CHI3L2

Summary

CHI3L2 (chitinase 3 like 2, HGNC:1933) is a protein-coding gene on chromosome 1p13.2, encoding Chitinase-3-like protein 2 (Q15782). Lectin that binds chitooligosaccharides and other glycans with high affinity, but not heparin.

The protein encoded by this gene is similar to bacterial chitinases but lacks chitinase activity. The encoded protein is secreted and is involved in cartilage biogenesis. Several transcript variants encoding different isoforms have been found for this gene.

Source: NCBI Gene 1117 — RefSeq curated summary.

At a glance

• GWAS associations: 1
• Clinical variants (ClinVar): 72 total
• Druggable target: yes
• MANE Select transcript: NM_004000

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:1933
Approved symbol	CHI3L2
Name	chitinase 3 like 2
Location	1p13.2
Locus type	gene with protein product
Status	Approved
Aliases	YKL-39, YKL39
Ensembl gene	ENSG00000064886
Ensembl biotype	protein_coding
OMIM	601526
Entrez	1117

Gene structure

Transcript identifiers

Ensembl transcripts: 20 — 17 protein_coding, 2 retained_intron, 1 protein_coding_CDS_not_defined

ENST00000369744, ENST00000369748, ENST00000445067, ENST00000466741, ENST00000467038, ENST00000472825, ENST00000474304, ENST00000477185, ENST00000486561, ENST00000497220, ENST00000497587, ENST00000524472, ENST00000526684, ENST00000528451, ENST00000529459, ENST00000530597, ENST00000533831, ENST00000907889, ENST00000949913, ENST00000949914

RefSeq mRNA: 3 — MANE Select: NM_004000 NM_001025197, NM_001025199, NM_004000

CCDS: CCDS30802, CCDS30803, CCDS41367

Canonical transcript exons

ENST00000369748 — 11 exons

Exon	Start	End
ENSE00001935281	111243217	111243440
ENSE00003503390	111230742	111230943
ENSE00003584424	111242227	111242366
ENSE00003602532	111241327	111241443
ENSE00003629855	111229852	111229881
ENSE00003847969	111227713	111227769
ENSE00003890140	111236024	111236153
ENSE00003891371	111235639	111235763
ENSE00003892806	111234907	111235057
ENSE00003893582	111238750	111238932
ENSE00003895653	111231238	111231294

Expression profiles

Bgee: expression breadth ubiquitous, 205 present calls, max score 97.79.

FANTOM5 (CAGE): breadth broad, TPM avg 24.5561 / max 8322.6292, expressed in 546 samples.

FANTOM5 promoters (9 alternative TSS)

Promoter ID	TPM avg	Samples expressed
4612	19.2796	361
4611	1.7424	205
4615	1.1149	108
4614	0.8696	95
4610	0.5136	78
4616	0.4494	63
4609	0.3768	86
4613	0.1160	33
4617	0.0938	27

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
cartilage tissue	UBERON:0002418	97.79	gold quality
thymus	UBERON:0002370	94.50	gold quality
saliva-secreting gland	UBERON:0001044	93.94	gold quality
minor salivary gland	UBERON:0001830	93.82	gold quality
mucosa of stomach	UBERON:0001199	93.23	gold quality
vermiform appendix	UBERON:0001154	92.30	gold quality
parotid gland	UBERON:0001831	91.72	gold quality
upper lobe of left lung	UBERON:0008952	90.62	gold quality
lymph node	UBERON:0000029	90.56	gold quality
upper lobe of lung	UBERON:0008948	90.20	gold quality
tonsil	UBERON:0002372	89.88	gold quality
mouth mucosa	UBERON:0003729	89.65	gold quality
caecum	UBERON:0001153	86.76	gold quality
decidua	UBERON:0002450	86.66	gold quality
spleen	UBERON:0002106	85.40	gold quality
granulocyte	CL:0000094	83.99	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	83.74	gold quality
lower lobe of lung	UBERON:0008949	83.62	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	83.25	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	82.79	gold quality
left coronary artery	UBERON:0001626	82.60	gold quality
gall bladder	UBERON:0002110	82.52	gold quality
lung	UBERON:0002048	82.28	gold quality
layer of synovial tissue	UBERON:0007616	82.06	gold quality
spinal cord	UBERON:0002240	81.84	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	81.77	gold quality
coronary artery	UBERON:0001621	81.71	gold quality
right atrium auricular region	UBERON:0006631	81.49	gold quality
blood	UBERON:0000178	81.15	gold quality
calcaneal tendon	UBERON:0003701	80.77	gold quality

Single-cell (SCXA)

Detected in 4 experiment(s), a significant marker in 4.

