L1CAM
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Also known as CD171NCAM-L1CAML1
Summary
L1CAM (L1 cell adhesion molecule, HGNC:6470) is a protein-coding gene on chromosome Xq28, encoding Neural cell adhesion molecule L1 (P32004). Neural cell adhesion molecule involved in the dynamics of cell adhesion and in the generation of transmembrane signals at tyrosine kinase receptors. It is haploinsufficient (ClinGen: sufficient evidence).
The protein encoded by this gene is an axonal glycoprotein belonging to the immunoglobulin supergene family. The ectodomain, consisting of several immunoglobulin-like domains and fibronectin-like repeats (type III), is linked via a single transmembrane sequence to a conserved cytoplasmic domain. This cell adhesion molecule plays an important role in nervous system development, including neuronal migration and differentiation. Mutations in the gene cause X-linked neurological syndromes known as CRASH (corpus callosum hypoplasia, retardation, aphasia, spastic paraplegia and hydrocephalus). Alternative splicing of this gene results in multiple transcript variants, some of which include an alternate exon that is considered to be specific to neurons.
Source: NCBI Gene 3897 — RefSeq curated summary.
At a glance
- Gene–disease (curated): L1 syndrome (Definitive, ClinGen) — +4 more curated relationships
- Clinical variants (ClinVar): 1,545 total — 126 pathogenic, 71 likely-pathogenic
- Phenotypes (HPO): 57
- Druggable target: yes
- Dosage sensitivity (ClinGen): haploinsufficiency sufficient evidence, triplosensitivity no evidence
- MANE Select transcript:
NM_001278116
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:6470 |
| Approved symbol | L1CAM |
| Name | L1 cell adhesion molecule |
| Location | Xq28 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | CD171, NCAM-L1, CAML1 |
| Ensembl gene | ENSG00000198910 |
| Ensembl biotype | protein_coding |
| OMIM | 308840 |
| Entrez | 3897 |
Gene structure
Transcript identifiers
Ensembl transcripts: 20 — 14 protein_coding, 5 retained_intron, 1 protein_coding_CDS_not_defined
ENST00000361699, ENST00000361981, ENST00000370055, ENST00000370058, ENST00000370060, ENST00000407935, ENST00000420165, ENST00000439496, ENST00000455590, ENST00000458029, ENST00000460553, ENST00000474853, ENST00000484652, ENST00000491983, ENST00000496122, ENST00000616195, ENST00000891164, ENST00000891165, ENST00000912311, ENST00000912312
RefSeq mRNA: 4 — MANE Select: NM_001278116
NM_000425, NM_001143963, NM_001278116, NM_024003
CCDS: CCDS14733, CCDS14734, CCDS48192
Canonical transcript exons
ENST00000370060 — 29 exons
| Exon | Start | End |
|---|---|---|
| ENSE00001434628 | 153868302 | 153868458 |
| ENSE00001434939 | 153864322 | 153864477 |
| ENSE00001435014 | 153868841 | 153868952 |
| ENSE00001435150 | 153869520 | 153869663 |
| ENSE00001435355 | 153863883 | 153864017 |
| ENSE00001435510 | 153864821 | 153864994 |
| ENSE00001435724 | 153864585 | 153864704 |
| ENSE00001435726 | 153870790 | 153870960 |
| ENSE00001435915 | 153869803 | 153869934 |
| ENSE00001435943 | 153870056 | 153870240 |
| ENSE00001435979 | 153866649 | 153866871 |
| ENSE00001436064 | 153867054 | 153867124 |
| ENSE00001436163 | 153867356 | 153867553 |
| ENSE00001436402 | 153865704 | 153865819 |
| ENSE00001436528 | 153871057 | 153871179 |
| ENSE00001436728 | 153863477 | 153863549 |
| ENSE00001546790 | 153886065 | 153886173 |
| ENSE00002697951 | 153870388 | 153870499 |
| ENSE00003507494 | 153867800 | 153867910 |
| ENSE00003509266 | 153867998 | 153868122 |
| ENSE00003544774 | 153865088 | 153865210 |
| ENSE00003577699 | 153875761 | 153875944 |
| ENSE00003601238 | 153868561 | 153868727 |
| ENSE00003617569 | 153873228 | 153873242 |
| ENSE00003664140 | 153865299 | 153865500 |
| ENSE00003680685 | 153872592 | 153872697 |
| ENSE00003681390 | 153863368 | 153863379 |
| ENSE00003790765 | 153872152 | 153872354 |
| ENSE00003895433 | 153861516 | 153862894 |
Expression profiles
Bgee: expression breadth ubiquitous, 239 present calls, max score 98.91.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 19.6818 / max 502.2057, expressed in 935 samples.
