SPCS2

Summary

SPCS2 (signal peptidase complex subunit 2, HGNC:28962) is a protein-coding gene on chromosome 11q13.4, encoding Signal peptidase complex subunit 2 (Q15005). Component of the signal peptidase complex (SPC) which catalyzes the cleavage of N-terminal signal sequences from nascent proteins as they are translocated into the lumen of the endoplasmic reticulum. It is a common-essential gene (DepMap: required in 93.1% of cancer cell lines).

Predicted to enable peptidase activity. Involved in signal peptide processing. Located in endoplasmic reticulum membrane. Part of signal peptidase complex.

Source: NCBI Gene 9789 — RefSeq curated summary.

At a glance

• Clinical variants (ClinVar): 21 total
• Druggable target: yes
• Cancer dependency (DepMap): dependent in 93.1% of screened cell lines (common-essential)
• MANE Select transcript: NM_014752

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:28962
Approved symbol	SPCS2
Name	signal peptidase complex subunit 2
Location	11q13.4
Locus type	gene with protein product
Status	Approved
Aliases	KIAA0102
Ensembl gene	ENSG00000118363
Ensembl biotype	protein_coding
OMIM	619411
Entrez	9789

Gene structure

Transcript identifiers

Ensembl transcripts: 14 — 11 protein_coding, 2 protein_coding_CDS_not_defined, 1 retained_intron

ENST00000263672, ENST00000526361, ENST00000526883, ENST00000527225, ENST00000527290, ENST00000528265, ENST00000530257, ENST00000532972, ENST00000931771, ENST00000931772, ENST00000931773, ENST00000931774, ENST00000931775, ENST00000931776

RefSeq mRNA: 1 — MANE Select: NM_014752 NM_014752

CCDS: CCDS44681

Canonical transcript exons

ENST00000263672 — 5 exons

Exon	Start	End
ENSE00000797566	74965763	74965923
ENSE00000797570	74969565	74969699
ENSE00003582689	74965034	74965117
ENSE00003846827	74949266	74949399
ENSE00003847578	74976857	74979033

Expression profiles

Bgee: expression breadth ubiquitous, 205 present calls, max score 99.08.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 14.8380 / max 221.5980, expressed in 1805 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
115859	14.8380	1805

Top tissues by expression

247 total, by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
ventricular zone	UBERON:0003053	99.08	gold quality
body of pancreas	UBERON:0001150	99.03	gold quality
bone marrow cell	CL:0002092	98.94	gold quality
embryo	UBERON:0000922	98.94	gold quality
ganglionic eminence	UBERON:0004023	98.94	gold quality
vermiform appendix	UBERON:0001154	98.88	gold quality
cortical plate	UBERON:0005343	98.69	gold quality
endocervix	UBERON:0000458	98.57	gold quality
right lobe of thyroid gland	UBERON:0001119	98.57	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	98.57	gold quality
colonic epithelium	UBERON:0000397	98.52	gold quality
rectum	UBERON:0001052	98.51	gold quality
islet of Langerhans	UBERON:0000006	98.47	gold quality
left lobe of thyroid gland	UBERON:0001120	98.44	gold quality
left adrenal gland	UBERON:0001234	98.40	gold quality
left adrenal gland cortex	UBERON:0035825	98.38	gold quality
adenohypophysis	UBERON:0002196	98.37	gold quality
smooth muscle tissue	UBERON:0001135	98.35	gold quality
right adrenal gland	UBERON:0001233	98.32	gold quality
Brodmann (1909) area 9	UBERON:0013540	98.30	gold quality
right adrenal gland cortex	UBERON:0035827	98.20	gold quality
body of uterus	UBERON:0009853	98.18	gold quality
left uterine tube	UBERON:0001303	98.15	gold quality
minor salivary gland	UBERON:0001830	98.15	gold quality
ectocervix	UBERON:0012249	98.13	gold quality
upper lobe of left lung	UBERON:0008952	98.12	gold quality
stromal cell of endometrium	CL:0002255	98.07	gold quality
body of stomach	UBERON:0001161	98.04	gold quality
left coronary artery	UBERON:0001626	98.01	gold quality
thoracic aorta	UBERON:0001515	97.99	gold quality

Single-cell (SCXA)

Detected in 14 experiment(s), a significant marker in 13.