Experiment	Marker?	Max mean expression
E-HCAD-24	yes	330.82
E-GEOD-86618	yes	196.20
E-HCAD-1	yes	74.80
E-ANND-3	yes	18.43

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

10 targeting CHI3L2, 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-188-3P	100.00	68.76	1240
HSA-MIR-6077	99.99	68.04	2299
HSA-MIR-6783-3P	99.89	67.92	2059
HSA-MIR-1343-3P	99.89	66.78	1815
HSA-MIR-10394-5P	99.65	66.83	1852
HSA-MIR-1205	99.65	66.76	1826
HSA-MIR-6882-5P	99.35	71.13	1206
HSA-MIR-3127-5P	97.52	65.24	786
HSA-MIR-3192-5P	96.98	65.76	1926
HSA-MIR-6894-3P	96.73	65.64	798

Literature-anchored findings (GeneRIF, showing 19)

• human chitinase 3-like 2 gene (YKL-39) but not chitinase 3-like 1 gene (YKL-40) is upregulated in osteoarthritic cartilage (PMID:12435396)
• ERK1/2 phosphorylation by CHI3L2 inhibits cell mitogenesis and proliferation. (PMID:22211103)
• YKL-39 possesses a chitinase-like fold, but lacks key active-site residues required for catalysis. (PMID:22742450)
• These data suggest that hYKL-39 is a novel growth and differentiation factor involved in cartilage homeostasis. (PMID:23291184)
• Structural analysis demonstrates that YKL-39 interacts with chitooligosaccharides through hydrogen bonds and hydrophobic interactions. Thermodynamic analysis indicates that binding of chitooligosaccharide to YKL-39 is mainly driven by enthalpy. (PMID:25477513)
• cerebrospinal fluid CHI3L1 and CHI3L2 and serum CHI3L1 might help to define multiple sclerosis disease stage (PMID:25698171)
• This review comprehensively analyzes recent data about expression pattern, and involvement of human YKL-40, YKL-39 and SI-CLP in cancer. [review] (PMID:26733160)
• This study shown that CHI3L2 is regulated differently in healthy and late onset Alzheimer"s disease brain depending on the sex. (PMID:27653898)
• This study suggests that CHI3L1 and CHI3L2 are associated with the progression of neurodegeneration in motor cortex and spinal cord of Amyotrophic Lateral Sclerosis patients. (PMID:28989002)
• In patients with breast cancer who received anthracycline-containing NAC the absence of clinical response is associated with the presence of M2+ macrophage phenotype (YKL-39-CCL18 + or YKL-39 + CCL18-) based on TOP2a overexpression data. (PMID:29728799)
• Results find that expression of CHI3L2 in tumor cells of conventional small renal cell carcinomas defines a group of patients at high risk for postoperative progression. (PMID:31810965)
• YKL-39 as a Potential New Target for Anti-Angiogenic Therapy in Cancer. (PMID:32038607)
• Lack of association of CD44-rs353630 and CHI3L2-rs684559 with pancreatic ductal adenocarcinoma survival. (PMID:33828170)
• Circular RNA circ-CHI3L1.2 modulates cisplatin resistance of osteosarcoma cells via the miR-340-5p/LPAATbeta axis. (PMID:34164774)
• Comprehensive Analysis of CD163 as a Prognostic Biomarker and Associated with Immune Infiltration in Glioblastoma Multiforme. (PMID:34395626)
• An integrative epi-transcriptomic approach identifies the human cartilage chitinase 3-like protein 2 (CHI3L2) as a potential mediator of B12 deficiency in adipocytes. (PMID:34818986)
• IL-2, IL-6 and chitinase 3-like 2 might predict early relapse activity in multiple sclerosis. (PMID:35759479)
• Chitinase 3-Like 2. (PMID:35913110)
• M2 macrophage marker CHI3L2 could serve as a potential prognostic and immunological biomarker in glioma by integrated single-cell and bulk RNA-Seq analysis. (PMID:37147894)