FANTOM5 promoters (6 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 200921 | 17.4865 | 926 |
| 200919 | 1.5250 | 172 |
| 200917 | 0.3054 | 162 |
| 200918 | 0.1580 | 80 |
| 200920 | 0.1405 | 54 |
| 200916 | 0.0665 | 23 |
Top tissues by expression
286 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| cortical plate | UBERON:0005343 | 98.91 | gold quality |
| right hemisphere of cerebellum | UBERON:0014890 | 98.87 | gold quality |
| cerebellar hemisphere | UBERON:0002245 | 98.79 | gold quality |
| cerebellar cortex | UBERON:0002129 | 98.78 | gold quality |
| cerebellum | UBERON:0002037 | 98.61 | gold quality |
| dorsal root ganglion | UBERON:0000044 | 98.12 | gold quality |
| trigeminal ganglion | UBERON:0001675 | 97.49 | gold quality |
| cerebellar vermis | UBERON:0004720 | 97.30 | gold quality |
| sural nerve | UBERON:0015488 | 96.96 | gold quality |
| paraflocculus | UBERON:0005351 | 96.31 | gold quality |
| olfactory bulb | UBERON:0002264 | 96.11 | gold quality |
| tibial nerve | UBERON:0001323 | 95.88 | gold quality |
| Brodmann (1909) area 10 | UBERON:0013541 | 95.75 | gold quality |
| right frontal lobe | UBERON:0002810 | 95.72 | gold quality |
| superior frontal gyrus | UBERON:0002661 | 95.48 | gold quality |
| endometrium epithelium | UBERON:0004811 | 95.39 | gold quality |
| frontal cortex | UBERON:0001870 | 95.34 | gold quality |
| ganglionic eminence | UBERON:0004023 | 95.27 | gold quality |
| prefrontal cortex | UBERON:0000451 | 95.21 | gold quality |
| entorhinal cortex | UBERON:0002728 | 95.13 | gold quality |
| primary visual cortex | UBERON:0002436 | 94.89 | gold quality |
| parietal lobe | UBERON:0001872 | 94.81 | gold quality |
| postcentral gyrus | UBERON:0002581 | 94.74 | gold quality |
| occipital lobe | UBERON:0002021 | 94.47 | gold quality |
| neocortex | UBERON:0001950 | 94.45 | gold quality |
| Brodmann (1909) area 9 | UBERON:0013540 | 94.22 | gold quality |
| frontal pole | UBERON:0002795 | 93.93 | gold quality |
| Brodmann (1909) area 23 | UBERON:0013554 | 93.90 | gold quality |
| dorsolateral prefrontal cortex | UBERON:0009834 | 93.54 | gold quality |
| orbitofrontal cortex | UBERON:0004167 | 93.05 | gold quality |
Single-cell (SCXA)
Detected in 4 experiment(s), a significant marker in 3.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-HCAD-11 | yes | 29.84 |
| E-GEOD-93593 | yes | 14.36 |
| E-GEOD-84465 | yes | 7.08 |
| E-ANND-3 | no | 2.85 |
Regulation
Is transcription factor: no
Upstream regulators (CollecTRI, top): AHR, ARNT, BARX2, CTNNB1, DNMT1, EWSR1, FLI1, HNF4A, HOXA1, HR, NFIA, NFIC, NFKB, NME1, PAX2, PAX6, PAX8, REST, SNAI2, SOX10, SP1, TCF3, TFAP2A
miRNA regulators (miRDB)
87 targeting L1CAM, 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-5011-5P | 100.00 | 83.46 | 5820 |
| HSA-MIR-190A-3P | 100.00 | 80.35 | 5520 |
| HSA-MIR-4262 | 100.00 | 73.26 | 3931 |
| HSA-MIR-4747-5P | 100.00 | 67.90 | 2681 |
| HSA-MIR-5196-5P | 100.00 | 67.98 | 2761 |
| HSA-MIR-3924 | 100.00 | 72.09 | 2394 |
| HSA-MIR-181A-5P | 99.99 | 72.96 | 2995 |
| HSA-MIR-181B-5P | 99.99 | 72.97 | 2996 |
| HSA-MIR-181C-5P | 99.99 | 72.95 | 2996 |
| HSA-MIR-181D-5P | 99.99 | 73.04 | 2997 |
| HSA-MIR-493-5P | 99.96 | 72.47 | 2382 |
| HSA-MIR-96-5P | 99.95 | 72.80 | 2140 |
| HSA-MIR-9983-3P | 99.94 | 71.48 | 3631 |
| HSA-MIR-12133 | 99.92 | 71.82 | 2006 |
| HSA-MIR-1271-5P | 99.91 | 71.99 | 1972 |
| HSA-MIR-6783-3P | 99.89 | 67.92 | 2059 |
| HSA-MIR-1343-3P | 99.89 | 66.78 | 1815 |
| HSA-MIR-4731-5P | 99.89 | 67.23 | 2537 |
| HSA-MIR-129-5P | 99.88 | 70.26 | 3273 |
| HSA-MIR-182-5P | 99.87 | 74.03 | 2589 |
| HSA-MIR-4492 | 99.87 | 68.25 | 3611 |
| HSA-MIR-4447 | 99.85 | 67.81 | 2900 |
| HSA-MIR-4728-5P | 99.85 | 69.39 | 4718 |
| HSA-MIR-1321 | 99.84 | 65.30 | 1811 |
| HSA-MIR-4756-5P | 99.84 | 64.98 | 1809 |
| HSA-MIR-4739 | 99.84 | 65.25 | 1832 |
| HSA-MIR-6785-5P | 99.82 | 68.68 | 4428 |
| HSA-MIR-6756-5P | 99.82 | 67.97 | 2466 |
| HSA-MIR-92A-2-5P | 99.75 | 67.01 | 2164 |
| HSA-MIR-149-3P | 99.72 | 68.22 | 3963 |