Experiment	Marker?	Max mean expression
E-MTAB-9543	yes	1594.74
E-CURD-88	yes	113.14
E-HCAD-4	yes	64.89
E-MTAB-9467	yes	64.37
E-CURD-46	yes	62.90
E-HCAD-1	yes	61.57
E-MTAB-8410	yes	52.83
E-CURD-122	yes	47.64
E-HCAD-9	yes	24.27
E-HCAD-11	yes	21.29
E-MTAB-8142	yes	14.02
E-MTAB-10553	yes	11.67
E-GEOD-81383	no	1135.47
E-ANND-3	no	0.00

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

109 targeting SPCS2, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNA	Max score	Avg score	miRNA target_count
HSA-MIR-6867-5P	100.00	82.21	3464
HSA-MIR-3163	100.00	77.23	8605
HSA-MIR-3162-3P	100.00	65.37	363
HSA-MIR-8485	100.00	77.57	4731
HSA-MIR-4692	100.00	67.32	2066
HSA-MIR-4668-3P	100.00	68.74	2635
HSA-MIR-3667-3P	99.99	67.17	1636
HSA-MIR-3662	99.99	73.82	5684
HSA-MIR-4514	99.99	67.10	1870
HSA-MIR-4282	99.99	75.36	6408
HSA-MIR-548P	99.98	72.25	3784
HSA-MIR-4789-5P	99.98	70.76	2721
HSA-MIR-548N	99.98	71.94	4170
HSA-MIR-12136	99.98	72.81	5713
HSA-MIR-302C-5P	99.97	72.56	3642
HSA-MIR-607	99.97	73.62	5593
HSA-MIR-548AN	99.97	70.91	2817
HSA-MIR-548AA	99.96	70.64	3753
HSA-MIR-548AP-3P	99.96	70.64	3753
HSA-MIR-548T-3P	99.96	70.64	3753
HSA-MIR-545-3P	99.95	70.74	2783
HSA-MIR-3143	99.93	71.96	3104
HSA-MIR-7-1-3P	99.91	71.53	4384
HSA-MIR-7-2-3P	99.91	71.40	4394
HSA-MIR-10527-5P	99.91	72.28	3754
HSA-MIR-329-3P	99.91	66.56	1234
HSA-MIR-362-3P	99.91	66.38	1267
HSA-MIR-548E-5P	99.89	72.73	4486
HSA-MIR-124-3P	99.89	73.74	3043
HSA-MIR-506-3P	99.89	73.55	3057

Functional genomics

DepMap (CRISPR cell-line fitness): dependent in 93.1% of screened cell lines, common-essential.

Cross-species orthologs

5 orthologs

Organism	Symbol	Gene ID
danio_rerio	spcs2	ENSDARG00000042823
mus_musculus	Spcs2	ENSMUSG00000035227
rattus_norvegicus	Spcs2	ENSRNOG00000018164
drosophila_melanogaster	Spase25	FBGN0030306
caenorhabditis_elegans		WBGENE00012550

Protein

Protein identifiers

Signal peptidase complex subunit 2 — Q15005 (reviewed: Q15005)

Alternative names: Microsomal signal peptidase 25 kDa subunit

All UniProt accessions (5): Q15005, E9PI68, E9PL01, E9PRB9, H0YE04

UniProt curated annotations — full annotation on UniProt →

Function. Component of the signal peptidase complex (SPC) which catalyzes the cleavage of N-terminal signal sequences from nascent proteins as they are translocated into the lumen of the endoplasmic reticulum. Enhances the enzymatic activity of SPC and facilitates the interactions between different components of the translocation site.