Cross-species orthologs

41 orthologs

Organism	Symbol	Gene ID
drosophila_melanogaster	Idgf6	FBGN0013763
drosophila_melanogaster	Idgf3	FBGN0020414
drosophila_melanogaster	Idgf2	FBGN0020415
drosophila_melanogaster	Idgf1	FBGN0020416
drosophila_melanogaster	Cht4	FBGN0022700
drosophila_melanogaster	Idgf4	FBGN0026415
drosophila_melanogaster	Cht8	FBGN0034580
drosophila_melanogaster	Cht9	FBGN0034582
drosophila_melanogaster	Cht7	FBGN0035398
drosophila_melanogaster	Cht12	FBGN0050293
drosophila_melanogaster	Cda4	FBGN0052499
drosophila_melanogaster	Idgf5	FBGN0064237
drosophila_melanogaster	Cht10	FBGN0250907
caenorhabditis_elegans		WBGENE00000503
caenorhabditis_elegans		WBGENE00007465
caenorhabditis_elegans		WBGENE00007466
caenorhabditis_elegans		WBGENE00007467
caenorhabditis_elegans		WBGENE00007469
caenorhabditis_elegans		WBGENE00007470
caenorhabditis_elegans		WBGENE00007471
caenorhabditis_elegans		WBGENE00007472
caenorhabditis_elegans		WBGENE00007473
caenorhabditis_elegans		WBGENE00010799
caenorhabditis_elegans		WBGENE00010945
caenorhabditis_elegans		WBGENE00011157
caenorhabditis_elegans		WBGENE00011158
caenorhabditis_elegans		WBGENE00011159
caenorhabditis_elegans		WBGENE00011161
caenorhabditis_elegans		WBGENE00011162
caenorhabditis_elegans		WBGENE00011164
caenorhabditis_elegans		WBGENE00011166
caenorhabditis_elegans		WBGENE00011167
caenorhabditis_elegans		WBGENE00011170
caenorhabditis_elegans		WBGENE00011846
caenorhabditis_elegans		WBGENE00014162
caenorhabditis_elegans		WBGENE00016665
caenorhabditis_elegans		WBGENE00017233
caenorhabditis_elegans		WBGENE00020141
caenorhabditis_elegans		WBGENE00020407
caenorhabditis_elegans		WBGENE00044546
caenorhabditis_elegans		WBGENE00044807

Paralogs (6): OVGP1 (ENSG00000085465), CTBS (ENSG00000117151), CHI3L1 (ENSG00000133048), CHIT1 (ENSG00000133063), CHIA (ENSG00000134216), CHID1 (ENSG00000177830)

Protein

Protein identifiers

Chitinase-3-like protein 2 — Q15782 (reviewed: Q15782)

Alternative names: Chondrocyte protein 39, YKL-39

All UniProt accessions (10): Q15782, E9PII8, E9PIX1, E9PP75, E9PPX4, E9PR52, E9PRL9, H0YD88, H0YE91, H0YEJ1

UniProt curated annotations — full annotation on UniProt →

Function. Lectin that binds chitooligosaccharides and other glycans with high affinity, but not heparin. Has no chitinase activity.

Subcellular location. Secreted.

Tissue specificity. Highest expression in chondrocytes, followed by synoviocytes, lung and heart. Not detected in spleen, pancreas, and liver. May also be expressed in developing brain and placenta.

Similarity. Belongs to the glycosyl hydrolase 18 family.

Isoforms (3)

UniProt ID	Names	Canonical?
Q15782-4	1	yes
Q15782-5	2
Q15782-6	3

RefSeq proteins (3): NP_001020368, NP_001020370, NP_003991* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR001223	Glyco_hydro18_cat	Domain
IPR011583	Chitinase_II/V-like_cat	Domain
IPR017853	GH_hydrolase_sf	Homologous_superfamily
IPR029070	Chitinase_insertion_sf	Homologous_superfamily
IPR050314	Glycosyl_Hydrlase_18	Family

Pfam: PF00704

UniProt features (55 total): helix 16, strand 14, binding site 7, turn 6, sequence variant 3, splice variant 2, mutagenesis site 2, signal peptide 1, chain 1, glycosylation site 1, disulfide bond 1, domain 1

Structure

Experimental structures (PDB)

5 structures.