Functional genomics
ClinGen dosage: haploinsufficiency 3 (sufficient evidence), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map
Literature-anchored findings (GeneRIF, showing 40)
- genetic and clinical aspects of X-linked hydrocephalus (L1 disease) (PMID:11438988)
- May be a modifier of a gene associated with Hirschsprung disease. (PMID:11857550)
- Hirschsprung disease and L1CAM: is the disturbed sex ratio caused by L1CAM mutations? (PMID:11897831)
- A novel missense mutation in the L1CAM gene is identified in a boy with X-linked hydrocephalus who had multiple small gyri, hypoplasia of the white matter, agenesis of the corpus callosum, and lack of cleavage of the thalami. (PMID:12435569)
- L1CAM might contribute to melanoma progression by promoting cell adhesion and migration. (PMID:12490317)
- X-linked hydrocephalus is a variable condition caused by mutations in the gene encoding for L1CAM. This gene is located at Xq28. (PMID:12725590)
- This review focuses on the L1CAM extracellular region and how recent work has clarified important aspects of its structure and function; new insights are provided for L1CAM binding to extracellular molecules, and how L1CAM initially folds. (PMID:12957823)
- Data show that L1-cell adhesion molecule interactions with ankyrinB (but not with ankyrinG) are involved in the initial formation of neurites. (PMID:14657231)
- L1-type CAMs are able to promote the adhesion-dependent activation of EGF receptor signaling in vitro and in vivo (PMID:14718570)
- This study provides a novel translational mechanism to account for the association between L1 expression and motile processes involved in metastasis and development. (PMID:15128735)
- L1CAM may be a modifying factor in the development of Hirschsprung’s disease (PMID:15148591)
- The sixth Ig-like domain of L1 (L1Ig6) demonstrates angiogenic potential involving ligation and activation of alpha(v)beta3. (PMID:15609076)
- L1 expression conferred increased cell motility, growth in low serum, transformation and tumorigenesis. (PMID:15716380)
- Levels of CAM-L1 were increased in the prefrontal cortex of the major depression. (PMID:15820228)
- RanBPM is an adaptor protein that links L1 to the extracellular signal-regulated kinase/MAPK pathway. (PMID:16000162)
- The cleavage of the ectodomains of L1 and CD44 is initiated in an endosomal compartment that is subsequently released in the form of exosomes. (PMID:16229685)
- Data show that L1 is highly expressed in gastrointestinal stromal tumors but not in leiomyoma and desmoid-type fibromatosis being important differential diagnoses. (PMID:16400320)
- L1CAM has a function in synapse formation by organizing microtubules in the synaptic terminal. (PMID:16401420)
- L1 cell adhesion molecule plays a critical role in melanoma invasion and progression and offers therapeutic potential in combination with conventional anticancer agents. (PMID:16506207)
- High L1 expression is associated with colorectal cancer progression (PMID:17211730)
- A LiCAM mutation was presented in a boy with hydrocephalus and duplex kidneys. (PMID:17294222)
- L1CAM loss-of-function mutations cause a severe form of L1 syndrome. (PMID:17328266)
- ADAM10 overexpression in colon cancer cells displaying endogenous L1-CAM enhanced L1-CAM cleavage and induced liver metastasis, and ADAM10 also enhanced metastasis in colon cancer cells stably transfected with L1-CAM. (PMID:17699774)
- a significant association of L1 expression and presence of disseminated tumor cells colorectal tumors (PMID:17873897)
- Expression of L1-CAM augments cell motility, invasiveness and tumor growth, causes sustained Erk kinase activation and augments transcriptional activity of proinvasive genes. (PMID:17952127)
- A soluble form of human L1 can be detected in the urine of patients with acute tubular necrosis and this may be a marker of distal nephron injury. (PMID:18059459)