Subunit / interactions. Component of the signal peptidase complex paralog A (SPC-A) composed of a catalytic subunit SEC11A and three accessory subunits SPCS1, SPCS2 and SPCS3. Component of the signal peptidase complex paralog C (SPC-C) composed of a catalytic subunit SEC11C and three accessory subunits SPCS1, SPCS2 and SPCS3. Within the complex, interacts with SEC11A or SEC11C and SPCS1. The complex induces a local thinning of the ER membrane which is used to measure the length of the signal peptide (SP) h-region of protein substrates. This ensures the selectivity of the complex towards h-regions shorter than 18-20 amino acids.

Subcellular location. Endoplasmic reticulum membrane.

Similarity. Belongs to the SPCS2 family.

RefSeq proteins (1): NP_055567* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR009582	Spc2/SPCS2	Family

Pfam: PF06703

Enzyme classification (BRENDA):

• EC 3.4.21.89 — Signal peptidase I (BRENDA: 61 organisms, 177 substrates, 150 inhibitors, 43 Km, 55 kcat entries)

Substrate kinetics (BRENDA)

15 substrates with measured Km, best-characterized 15. Km ranges are aggregated across organisms/conditions.

Substrate	Km (mM)	Measurements
FSASALAKI	0.43–0.8	19
YFSASALA-4-METHYLCOUMARIN 7-AMIDE	0.0328–0.0354	5
PREPROTEIN SUBSTRATE PONA	0.0166–0.044	4
PHE-SER-ALA-SER-ALA-LEU-ALA-LYS-ILE	0.33–0.52	2
PRO-OMPA-NUCLEASE A	0.0165–0.032	2
Y-NO2-FSASALAKIK-2-AMINOBENZOYL-NH2	0.0006–0.11	2
ALKALINE PHOSPHATASE SIGNAL PEPTIDE FUSED TO FUL	0.05	1
DECANOYL-LT-P-TAKA-A-SKIDD-OH	0.988	1
DECANOYL-LTPTAKAASKIDD-OH	0.029	1
PHE-SER-ALA-SER-ALA-LEU-ALA-LYS-ILE-NH2	1	1
PRO-OMPA-NUCLEASE	0.0165	1
TOSYL-GLY-PRO-LYS-P-NITROANILIDE	0.319	1
VAL-LEU-LYS-P-NITROANILIDE	0.727	1
ALA-ALA-PHE-4-METHYLCOUMARYL-7-AMIDE	—	0
FSASALA-KI	—	0

UniProt features (13 total): modified residue 3, topological domain 3, transmembrane region 2, initiator methionine 1, chain 1, sequence conflict 1, region of interest 1, compositionally biased region 1

Structure

Experimental structures (PDB)

2 structures.

PDB	Method	Resolution (Å)
7P2P	ELECTRON MICROSCOPY	4.9
7P2Q	ELECTRON MICROSCOPY	4.9

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q15005-F1	65.48	0.00

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Post-translational modifications (3): 169, 191, 2

Function

Pathways and Gene Ontology

Reactome pathways

16 pathways

ID	Pathway
R-HSA-1799339	SRP-dependent cotranslational protein targeting to membrane
R-HSA-381771	Synthesis, secretion, and inactivation of Glucagon-like Peptide-1 (GLP-1)
R-HSA-400511	Synthesis, secretion, and inactivation of Glucose-dependent Insulinotropic Polypeptide (GIP)
R-HSA-422085	Synthesis, secretion, and deacylation of Ghrelin
R-HSA-9768727	Regulation of CDH1 posttranslational processing and trafficking to plasma membrane
R-HSA-9828806	Maturation of hRSV A proteins
R-HSA-9918432	Maturation of DENV proteins
R-HSA-1643685	Disease
R-HSA-2980736	Peptide hormone metabolism
R-HSA-392499	Metabolism of proteins
R-HSA-400508	Incretin synthesis, secretion, and inactivation
R-HSA-5663205	Infectious disease
R-HSA-72766	Translation
R-HSA-9820952	Respiratory Syncytial Virus Infection Pathway
R-HSA-9820965	Respiratory syncytial virus (RSV) genome replication, transcription and translation
R-HSA-9824446	Viral Infection Pathways