PDB	Method	Resolution (Å)
4P8V	X-RAY DIFFRACTION	1.64
4P8W	X-RAY DIFFRACTION	1.87
4AY1	X-RAY DIFFRACTION	1.95
4P8U	X-RAY DIFFRACTION	2.4
4P8X	X-RAY DIFFRACTION	2.48

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q15782-F1	94.96	0.94

Functional residue map

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

Ligand- & substrate-binding residues (7): 75–76; 102–105; 104; 146; 210–213; 213; 360

Disulfide bonds (1): 31–56

Glycosylation sites (1): 35

Mutagenesis-validated functional residues (2):

Position	Phenotype
143	confers chitinase activity; when associated with e-145.
145	confers chitinase activity; when associated with d-143.

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 115 (showing top): GSE37336_LY6C_POS_VS_NEG_NAIVE_CD4_TCELL_DN, MCLACHLAN_DENTAL_CARIES_UP, GOBP_MACROMOLECULE_CATABOLIC_PROCESS, GOBP_CARBOHYDRATE_DERIVATIVE_CATABOLIC_PROCESS, HSIAO_HOUSEKEEPING_GENES, BOHN_PRIMARY_IMMUNODEFICIENCY_SYNDROM_DN, GOBP_CARBOHYDRATE_DERIVATIVE_METABOLIC_PROCESS, MODULE_205, RIGGI_EWING_SARCOMA_PROGENITOR_DN, GOBP_AMINOGLYCAN_METABOLIC_PROCESS, GOBP_CARBOHYDRATE_METABOLIC_PROCESS, MODULE_213, GOBP_AMINO_SUGAR_CATABOLIC_PROCESS, MODULE_157, GOBP_AMINO_SUGAR_METABOLIC_PROCESS

GO Biological Process (2): carbohydrate metabolic process (GO:0005975), chitin catabolic process (GO:0006032)

GO Molecular Function (3): chitin binding (GO:0008061), hydrolase activity (GO:0016787), carbohydrate binding (GO:0030246)

GO Cellular Component (2): extracellular region (GO:0005576), obsolete extracellular space (GO:0005615)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
primary metabolic process	1
aminoglycan catabolic process	1
chitin metabolic process	1
glucosamine-containing compound catabolic process	1
carbohydrate derivative binding	1
catalytic activity	1
binding	1
cellular anatomical structure	1

Protein interactions and networks

STRING

788 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
CHI3L2	CHID1	Q9BWS9	745
CHI3L2	DENND2D	Q9H6A0	604
CHI3L2	STAB1	Q9NY15	446
CHI3L2	HSPB8	Q9UJY1	384
CHI3L2	CLEC3A	O75596	373
CHI3L2	TAF1D	Q9H5J8	345
CHI3L2	SPP1	P10451	335
CHI3L2	MAP3K5	Q99683	317
CHI3L2	SYF2	O95926	313
CHI3L2	CIMAP3	Q8TCI5	312
CHI3L2	SYNGR4	O95473	311
CHI3L2	C1orf198	Q9H425	310
CHI3L2	NEFH	P12036	307
CHI3L2	NEFL	P07196	304
CHI3L2	CILP	O75339	303

IntAct

11 interactions, top by confidence:

A	B	Type	Score
CCNC	MED19	psi-mi:“MI:0914”(association)	0.640
TBC1D22B	A2ML1	psi-mi:“MI:0914”(association)	0.530
ETS1	ETS1	psi-mi:“MI:0914”(association)	0.500
env	PGRMC1	psi-mi:“MI:0914”(association)	0.460
STX17	A2ML1	psi-mi:“MI:0914”(association)	0.350
RNF115	IGLC7	psi-mi:“MI:0914”(association)	0.350
C18orf21	A2ML1	psi-mi:“MI:0914”(association)	0.350
ATP6AP2	KLK10	psi-mi:“MI:0914”(association)	0.350
lolE	CHI3L2	psi-mi:“MI:0915”(physical association)	0.000