- Alpha v beta 5, alpha v beta 5 and their ligands Del-1 and L1 play an important role in the process of tumor cells moving from the original place. (PMID:18090124)
- We propose that L1CAM could promote endometriosis development by increasing enervation and aggravation. L1CAM expression is higher in atypical endometriosis compared with normal endometriosis. (PMID:18332088)
- L1 (CAM) expression represents a novel diagnostic marker in serous ovarian neoplasms that show characteristics of tumor progressio; immunoreactivity correlated significantly with stage and grade (PMID:18386459)
- ALCAM coordinates tissue growth and cell migration in a process involvnig L1CAM (PMID:18483249)
- Importance of the RGD site in L1 for human tumors; nuclear signaling of L1 is dependent on integrins. (PMID:18555990)
- L1CAM is required for maintaining the growth and survival of CD133(+) glioma cells both in vitro and in vivo, and L1CAM may represent a cancer stem cell-specific therapeutic target for improving the treatment of malignant gliomas and other brain tumors (PMID:18676824)
- domains Ig1 to Ig4 are necessary and sufficient for L1 homophilic binding in trans, and that the rest of the molecule does not contribute to the affinity (PMID:18701456)
- L1-CAM has a role in metastasis in colon cancer cells [review] (PMID:18847309)
- a functional role of L1CAM expression on tumor endothelium that could favor metastasis and angiogenesis during tumor progression. (PMID:18931829)
- L1 expression indicates more mature stages of neuroblastoma and is associated with less aggressive tumor cell behavior.. (PMID:18972120)
- Our report also helps define the critical region with exclusion of L1CAM in the X-linked mental retardation phenotype. (PMID:19018795)
- Using shotgun mass spectrometry, we found this protein differentially expressed in the dorsolateral prefrontal cortex from patients with schizophrenia. (PMID:19165527)
- Results establish for the first time that regulated proteolytic processing by ADAM10 and PS/gamma-secretase is essential for the nuclear signalling of L1 in human carcinoma cell lines. (PMID:19260824)
- These results implicate L1 in the regulation of dendritic cells (DC) trafficking and shed light on novel mechanisms underlying transendothelial migration of DCs. (PMID:19273627)
Cross-species orthologs
3 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | l1cama | ENSDARG00000007149 |
| mus_musculus | L1cam | ENSMUSG00000031391 |
| rattus_norvegicus | L1cam | ENSRNOG00000061230 |
Paralogs (36): CNTN1 (ENSG00000018236), CDON (ENSG00000064309), NEO1 (ENSG00000067141), SDK2 (ENSG00000069188), IGSF9B (ENSG00000080854), IGSF9 (ENSG00000085552), NRCAM (ENSG00000091129), MXRA5 (ENSG00000101825), IGDCC4 (ENSG00000103742), CNTN3 (ENSG00000113805), IGSF21 (ENSG00000117154), CNTN6 (ENSG00000134115), CHL1 (ENSG00000134121), PTPRQ (ENSG00000139304), CNTN4 (ENSG00000144619), BOC (ENSG00000144857), SDK1 (ENSG00000146555), HMCN2 (ENSG00000148357), NCAM1 (ENSG00000149294), CNTN5 (ENSG00000149972), IGSF10 (ENSG00000152580), ROBO4 (ENSG00000154133), ROBO3 (ENSG00000154134), NCAM2 (ENSG00000154654), VCAM1 (ENSG00000162692), NFASC (ENSG00000163531), PRTG (ENSG00000166450), ROBO1 (ENSG00000169855), DSCAM (ENSG00000171587), IGDCC3 (ENSG00000174498), VSIG10 (ENSG00000176834), DSCAML1 (ENSG00000177103), CNTN2 (ENSG00000184144), ROBO2 (ENSG00000185008), VSIG10L (ENSG00000186806), DCC (ENSG00000187323)
Protein
Protein identifiers
Neural cell adhesion molecule L1 — P32004 (reviewed: P32004)
All UniProt accessions (7): P32004, E7EMY4, E7EPI4, E7EVM4, E9PHJ4, H0Y5C3, H3BLW5
UniProt curated annotations — full annotation on UniProt →
Function. Neural cell adhesion molecule involved in the dynamics of cell adhesion and in the generation of transmembrane signals at tyrosine kinase receptors. During brain development, critical in multiple processes, including neuronal migration, axonal growth and fasciculation, and synaptogenesis. In the mature brain, plays a role in the dynamics of neuronal structure and function, including synaptic plasticity.