MSigDB gene sets: 192 (showing top): MORF_MTA1, FLECHNER_PBL_KIDNEY_TRANSPLANT_REJECTED_VS_OK_UP, YAGI_AML_WITH_INV_16_TRANSLOCATION, PAL_PRMT5_TARGETS_UP, GOBP_PROTEIN_TARGETING, MORF_RAD21, HSIAO_HOUSEKEEPING_GENES, GOBP_ESTABLISHMENT_OF_PROTEIN_LOCALIZATION_TO_ENDOPLASMIC_RETICULUM, GOBP_ESTABLISHMENT_OF_PROTEIN_LOCALIZATION_TO_ORGANELLE, MORF_PSMC2, chr11q13, YY1_Q6, ATGTTAA_MIR302C, REACTOME_ADHERENS_JUNCTIONS_INTERACTIONS, OUELLET_OVARIAN_CANCER_INVASIVE_VS_LMP_UP

GO Biological Process (2): obsolete signal peptide processing (GO:0006465), protein targeting to ER (GO:0045047)

GO Molecular Function (2): protein binding (GO:0005515), peptidase activity (GO:0008233)

GO Cellular Component (4): signal peptidase complex (GO:0005787), endoplasmic reticulum membrane (GO:0005789), endoplasmic reticulum (GO:0005783), membrane (GO:0016020)

Reactome top-level categories

Rollup of top-11 pathways:

Category	Pathways
Incretin synthesis, secretion, and inactivation	2
Peptide hormone metabolism	2
Metabolism of proteins	2
Translation	1
Regulation of CDH1 Expression and Function	1
Respiratory syncytial virus (RSV) genome replication, transcription and translation	1
Dengue Virus Genome Translation and Replication	1
Disease	1
Viral Infection Pathways	1
Respiratory Syncytial Virus Infection Pathway	1
Infectious disease	1

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
protein targeting	1
establishment of protein localization to endoplasmic reticulum	1
binding	1
hydrolase activity	1
catalytic activity, acting on a protein	1
endoplasmic reticulum membrane	1
membrane protein complex	1
endoplasmic reticulum protein-containing complex	1
serine-type endopeptidase complex	1
organelle membrane	1
nuclear outer membrane-endoplasmic reticulum membrane network	1
endoplasmic reticulum subcompartment	1
cytoplasm	1
endomembrane system	1
intracellular membrane-bounded organelle	1
cellular anatomical structure	1

Protein interactions and networks

STRING

1631 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
SPCS2	SPCS1	Q9Y6A9	993
SPCS2	SPCS3	P12280	866
SPCS2	H0YNG3	H0YNG3	847
SPCS2	SEC11C	Q9BY50	830
SPCS2	SRP68	Q9UHB9	595
SPCS2	SRP54	P13624	578
SPCS2	SRPRB	Q9Y5M8	560
SPCS2	SEC61G	P38384	533
SPCS2	SRP14	P37108	528
SPCS2	RPL26	P61254	525
SPCS2	SRPRA	P08240	517
SPCS2	SSR3	Q9UNL2	496
SPCS2	SEC61A1	P38378	487
SPCS2	DAD1	P46966	473
SPCS2	XRRA1	Q6P2D8	470

IntAct

156 interactions, top by confidence:

A	B	Type	Score
SEC11C	SPCS3	psi-mi:“MI:0914”(association)	0.820
SEC11C	SPCS3	psi-mi:“MI:0915”(physical association)	0.820
TSPAN5	ADAM10	psi-mi:“MI:0914”(association)	0.800
SEC11A	SPCS3	psi-mi:“MI:0914”(association)	0.770
SEC11A	SPCS3	psi-mi:“MI:0915”(physical association)	0.770
GPC1	HADHB	psi-mi:“MI:0914”(association)	0.740
CFTR	ESYT2	psi-mi:“MI:2364”(proximity)	0.710
TOMM22	XRCC3	psi-mi:“MI:0914”(association)	0.640
FBXO6	MAN2B1	psi-mi:“MI:0914”(association)	0.640
STK4	STRN	psi-mi:“MI:0914”(association)	0.610
EGFR	SPCS2	psi-mi:“MI:0915”(physical association)	0.550
SPCS2	EGFR	psi-mi:“MI:0915”(physical association)	0.550
MGAT4C	GXYLT2	psi-mi:“MI:0914”(association)	0.530
TCTN2	TPST2	psi-mi:“MI:0914”(association)	0.530
SEC11C	APOM	psi-mi:“MI:0914”(association)	0.530
FBXL14	CRYZL1	psi-mi:“MI:0914”(association)	0.530
GPC4	SPCS2	psi-mi:“MI:0914”(association)	0.530
ALPL	SPCS2	psi-mi:“MI:0914”(association)	0.530
RTN4R	SOAT1	psi-mi:“MI:0914”(association)	0.530
FBXL14	SEC11A	psi-mi:“MI:0914”(association)	0.530
ARSK	CANX	psi-mi:“MI:0914”(association)	0.530

BioGRID (244): MIA3 (Affinity Capture-MS), SPCS1 (Affinity Capture-MS), SEC11C (Affinity Capture-MS), SPCS2 (Affinity Capture-MS), SPCS2 (Affinity Capture-MS), SPCS2 (Affinity Capture-MS), SPCS2 (Affinity Capture-MS), SPCS2 (Affinity Capture-MS), SPCS2 (Affinity Capture-MS), SPCS2 (Affinity Capture-MS), SPCS2 (Affinity Capture-MS), TMEM87A (Co-fractionation), SPCS2 (Proximity Label-MS), SPCS2 (Proximity Label-MS), SPCS2 (Proximity Label-MS)

ESM2 similar proteins: A2VDK9, A4R0J5, A9JRA0, B0FWK4, B8JLV7, D3ZEH5, E1BD52, P83362, Q0VCK9, Q15005, Q28250, Q28GR4, Q2TBU2, Q3SYY9, Q3T134, Q3ZAQ7, Q4R512, Q4R5B4, Q4R5E3, Q4V7U1, Q58DA4, Q5BJI9, Q5BJW3, Q5F3F5, Q5F409, Q5M8Y1, Q5RAY6, Q5RDV3, Q5RF53, Q5RFE0, Q5XIK2, Q5ZI05, Q5ZKG8, Q5ZLL0, Q62302, Q6AZ61, Q6NYF1, Q6UWH6, Q78T54, Q7ZUA6

Diamond homologs: Q15005, Q28250, Q4R512, Q5BJI9, Q5M8Y1, Q5RAY6, Q615A2, Q9CYN2, Q9VYY2, Q9XWW1, P58684

SIGNOR signaling

2 interactions.

A	Effect	B	Mechanism
SPCS2	“form complex”	“Signal peptidase complex, SEC11C variant”	binding
SPCS2	“form complex”	“Signal peptidase complex, SEC11A variant”	binding

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 159 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

Reactome pathways:

Pathway	Partners	Fold	FDR
Attachment and Entry	5	27.1×	2e-04
Respiratory syncytial virus (RSV) attachment and entry	5	22.4×	3e-04
Dengue Virus Attachment and Entry	6	14.0×	4e-04
Retinoid metabolism and transport	5	11.2×	2e-03
Regulation of clotting cascade	5	10.5×	2e-03
Maturation of DENV proteins	5	9.5×	3e-03
Transport of small molecules	13	3.0×	5e-03
Neutrophil degranulation	13	2.7×	9e-03