BioGRID (12): CHI3L2 (Affinity Capture-MS), CHI3L2 (Affinity Capture-MS), CHI3L2 (Affinity Capture-MS), CHI3L2 (Affinity Capture-MS), CHI3L2 (Affinity Capture-MS), CHI3L2 (Affinity Capture-MS), CHI3L2 (Affinity Capture-MS), CHI3L2 (Affinity Capture-MS), CHI3L2 (Affinity Capture-MS), OVGP1 (Negative Genetic), RPRD1A (Cross-Linking-MS (XL-MS)), CHI3L2 (Affinity Capture-MS)

ESM2 similar proteins: A0A072UR65, A0A072VEP0, A0A1B1J8Z2, A0A1P8B8F8, D7SFH9, F4JEQ1, G7KEU7, O04660, O35744, O64810, O64811, O81009, O81078, O81776, O81862, P23433, Q06915, Q15782, Q2V465, Q680B7, Q7Y208, Q84WT5, Q8GWX9, Q8H780, Q8L7I2, Q8LGN0, Q8LGN1, Q8RWJ6, Q8VYE5, Q91Z98, Q9C5V5, Q9C7D2, Q9C7D3, Q9C7D4, Q9C7D6, Q9C7U8, Q9C7Z9, Q9CAU0, Q9CAU1, Q9CAU2

Diamond homologs: A0A072UR65, A0A072VEP0, A0A1B1J8Z2, A6N6J0, E9ERT9, O35744, O81862, P29030, P36222, P36362, P36718, P48827, Q12889, Q13231, Q15782, Q28042, Q28542, Q28990, Q29411, Q5RBP6, Q62010, Q6RY07, Q91XA9, Q91Z98, Q95M17, Q9BZP6, Q9W092, Q9W5U2, U5N4E3, O14456, P20533, P30922, P36909, Q60557, Q6TMG6, Q8SPQ0, H2A0L4, H2A0L5, P86955, Q11174

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	56
Likely benign	3
Benign	2

Top pathogenic / likely-pathogenic (0)

SpliceAI

1644 predictions. Top by Δscore:

Variant	Effect	Δscore
1:111230740:A:AG	acceptor_gain	1.0000
1:111230741:G:GG	acceptor_gain	1.0000
1:111230939:ACCAA:A	donor_gain	1.0000
1:111230940:CCAA:C	donor_gain	1.0000
1:111230941:CAA:C	donor_gain	1.0000
1:111230942:AA:A	donor_gain	1.0000
1:111230944:GTGA:G	donor_gain	1.0000
1:111230945:T:A	donor_loss	1.0000
1:111230946:GA:G	donor_gain	1.0000
1:111230948:G:GG	donor_gain	1.0000
1:111234902:TCCAG:T	acceptor_loss	1.0000
1:111234903:CCAG:C	acceptor_loss	1.0000
1:111234904:CAGG:C	acceptor_loss	1.0000
1:111234905:A:AG	acceptor_gain	1.0000
1:111234906:G:GG	acceptor_gain	1.0000
1:111234906:G:GT	acceptor_loss	1.0000
1:111235053:TTCAT:T	donor_gain	1.0000
1:111235056:ATGT:A	donor_loss	1.0000
1:111235057:TGTA:T	donor_loss	1.0000
1:111235058:G:GG	donor_gain	1.0000
1:111235058:GTA:G	donor_loss	1.0000
1:111235060:AA:A	donor_loss	1.0000
1:111235635:CTA:C	acceptor_loss	1.0000
1:111235637:A:AG	acceptor_gain	1.0000
1:111235637:A:T	acceptor_loss	1.0000
1:111235638:G:A	acceptor_loss	1.0000
1:111235638:G:GG	acceptor_gain	1.0000
1:111235638:GGA:G	acceptor_gain	1.0000
1:111235759:GCAAA:G	donor_gain	1.0000
1:111235760:CAAAG:C	donor_loss	1.0000