Subunit / interactions. Interacts with SHTN1; the interaction occurs in axonal growth cones. Interacts with isoform 2 of BSG.
Subcellular location. Cell membrane. Cell projection. Growth cone. Axon. Dendrite.
Disease relevance. Hydrocephalus, congenital, X-linked (HYCX) [MIM:307000] An X-linked recessive form of congenital hydrocephalus, a disease characterized by in utero onset of enlarged ventricles due to accumulation of ventricular cerebrospinal fluid. HYCX is the most common inherited form and occurs in approximately 1/30000 male births. The primary diagnostic criteria of intellectual disability and enlarged cerebral ventricles are often accompanied by spastic paraparesis and adducted thumbs and, occasionally, visual defects or seizures. The most severe cases die pre- or perinatally with gross hydrocephalus and enlarged head circumference. Stenosis of the aqueduct of Sylvius is frequently associated with the disorder. The disease is caused by variants affecting the gene represented in this entry. L1CAM mutations have also been found in few patients affected by hydrocephalus with Hirschsprung disease, suggesting a role of this gene acting either in a direct or indirect way in the pathogenesis of Hirschsprung disease. MASA syndrome (MASA) [MIM:303350] An X-linked recessive syndrome with a highly variable clinical spectrum. Main clinical features include spasticity and hyperreflexia of lower limbs, shuffling gait, intellectual disability, aphasia and adducted thumbs. The features of spasticity have been referred to as complicated spastic paraplegia type 1 (SPG1). Some patients manifest corpus callosum hypoplasia and hydrocephalus. Inter- and intrafamilial variability is very wide, such that patients with hydrocephalus, MASA, SPG1, and agenesis of corpus callosum can be present within the same family. The disease is caused by variants affecting the gene represented in this entry. Defects in L1CAM may contribute to Hirschsprung disease by modifying the effects of Hirschsprung disease-associated genes to cause intestinal aganglionosis. Agenesis of the corpus callosum, X-linked, partial (ACCPX) [MIM:304100] A syndrome characterized by partial corpus callosum agenesis, hypoplasia of inferior vermis and cerebellum, intellectual disability, seizures and spasticity. Other features include microcephaly, unusual facies, and Hirschsprung disease in some patients. The disease is caused by variants affecting the gene represented in this entry. Defects in L1CAM are associated with a wide phenotypic spectrum which varies from severe hydrocephalus and prenatal death (HYCX) to a milder phenotype (MASA). These variations may even occur within the same family. Due to the overlap of phenotypes between HYCX and MASA, many authors use the general concept of L1 syndrome which covers both ends of the spectrum.
Similarity. Belongs to the immunoglobulin superfamily. L1/neurofascin/NgCAM family.
Isoforms (3)
| UniProt ID | Names | Canonical? |
|---|---|---|
| P32004-1 | 1 | yes |
| P32004-2 | 2 | |
| P32004-3 | 3 |
RefSeq proteins (4): NP_000416, NP_001137435, NP_001265045, NP_076493 (=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR003598 | Ig_sub2 | Domain |
| IPR003599 | Ig_sub | Domain |
| IPR003961 | FN3_dom | Domain |
| IPR007110 | Ig-like_dom | Domain |
| IPR013098 | Ig_I-set | Domain |
| IPR013783 | Ig-like_fold | Homologous_superfamily |
| IPR026966 | Neurofascin/L1/NrCAM_C | Domain |
| IPR036116 | FN3_sf | Homologous_superfamily |
| IPR036179 | Ig-like_dom_sf | Homologous_superfamily |
| IPR051170 | Neural/epithelial_adhesion | Family |
Pfam: PF00041, PF07679, PF13882, PF13927
UniProt features (178 total): sequence variant 88, glycosylation site 20, strand 14, sequence conflict 12, domain 11, modified residue 9, disulfide bond 6, region of interest 3, compositionally biased region 3, helix 2, topological domain 2, splice variant 2, signal peptide 1, chain 1, mutagenesis site 1, turn 1, short sequence motif 1, transmembrane region 1
Structure
Experimental structures (PDB)
2 structures.
