NCBI Summary
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. [provided by RefSeq, Apr 2012].
Protein
Protein (NP_003991)
YKL-39
Chitinase-3-like protein 2 (Chondrocyte protein 39) (YKL-39)
CHI3L2
chitinase 3 like 2
Undefined
Curated
chi-lectin (TIM)
Chilectins
a/b barrel / TIM
GlcNAc(b1-4)GlcNAc / Chitooligosaccharides
NP_003991
1117
Q15782
ENSP00000358763.4
Q15782
Undefined
10.1042/BJ20120377
neXtProt, PFAM, InterPro
Protein sequence and protein families (fasta) (390 amino acids) Download
MGATTMDQKSLWAGVVVLLLLQGGSAYKLVCYFTNWSQDRQEPGKFTPENIDPFLCSHLIYSFASIENNKVIIKDKSEVMLYQTINSLKTKNPKLKILLSIGGYLFGSKGFHPMVDSSTSRLEFINSIILFLRNHNFDGLDVSWIYPDQKENTHFTVLIHELAEAFQKDFTKSTKERLLLTAGVSAGRQMIDNSYQVEKLAKDLDFINLLSFDFHGSWEKPLITGHNSPLSKGWQDRGPSSYYNVEYAVGYWIHKGMPSEKVVMGIPTYGHSFTLASAETTVGAPASGPGAAGPITESSGFLAYYEICQFLKGAKITRLQDQQVPYAVKGNQWVGYDDVKSMETKVQFLKNLNLGGAMIWSIDMDDFTGKSCNQGPYPLVQAVKRSLGSL
Mol* PDB structure viewerUniLectin3D
Structural models
AlphaFold v2: AF-Q15782-F1Download
  Model Confidence:
  •    Very high (pLDDT > 90)
  •    Confident (90 > pLDDT > 70)
  •    Low (70 > pLDDT > 50)
  •    Very low (pLDDT < 50)

  AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Ligand
Glycan ligands from structural data
GlcNAc(b1-4)GlcNAc(b1-4)GlcNAc(b1-4)GlcNAc(b1-4)GlcNAc(b1-4)GlcNAc
4P8X
4P8X
GlyConnect Structures
GlcNAc(b1-4)GlcNAc(b1-4)GlcNAc(b1-4)GlcNAc
4P8V
4P8V
GlyConnect Structures
Expression
Human Protein Atlas
GeneCards
mRNA expression in normal human tissues for CHI3L2 Gene
ProteomicsDB
References
NCBI References (10 PubMed Identifiers)
  • Comprehensive Analysis of CD163 as a Prognostic Biomarker and Associated with Immune Infiltration in Glioblastoma Multiforme. [34395626]
  • Lack of association of CD44-rs353630 and CHI3L2-rs684559 with pancreatic ductal adenocarcinoma survival. [33828170]
  • YKL-39 as a Potential New Target for Anti-Angiogenic Therapy in Cancer. [32038607]
  • M2 Macrophage Marker Chitinase 3-Like 2 (CHI3L2) Associates With Progression of Conventional Renal Cell Carcinoma. [31810965]
  • Expression of M2 macrophage markers YKL-39 and CCL18 in breast cancer is associated with the effect of neoadjuvant chemotherapy. [29728799]
  • Two closely related human members of chitinase-like family, CHI3L1 and CHI3L2, activate ERK1/2 in 293 and U373 cells but have the different influence on cell proliferation. [22211103]
  • Human colostrum: identification of minor proteins in the aqueous phase by proteomics. [16502470]
  • Transcriptome analysis of human gastric cancer. [16341674]