AlphaMissense

2574 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
1:111238831:T:C	F273L	0.989
1:111238833:C:A	F273L	0.989
1:111238833:C:G	F273L	0.989
1:111241407:G:C	W333C	0.986
1:111241407:G:T	W333C	0.986
1:111241443:G:C	K345N	0.986
1:111241443:G:T	K345N	0.986
1:111241405:T:A	W333R	0.984
1:111241405:T:C	W333R	0.984
1:111242284:G:C	D365H	0.984
1:111241387:G:C	A327P	0.982
1:111236100:A:C	S228R	0.981
1:111236102:C:A	S228R	0.981
1:111236102:C:G	S228R	0.981
1:111230837:T:A	C56S	0.980
1:111230838:G:C	C56S	0.980
1:111230762:T:C	C31R	0.979
1:111241429:A:C	S341R	0.977
1:111241431:T:A	S341R	0.977
1:111241431:T:G	S341R	0.977
1:111230847:T:C	L59P	0.972
1:111238822:G:T	G270W	0.972
1:111230762:T:A	C31S	0.971
1:111230763:G:C	C31S	0.971
1:111234996:T:C	L140P	0.971
1:111241414:T:G	Y336D	0.970
1:111230764:C:G	C31W	0.969
1:111238931:A:T	E306V	0.969
1:111230837:T:C	C56R	0.968
1:111234972:T:C	L132P	0.967

dbSNP variants (sampled 300 via entrez): RS1000119976 (1:111235174 C>A,T), RS1000289785 (1:111235466 T>C), RS1000414696 (1:111240956 A>G), RS1000596071 (1:111236450 G>A), RS1000627206 (1:111236762 A>G), RS1000908437 (1:111236974 T>C), RS1001111820 (1:111230272 G>A,T), RS1001150354 (1:111242126 T>C,G), RS1001247523 (1:111241147 G>T), RS1001470686 (1:111231813 T>A), RS1001536927 (1:111230536 G>A), RS1001837660 (1:111231605 A>C), RS1002119801 (1:111230080 C>T), RS1002517337 (1:111227633 C>G), RS1002549425 (1:111230248 A>G)

Disease associations

OMIM: gene MIM:601526 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

1 associations (top):

Study	Trait	p-value
GCST006585_1316	Blood protein levels	5.000000e-18

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (1): CHEMBL6066218 (SINGLE PROTEIN)

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

ChEMBL bioactivities

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

pChembl	Type	Value	Unit	Molecule
7.47	IC50	34	nM	CHEMBL5572262
7.05	IC50	90	nM	CHEMBL5563081
5.92	IC50	1200	nM	CHEMBL5592069
5.19	IC50	6500	nM	CHEMBL5570010
5.16	IC50	6900	nM	CHEMBL5565054