| PDB | Method | Resolution (Å) |
|---|---|---|
| 8AFO | X-RAY DIFFRACTION | 1.99 |
| 8AFP | X-RAY DIFFRACTION | 3 |
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-P32004-F1 | 78.82 | 0.39 |
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 (9): 1177, 1172, 1163, 1178, 1181, 1194, 1243, 1244, 1248
Disulfide bonds (6): 57–114, 158–209, 264–312, 354–404, 448–497, 539–591
Glycosylation sites (20): 100, 203, 247, 294, 433, 479, 490, 505, 588, 671, 726, 777, 825, 849, 876, 979, 1022, 1030, 1071, 1105
Mutagenesis-validated functional residues (1):
| Position | Phenotype |
|---|---|
| 1147–1153 | loss of axon guidance, when assayed in a heterologous system, but normal synapse formation. |
Function
Pathways and Gene Ontology
Reactome pathways
10 pathways
| ID | Pathway |
|---|---|
| R-HSA-210991 | Basigin interactions |
| R-HSA-373760 | L1CAM interactions |
| R-HSA-437239 | Recycling pathway of L1 |
| R-HSA-445095 | Interaction between L1 and Ankyrins |
| R-HSA-445144 | Signal transduction by L1 |
| R-HSA-109582 | Hemostasis |
| R-HSA-1266738 | Developmental Biology |
| R-HSA-202733 | Cell surface interactions at the vascular wall |
| R-HSA-422475 | Axon guidance |
| R-HSA-9675108 | Nervous system development |
MSigDB gene sets: 457 (showing top):
RNGTGGGC_UNKNOWN, TONKS_TARGETS_OF_RUNX1_RUNX1T1_FUSION_MONOCYTE_UP, RODRIGUES_THYROID_CARCINOMA_ANAPLASTIC_UP, HARRIS_HYPOXIA, GOBP_NEURON_PROJECTION_EXTENSION, SASAI_TARGETS_OF_CXCR6_AND_PTCH1_UP, GOBP_REGULATION_OF_DEVELOPMENTAL_GROWTH, GCANCTGNY_MYOD_Q6, GOBP_GROWTH, GOCC_CELL_SURFACE, GAUSSMANN_MLL_AF4_FUSION_TARGETS_E_UP, GOBP_NEUROGENESIS, GOBP_REGULATION_OF_NERVOUS_SYSTEM_DEVELOPMENT, GOBP_POSITIVE_REGULATION_OF_NERVOUS_SYSTEM_DEVELOPMENT, CAGCTG_AP4_Q5
GO Biological Process (12): chemotaxis (GO:0006935), cell adhesion (GO:0007155), homophilic cell-cell adhesion (GO:0007156), cell-matrix adhesion (GO:0007160), nervous system development (GO:0007399), axon guidance (GO:0007411), cell migration (GO:0016477), neuron projection development (GO:0031175), positive regulation of axon extension (GO:0045773), synapse organization (GO:0050808), axon development (GO:0061564), cell differentiation (GO:0030154)
GO Molecular Function (3): axon guidance receptor activity (GO:0008046), protein domain specific binding (GO:0019904), protein binding (GO:0005515)
GO Cellular Component (11): plasma membrane (GO:0005886), focal adhesion (GO:0005925), cell surface (GO:0009986), axon (GO:0030424), dendrite (GO:0030425), extracellular matrix (GO:0031012), neuronal cell body (GO:0043025), axonal growth cone (GO:0044295), membrane (GO:0016020), growth cone (GO:0030426), cell projection (GO:0042995)
Reactome top-level categories
Rollup of top-6 pathways:
| Category | Pathways |
|---|---|
| L1CAM interactions | 3 |
| Cell surface interactions at the vascular wall | 1 |
| Axon guidance | 1 |
| Hemostasis | 1 |
| Nervous system development | 1 |
| Developmental Biology | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| cellular anatomical structure | 3 |
| neuron projection | 2 |
| response to chemical | 1 |
| taxis | 1 |
| cellular process | 1 |
| cell-cell adhesion | 1 |
| cell-substrate adhesion | 1 |
| system development | 1 |
| axonogenesis | 1 |
| neuron projection guidance | 1 |
| cell motility | 1 |
| neuron development | 1 |
| plasma membrane bounded cell projection organization | 1 |
| positive regulation of cell growth | 1 |
| regulation of axon extension | 1 |
| positive regulation of developmental growth | 1 |
| axon extension | 1 |
| positive regulation of axonogenesis | 1 |
| cell junction organization | 1 |
| neuron projection development | 1 |
| cellular developmental process | 1 |