  • Enhanced expression of the human chitinase 3-like 2 gene (YKL-39) but not chitinase 3-like 1 gene (YKL-40) in osteoarthritic cartilage. [12435396]
  • Isolation and sequence of a novel human chondrocyte protein related to mammalian members of the chitinase protein family. [8702629]
UniProt Main References (4 PubMed Identifiers)
  • Complete sequencing and characterization of 21,243 full-length human cDNAs. [14702039]
  • The DNA sequence and biological annotation of human chromosome 1. [16710414]
  • The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). [15489334]
  • Human YKL-39 is a pseudo-chitinase with retained chitooligosaccharide-binding properties. [22742450]
RNA
RNA (Transcript ID: NM_004000.3)
NM_004000.3
chitinase 3 like 2, transcript variant 1
All isoforms of CHI3L2 containing a lectin domain
ENST00000369748.9
18..1190 (or 111227730.. 111242364)
111227713.. 111243440
NCBI Matured mRNA sequence 1416 NTPDownload 
m7G-5')ppp(5'-AGAAGCUGGCCAAGGAUAUGGGAGCAACCACCAUGGACCAGAAGUCUCUCUGGGCAGGUGUAGUGGUCUUGCUGCUUCUCCAGGGAGGAUCUGCCUACAAACUGGUUUGCUACUUUACCAACUGGUCCCAGGACCGGCAGGAACCAGGAAAAUUCACCCCUGAGAAUAUUGACCCCUUCCUAUGCUCUCAUCUCAUCUAUUCAUUCGCCAGCAUCGAAAACAACAAGGUUAUCAUCAAGGACAAGAGUGAAGUGAUGCUCUACCAGACCAUCAACAGUCUCAAAACCAAGAAUCCCAAACUGAAAAUUCUCUUGUCCAUUGGAGGGUACCUGUUUGGUUCCAAAGGGUUCCACCCUAUGGUGGAUUCUUCUACAUCACGCUUGGAAUUCAUUAACUCCAUAAUCCUGUUUCUGAGGAACCAUAACUUUGAUGGACUGGAUGUAAGCUGGAUCUACCCAGAUCAGAAAGAAAACACUCAUUUCACUGUGCUGAUUCAUGAGUUAGCAGAAGCCUUUCAGAAGGACUUCACAAAAUCCACCAAGGAAAGGCUUCUCUUGACUGCGGGCGUAUCUGCAGGGAGGCAAAUGAUUGAUAACAGCUAUCAAGUUGAGAAACUGGCAAAAGAUCUGGAUUUCAUCAACCUCCUGUCCUUUGACUUCCAUGGGUCUUGGGAAAAGCCCCUUAUCACUGGCCACAACAGCCCUCUGAGCAAGGGGUGGCAGGACAGAGGGCCAAGCUCCUACUACAAUGUGGAAUAUGCUGUGGGGUACUGGAUACAUAAGGGAAUGCCAUCAGAGAAGGUGGUCAUGGGCAUCCCCACAUAUGGGCACUCCUUCACACUGGCCUCUGCAGAAACCACCGUGGGGGCCCCUGCCUCUGGCCCUGGAGCUGCUGGACCCAUCACAGAGUCUUCAGGCUUCCUGGCCUAUUAUGAGAUCUGCCAGUUCCUGAAAGGAGCCAAGAUCACGCGGCUCCAGGAUCAGCAGGUUCCCUACGCAGUCAAGGGGAACCAGUGGGUGGGCUAUGAUGAUGUGAAGAGUAUGGAGACCAAGGUUCAGUUCUUAAAGAAUUUAAACCUGGGAGGAGCCAUGAUCUGGUCUAUUGACAUGGAUGACUUCACUGGCAAAUCCUGCAACCAGGGCCCUUACCCUCUUGUCCAAGCAGUCAAGAGAAGCCUUGGCUCCCUGUGAAGGAUUAACUUACAGAGAAGCAGGCAAGAUGACCUUGCUGCCUGGGGCCUGCUCUCUCCCAGGAAUUCUCAUGUGGGAUUCCCCUUGCCAGGCUGGCCUUUGGAUCUCUCUUCCAAGCCUUUCCUGACUUCCUCUUAGAUCAUAGAUUGGACCUGGUUUUGUUUUCCUGCAGCUGUUGACUUGUUGCCCUGAAGUACAAUAAAAAAAAUUCAUUUUGCUCCAGUAA-3'- Poly-A tail
  • Coding region
NCBI Matured mRNA sequence viewer
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More about the NCBI sViewer.