PubChem BioAssay actives

5 with measured affinity, of 12 total; 5 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
(2S,5S)-5-[(4-chlorophenyl)methyl]-4-[1-(3-fluoro-2-pyridinyl)piperidin-4-yl]-2-methylmorpholine	2090834: Displacement of biotinylated ((2R,5S)-5-(4-chlorobenzyl)-4-(1-(pyridin-2-yl)piperidin-4-yl)morpholin-2-yl)methyl 41-oxo-45-((3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol4-yl)-4,7,10,13,16,19,22,25,28,31,34,37-dodecaoxa-40-azapentatetracontanoate from human His-tagged CHI3L2 expressed in HEK293F cells incubated for 1 hr by competitive AlphaScreen assay	ic50	0.0340	uM
N-[2-(4-chlorophenyl)ethyl]-N-methyl-4-(3-methyl-1,2-oxazol-5-yl)cyclohexan-1-amine	2090834: Displacement of biotinylated ((2R,5S)-5-(4-chlorobenzyl)-4-(1-(pyridin-2-yl)piperidin-4-yl)morpholin-2-yl)methyl 41-oxo-45-((3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol4-yl)-4,7,10,13,16,19,22,25,28,31,34,37-dodecaoxa-40-azapentatetracontanoate from human His-tagged CHI3L2 expressed in HEK293F cells incubated for 1 hr by competitive AlphaScreen assay	ic50	0.0900	uM
(2S,5S)-5-[(4-chlorophenyl)methyl]-2-methyl-4-(1-pyridin-2-ylpiperidin-4-yl)morpholine	2090834: Displacement of biotinylated ((2R,5S)-5-(4-chlorobenzyl)-4-(1-(pyridin-2-yl)piperidin-4-yl)morpholin-2-yl)methyl 41-oxo-45-((3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol4-yl)-4,7,10,13,16,19,22,25,28,31,34,37-dodecaoxa-40-azapentatetracontanoate from human His-tagged CHI3L2 expressed in HEK293F cells incubated for 1 hr by competitive AlphaScreen assay	ic50	1.2000	uM
(2S,5S)-5-[(4-chlorophenyl)methyl]-2-methyl-4-[1-(1,3-thiazol-2-yl)piperidin-4-yl]morpholine	2090834: Displacement of biotinylated ((2R,5S)-5-(4-chlorobenzyl)-4-(1-(pyridin-2-yl)piperidin-4-yl)morpholin-2-yl)methyl 41-oxo-45-((3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol4-yl)-4,7,10,13,16,19,22,25,28,31,34,37-dodecaoxa-40-azapentatetracontanoate from human His-tagged CHI3L2 expressed in HEK293F cells incubated for 1 hr by competitive AlphaScreen assay	ic50	6.5000	uM
(2R,5S)-5-[(4-chlorophenyl)methyl]-4-[1-(4-chloro-2-pyridinyl)piperidin-4-yl]-2-(methylsulfonylmethyl)morpholine	2090834: Displacement of biotinylated ((2R,5S)-5-(4-chlorobenzyl)-4-(1-(pyridin-2-yl)piperidin-4-yl)morpholin-2-yl)methyl 41-oxo-45-((3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol4-yl)-4,7,10,13,16,19,22,25,28,31,34,37-dodecaoxa-40-azapentatetracontanoate from human His-tagged CHI3L2 expressed in HEK293F cells incubated for 1 hr by competitive AlphaScreen assay	ic50	6.9000	uM

CTD chemical–gene interactions

25 total (human), top 25 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
bisphenol A	decreases methylation, increases expression, affects cotreatment, decreases expression	3
Nickel	increases expression	2
triphenyl phosphate	affects expression	1
butyraldehyde	decreases expression	1
S-(1,2-dichlorovinyl)cysteine	decreases reaction, increases expression	1
pentanal	decreases expression	1
di-n-butylphosphoric acid	affects expression	1
CGP 52608	affects binding, increases reaction	1
2-methyl-2H-pyrazole-3-carboxylic acid (2-methyl-4-o-tolylazophenyl)amide	decreases expression, decreases reaction	1
Zoledronic Acid	increases expression	1
Air Pollutants	decreases expression	1
Vehicle Emissions	decreases expression, decreases reaction	1
Benzo(a)pyrene	affects methylation	1
Dexamethasone	decreases expression, increases expression, affects cotreatment	1
Indomethacin	affects cotreatment, decreases expression, increases expression	1
Lipopolysaccharides	increases expression, decreases reaction	1
Methyl Methanesulfonate	increases expression	1
1-Methyl-3-isobutylxanthine	affects cotreatment, decreases expression, increases expression	1
Isotretinoin	decreases expression	1
Cyclosporine	increases expression	1
Asbestos, Crocidolite	decreases expression	1
Antirheumatic Agents	decreases expression	1
Cadmium Chloride	decreases expression	1
Copper Sulfate	increases expression	1
Particulate Matter	decreases expression, decreases reaction	1

ChEMBL screening assays

2 unique, capped per target: 2 binding

Representative assays (with source publication via chembl_document):

Assay ID	Type	Description	Source paper
CHEMBL5531565	Binding	Displacement of biotinylated ((2R,5S)-5-(4-chlorobenzyl)-4-(1-(pyridin-2-yl)piperidin-4-yl)morpholin-2-yl)methyl 41-oxo-45-((3aS,4S,6aR)-2-oxohexahydro-1H-thieno[3,4-d]imidazol4-yl)-4,7,10,13,16,19,22,25,28,31,34,37-dodecaoxa-40-azapentatet	Structure-Based Discovery of High-Affinity Small Molecule Ligands and Development of Tool Probes to Study the Role of Chitinase-3-Like Protein 1. — J Med Chem

Clinical trials (associated diseases)

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