| transmembrane signaling receptor activity | 1 |
| axon guidance | 1 |
| protein binding | 1 |
| binding | 1 |
| membrane | 1 |
| cell periphery | 1 |
| cell-substrate junction | 1 |
| dendritic tree | 1 |
| external encapsulating structure | 1 |
| somatodendritic compartment | 1 |
| cell body | 1 |
| growth cone | 1 |
| site of polarized growth | 1 |
| distal axon | 1 |
Protein interactions and networks
STRING
2802 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| L1CAM | NRP1 | O14786 | 985 |
| L1CAM | ANK2 | Q01484 | 980 |
| L1CAM | ANK1 | P16157 | 953 |
| L1CAM | ANK3 | Q12955 | 946 |
| L1CAM | CD24 | P25063 | 849 |
| L1CAM | ITGB1 | P05556 | 819 |
| L1CAM | RENBP | P51606 | 814 |
| L1CAM | SHTN1 | A0MZ66 | 810 |
| L1CAM | NCAM1 | P13591 | 807 |
| L1CAM | ALCAM | Q13740 | 799 |
| L1CAM | SEMA3A | Q14563 | 780 |
| L1CAM | EZR | P15311 | 768 |
| L1CAM | TMEM187 | Q14656 | 757 |
| L1CAM | AVPR2 | P30518 | 745 |
| L1CAM | NAA10 | P41227 | 741 |
IntAct
56 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| C1QTNF9 | C1QTNF9B | psi-mi:“MI:0914”(association) | 0.780 |
| CD9 | ADAM10 | psi-mi:“MI:0914”(association) | 0.750 |
| CHL1 | L1CAM | psi-mi:“MI:0915”(physical association) | 0.680 |
| CHL1 | L1CAM | psi-mi:“MI:0407”(direct interaction) | 0.680 |
| L1CAM | psi-mi:“MI:0403”(colocalization) | 0.560 | |
| FBXO2 | TMEM131L | psi-mi:“MI:0914”(association) | 0.530 |
| NUFIP1 | PDE2A | psi-mi:“MI:0914”(association) | 0.530 |
| LGALS1 | LAMA5 | psi-mi:“MI:0914”(association) | 0.530 |
| GPIHBP1 | ADAM10 | psi-mi:“MI:0914”(association) | 0.530 |
| HSPA12B | EEF2K | psi-mi:“MI:0914”(association) | 0.530 |
| LGALS1 | PODXL | psi-mi:“MI:0914”(association) | 0.530 |
| TFRC | psi-mi:“MI:0915”(physical association) | 0.520 | |
| L1CAM | L1CAM | psi-mi:“MI:0407”(direct interaction) | 0.440 |
| L1CAM | aerA | psi-mi:“MI:0407”(direct interaction) | 0.440 |
| RAP1BL | psi-mi:“MI:0915”(physical association) | 0.400 | |
| Caskin1 | L1CAM | psi-mi:“MI:0915”(physical association) | 0.370 |
| PRNP | WDR91 | psi-mi:“MI:0914”(association) | 0.350 |
| APBB1 | SSPOP | psi-mi:“MI:0914”(association) | 0.350 |
| VPS37C | psi-mi:“MI:0914”(association) | 0.350 | |
| MAPT | SHTN1 | psi-mi:“MI:0914”(association) | 0.350 |
| Npc1 | ESYT2 | psi-mi:“MI:0914”(association) | 0.350 |
| ANK2 | IGKV2-40 | psi-mi:“MI:0914”(association) | 0.350 |
| DYRK1A | TEX13D | psi-mi:“MI:0914”(association) | 0.350 |
| ITM2B | ILVBL | psi-mi:“MI:0914”(association) | 0.350 |
| CACNA1C | IGLL5 | psi-mi:“MI:0914”(association) | 0.350 |
BioGRID (79): L1CAM (Affinity Capture-MS), L1CAM (Affinity Capture-MS), L1CAM (Affinity Capture-MS), L1CAM (Affinity Capture-MS), L1CAM (Affinity Capture-MS), Ank3 (Co-localization), EGFR (Affinity Capture-Western), ERBB2 (Affinity Capture-Western), ERBB3 (Affinity Capture-Western), ERBB3 (Co-localization), FGFR1 (Co-localization), FGFR1 (Reconstituted Complex), L1CAM (Affinity Capture-MS), L1CAM (Affinity Capture-MS), L1CAM (Affinity Capture-MS)
ESM2 similar proteins: A1A5Y0, A1KZ92, A2AJ76, B0S5N4, D3YXG0, D3ZPX4, F1MMS9, O00187, O55005, O60500, O75093, O88279, O88280, P11627, P17852, P26006, P32004, P51805, P57110, P59511, P70208, P85171, Q05695, Q0PMG2, Q13219, Q3UH53, Q4KMG0, Q62470, Q62918, Q7Z5N4, Q80TR4, Q8AV58, Q8AXZ4, Q8CIY2, Q8HZK2, Q8HZK3, Q8NDA2, Q8R4K8, Q8TE57, Q91WP0
Diamond homologs: A0N0X6, A2AJ76, A2CG49, A4IGL7, A4IIW9, B3NS99, B4GBH0, B4HNW4, B4KPU0, B4MR28, B4P5Q9, B4QC63, G5EBF1, O75325, O95428, P0C6S8, P11627, P12960, P22063, P28685, P32004, P97924, Q02246, Q07409, Q09024, Q12860, Q290N5, Q32Q07, Q3UQ28, Q3URE9, Q3V1M1, Q5R482, Q61330, Q61809, Q62682, Q62845, Q63198, Q66HV9, Q69Z26, Q6AWJ9
SIGNOR signaling
6 interactions.