GO biological processes:

GO term	Partners	Fold	FDR
ERAD pathway	8	10.9×	8e-04

Disease & clinical

Clinical variants and AI predictions

ClinVar

21 variants total. Per-class counts are floors (≥ shown; pagination cap):

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	18
Likely benign	1
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1017 predictions. Top by Δscore:

Variant	Effect	Δscore
11:74965028:TTACA:T	acceptor_loss	1.0000
11:74965029:TACA:T	acceptor_loss	1.0000
11:74965030:ACAG:A	acceptor_loss	1.0000
11:74965031:CAG:C	acceptor_loss	1.0000
11:74965032:A:AG	acceptor_gain	1.0000
11:74965032:A:C	acceptor_loss	1.0000
11:74965032:AGT:A	acceptor_gain	1.0000
11:74965033:G:GT	acceptor_gain	1.0000
11:74965033:GT:G	acceptor_gain	1.0000
11:74965033:GTG:G	acceptor_gain	1.0000
11:74965033:GTGGA:G	acceptor_gain	1.0000
11:74965114:AAAG:A	donor_loss	1.0000
11:74965115:AAG:A	donor_loss	1.0000
11:74965116:AG:A	donor_loss	1.0000
11:74965117:GGTA:G	donor_loss	1.0000
11:74965118:G:T	donor_loss	1.0000
11:74965119:T:G	donor_loss	1.0000
11:74969573:T:TA	acceptor_gain	1.0000
11:74949371:G:GT	donor_gain	0.9900
11:74949395:ATAAG:A	donor_loss	0.9900
11:74949397:AAG:A	donor_loss	0.9900
11:74949398:AGGT:A	donor_loss	0.9900
11:74949399:GGT:G	donor_loss	0.9900
11:74949400:GTGAG:G	donor_loss	0.9900
11:74949401:T:G	donor_loss	0.9900
11:74965030:ACAGT:A	acceptor_gain	0.9900
11:74965032:AGTG:A	acceptor_gain	0.9900
11:74965033:GTGG:G	acceptor_gain	0.9900
11:74969531:T:G	acceptor_gain	0.9900
11:74969536:G:A	acceptor_gain	0.9900

AlphaMissense

1506 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
11:74965070:T:A	W51R	1.000
11:74965070:T:C	W51R	1.000
11:74965072:G:C	W51C	1.000
11:74965072:G:T	W51C	1.000
11:74965082:G:C	A55P	1.000
11:74965083:C:A	A55D	1.000
11:74965086:T:A	V56E	1.000
11:74965088:A:G	K57E	1.000
11:74965089:A:T	K57I	1.000
11:74965090:A:C	K57N	1.000
11:74965090:A:T	K57N	1.000
11:74965093:C:A	N58K	1.000
11:74965093:C:G	N58K	1.000
11:74965098:T:C	L60S	1.000
11:74965098:T:G	L60W	1.000
11:74965100:G:C	D61H	1.000
11:74965100:G:T	D61Y	1.000
11:74965101:A:T	D61V	1.000
11:74965103:G:C	D62H	1.000
11:74965104:A:C	D62A	1.000
11:74965104:A:G	D62G	1.000
11:74965104:A:T	D62V	1.000
11:74965110:C:A	A64D	1.000
11:74965114:A:C	K65N	1.000
11:74965114:A:T	K65N	1.000
11:74965814:C:A	R84S	1.000
11:74965818:T:A	L85H	1.000
11:74965818:T:C	L85P	1.000
11:74965826:T:C	C88R	1.000
11:74965827:G:A	C88Y	1.000

dbSNP variants (sampled 300 via entrez): RS1000011833 (11:74949044 C>G), RS1000303914 (11:74954241 A>G), RS1000352338 (11:74970877 A>G), RS1000467105 (11:74973416 T>A), RS1000589867 (11:74966369 C>G,T), RS1000747254 (11:74959179 A>C), RS1000859050 (11:74964069 TGATAA>T), RS1000900386 (11:74952780 G>T), RS1000911763 (11:74953074 G>A), RS1000936669 (11:74973772 G>A,T), RS1000970010 (11:74947689 G>A), RS1000972786 (11:74966135 G>A), RS1001179808 (11:74959460 A>C,T), RS1001287141 (11:74978903 A>G,T), RS1001362312 (11:74979255 C>A,T)