DNA
DNA (Gene ID: 1117)
CHI3L2
chitinase 3 like 2
NC_000001.11
1  111227730.. 111242364
111227730.. 111242364
strand +
CCDS30802.1
ClinVar, dbVar
ENSG00000064886
YKL-39, YKL39
uc057jho.1
INSDC: U49835
1933
601526
OTTHUMG00000012174
ENA, DDBJ, Monarch
NCBI CDS Gene viewer
More about the NCBI sViewer.
NCBI CDS gene sequence (1173 bp)
5'-ATGGGAGCAACCACCATGGACCAGAAGTCTCTCTGGGCAGGTGTAGTGGTCTTGCTGCTTCTCCAGGGAGGATCTGCCTACAAACTGGTTTGCTACTTTACCAACTGGTCCCAGGACCGGCAGGAACCAGGAAAATTCACCCCTGAGAATATTGACCCCTTCCTATGCTCTCATCTCATCTATTCATTCGCCAGCATCGAAAACAACAAGGTTATCATCAAGGACAAGAGTGAAGTGATGCTCTACCAGACCATCAACAGTCTCAAAACCAAGAATCCCAAACTGAAAATTCTCTTGTCCATTGGAGGGTACCTGTTTGGTTCCAAAGGGTTCCACCCTATGGTGGATTCTTCTACATCACGCTTGGAATTCATTAACTCCATAATCCTGTTTCTGAGGAACCATAACTTTGATGGACTGGATGTAAGCTGGATCTACCCAGATCAGAAAGAAAACACTCATTTCACTGTGCTGATTCATGAGTTAGCAGAAGCCTTTCAGAAGGACTTCACAAAATCCACCAAGGAAAGGCTTCTCTTGACTGCGGGCGTATCTGCAGGGAGGCAAATGATTGATAACAGCTATCAAGTTGAGAAACTGGCAAAAGATCTGGATTTCATCAACCTCCTGTCCTTTGACTTCCATGGGTCTTGGGAAAAGCCCCTTATCACTGGCCACAACAGCCCTCTGAGCAAGGGGTGGCAGGACAGAGGGCCAAGCTCCTACTACAATGTGGAATATGCTGTGGGGTACTGGATACATAAGGGAATGCCATCAGAGAAGGTGGTCATGGGCATCCCCACATATGGGCACTCCTTCACACTGGCCTCTGCAGAAACCACCGTGGGGGCCCCTGCCTCTGGCCCTGGAGCTGCTGGACCCATCACAGAGTCTTCAGGCTTCCTGGCCTATTATGAGATCTGCCAGTTCCTGAAAGGAGCCAAGATCACGCGGCTCCAGGATCAGCAGGTTCCCTACGCAGTCAAGGGGAACCAGTGGGTGGGCTATGATGATGTGAAGAGTATGGAGACCAAGGTTCAGTTCTTAAAGAATTTAAACCTGGGAGGAGCCATGATCTGGTCTATTGACATGGATGACTTCACTGGCAAATCCTGCAACCAGGGCCCTTACCCTCTTGTCCAAGCAGTCAAGAGAAGCCTTGGCTCCCTGTGA-3'
NCBI CDS gene sequence with introns (location: 111227730.. 111242364) (14635 bp)Download
NCBI Gene Viewer (CDS + introns)
NCBI CDS gene sequence with introns, 5'UTR and 3'UTR (location: 111227713.. 111243440) (15728 bp)Download
NCBI Gene Viewer (CDS + introns + Untranslated regions)
NCBI gene sequence (location: [111227713 - 1000].. 111243440) (16728 bp)Download
NCBI Gene Viewer (CDS + introns + Untranslated regions + 1000 dNTP to potentially reach the promotor)
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