers of endocrine organs	43	40	KEGG
Cancers of haematopoietic and lymphoid tissues	110	105	KEGG
Cardiovascular diseases	391	363	KEGG
Cardiac diseases	122	112	KEGG
Vascular diseases	61	56	KEGG
Hematologic diseases	210	197	KEGG
Hypertensive diseases	14	13	KEGG
Congenital disorders of metabolism	829	773	KEGG
Congenital disorders of carbohydrate metabolism	51	50	KEGG
Congenital disorders of lipid/glycolipid metabolism	154	143	KEGG
Congenital disorders of nucleotide metabolism	16	16	KEGG
Congenital disorders of amino acid metabolism	160	152	KEGG
Congenital disorders of glycan/glycoprotein metabolism	94	91	KEGG
Congenital disorders of cofactor/vitamin metabolism	32	28	KEGG
Congenital disorders of ion transport and metabolism	34	28	KEGG
Lysosomal storage diseases	55	51	KEGG
Peroxisomal diseases	24	23	KEGG
Mitochondrial diseases	211	198	KEGG
Other congenital disorders of metabolism	88	78	KEGG
Congenital malformations	1265	1201	KEGG
Congenital malformations of the nervous system	328	320	KEGG
Congenital malformations of eye	54	46	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	25	22	KEGG
Congenital malformations of genital organs	7	7	KEGG
Congenital malformations of the urinary system	53	50	KEGG
Congenital malformations of the musculoskeletal system	238	222	KEGG
Congenital malformations of skin	185	174	KEGG
Other congenital malformations	461	436	KEGG
Other congenital disorders	105	100	KEGG
Chromosomal abnormalities	68	65	KEGG
Ribosomopathies	38	36	KEGG
Digestive system diseases	94	82	KEGG
Mouth and dental diseases	33	25	KEGG
Gastrointestinal diseases	32	29	KEGG
Liver diseases	21	21	KEGG
Pancreas diseases	9	8	KEGG
Endocrine and metabolic diseases	233	207	KEGG
Diabetes	69	61	KEGG
Hypothalamus and pituitary gland diseases	61	53	KEGG
Thyroid gland diseases	23	20	KEGG
Parathyroid diseases	8	7	KEGG
Adrenal gland diseases	43	43	KEGG
Gonadal diseases	3	3	KEGG
Other endocrine and metabolic diseases	46	40	KEGG
Immune system diseases	373	340	KEGG
Allergies and autoimmune diseases	123	105	KEGG
Primary immunodeficiency	217	206	KEGG
Other immune system diseases	65	59	KEGG
Musculoskeletal diseases	183	169	KEGG
Skeletal diseases	49	46	KEGG
Muscular diseases	125	118	KEGG
Other musculoskeletal diseases	14	10	KEGG
Nervous system diseases	1033	961	KEGG
Neurodegenerative diseases	306	295	KEGG
Epilepsy	164	151	KEGG
Eye disease	284	254	KEGG
Ear disease	129	117	KEGG
Other nervous and sensory system diseases	212	202	KEGG
Reproductive system diseases	152	134	KEGG
Reproductive system diseases	152	134	KEGG
Respiratory diseases	72	69	KEGG
Lung diseases	19	19	KEGG
Tracheobronchial diseases	53	50	KEGG
Skin diseases	115	102	KEGG
Skin and soft tissue diseases	115	102	KEGG
Urinary system diseases	84	79	KEGG
Kidney diseases	82	77	KEGG
Urinary bladder diseases	2	2	KEGG
Other diseases	278	263	KEGG
Mental and behavioural disorders	265	250	KEGG
Others	15	15	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	19325	16939	UniProt
UniProt - Evidence at protein level	16438	15020	UniProt
UniProt - Evidence at transcript level	2063	1564	UniProt
UniProt - Inferred from homology	657	266	UniProt
UniProt - Predicted	107	52	UniProt
UniProt - Uncertain	74	47	UniProt
Mapped to neXtProt	19266	16920	neXtProt
neXtProt - Evidence at protein level	18188	16427	neXtProt
neXtProt - Evidence at transcript level	883	414	neXtProt
neXtProt - Inferred from homology	125	35	neXtProt
neXtProt - Predicted	3	0	neXtProt
neXtProt - Uncertain	74	48	neXtProt
Protein evidence (Kim et al 2014)	12271	11670	Kim et al 2014
Protein evidence (Ezkurdia et al 2014)	11724	11256	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.