Disease associations

OMIM: gene MIM:619411 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

0 associations (top):

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL6067262 (SINGLE PROTEIN)

PharmGKB: 1 entry (VIP=true, CPIC=false)

ChEMBL bioactivities

4 potent at pChembl≥5 of 4 total, top 4 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChembl	Type	Value	Unit	Molecule
6.04	Kd	916.1	nM	CHEMBL3752910
6.04	ED50	916.1	nM	CHEMBL3752910
5.53	Kd	2987	nM	CHEMBL5653589
5.53	ED50	2987	nM	CHEMBL5653589

PubChem BioAssay actives

2 with measured affinity, of 4 total; 2 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

Compound	Assay	Type	Value	Unit
4-methyl-3-[(1-methyl-6-pyridin-3-ylpyrazolo[3,4-d]pyrimidin-4-yl)amino]-N-[3-(trifluoromethyl)phenyl]benzamide	2149470: Binding affinity to human SPCS2 incubated for 45 mins by Kinobead based pull down assay	kd	0.9161	uM
4-methyl-3-[(2-methyl-6-pyridin-3-ylpyrazolo[3,4-d]pyrimidin-4-yl)amino]-N-[3-(trifluoromethyl)phenyl]benzamide	2149470: Binding affinity to human SPCS2 incubated for 45 mins by Kinobead based pull down assay	kd	2.9871	uM

CTD chemical–gene interactions

30 total (human), top 30 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
sodium arsenite	affects cotreatment, increases abundance, increases expression, affects expression, decreases expression	4
Tunicamycin	increases expression	2
bisphenol F	increases expression	1
dicrotophos	decreases expression	1
manganese chloride	affects cotreatment, decreases expression, increases abundance, increases expression	1
di-n-butylphosphoric acid	affects expression	1
2,3,5-(triglutathion-S-yl)hydroquinone	increases ADP-ribosylation	1
bisphenol B	increases expression	1
bisphenol AF	increases expression	1
Air Pollutants	decreases expression, increases abundance	1
Arsenic	increases abundance, increases expression, affects cotreatment, decreases expression	1
Atrazine	increases expression	1
Cadmium	affects expression	1
Cisplatin	decreases reaction, decreases expression	1
Diuron	decreases expression	1
Ethyl Methanesulfonate	decreases expression	1
Ivermectin	decreases expression	1
Manganese	increases abundance, increases expression, affects cotreatment, decreases expression	1
Piroxicam	decreases expression, decreases reaction	1
Ribonucleotides	affects binding	1
Rotenone	increases expression	1
Selenium	affects cotreatment, decreases expression	1
Dihydrotestosterone	increases expression	1
Vitamin E	decreases expression, affects cotreatment	1
Zinc	increases expression	1
Cyclosporine	increases methylation, increases expression	1
Thapsigargin	increases expression	1
Copper Sulfate	decreases expression	1
Lactic Acid	increases expression	1
Particulate Matter	decreases expression, increases abundance	1

ChEMBL screening assays

1 unique, capped per target: 1 binding

Representative assays (with source publication via chembl_document):

Assay ID	Type	Description	Source paper
CHEMBL5652512	Binding	Binding affinity to human SPCS2 incubated for 45 mins by Kinobead based pull down assay	NVP-BHG712: Effects of Regioisomers on the Affinity and Selectivity toward the EPHrin Family. — ChemMedChem

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.