| A | Effect | B | Mechanism |
|---|---|---|---|
| NME1 | “down-regulates quantity by repression” | L1CAM | “transcriptional regulation” |
| PRKCA | “down-regulates activity” | L1CAM | phosphorylation |
| RPS6KA1 | “up-regulates activity” | L1CAM | phosphorylation |
| RPS6KA2 | “up-regulates activity” | L1CAM | phosphorylation |
| CSNK2A1 | unknown | L1CAM | phosphorylation |
| RPS6K | “up-regulates activity” | L1CAM | phosphorylation |
Enriched among interaction partners
Reactome pathways and GO biological processes over-represented among this gene’s 70 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 |
|---|---|---|---|
| Axon guidance | 8 | 7.7× | 2e-03 |
| Nervous system development | 8 | 7.3× | 2e-03 |
Disease & clinical
Clinical variants and AI predictions
ClinVar
1545 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 126 |
| Likely pathogenic | 71 |
| Uncertain significance | 342 |
| Likely benign | 546 |
| Benign | 194 |
Top pathogenic / likely-pathogenic (30)
| Variant ID | HGVS | Classification |
|---|---|---|
| 10000 | NM_001278116.2(L1CAM):c.2974C>T (p.Gln992Ter) | Pathogenic |
| 1072630 | NM_001278116.2(L1CAM):c.2654T>A (p.Leu885Ter) | Pathogenic |
| 1074836 | NM_001278116.2(L1CAM):c.2822C>T (p.Pro941Leu) | Pathogenic |
| 1074837 | NM_001278116.2(L1CAM):c.2701C>T (p.Arg901Ter) | Pathogenic |
| 1075508 | NC_000023.10:g.(?153129318)(153131294_?)del | Pathogenic |
| 1195984 | NM_001278116.2(L1CAM):c.2872+1G>C | Pathogenic |
| 1204898 | NM_001278116.2(L1CAM):c.1828+1G>A | Pathogenic |
| 1339568 | NM_001278116.2(L1CAM):c.2920G>T (p.Glu974Ter) | Pathogenic |
| 1343116 | NM_001278116.2(L1CAM):c.3234G>A (p.Trp1078Ter) | Pathogenic |
| 1344539 | NM_001278116.2(L1CAM):c.3046+1G>A | Pathogenic |
| 1359228 | NM_001278116.2(L1CAM):c.2813G>A (p.Trp938Ter) | Pathogenic |
| 1359293 | NM_001278116.2(L1CAM):c.616del (p.Asp206fs) | Pathogenic |
| 1379028 | NM_001278116.2(L1CAM):c.791G>T (p.Cys264Phe) | Pathogenic |
| 1429299 | NM_001278116.2(L1CAM):c.644_648dup (p.Arg217fs) | Pathogenic |
| 1676774 | NM_001278116.2(L1CAM):c.2296C>T (p.Gln766Ter) | Pathogenic |
| 1805138 | NM_001278116.2(L1CAM):c.1703+5G>A | Pathogenic |
| 2022036 | NM_001278116.2(L1CAM):c.1603del (p.Arg534_Val535insTer) | Pathogenic |
| 2032334 | NM_001278116.2(L1CAM):c.3368del (p.Phe1123fs) | Pathogenic |
| 211339 | NM_001278116.2(L1CAM):c.2278C>T (p.Arg760Ter) | Pathogenic |
| 211340 | NM_001278116.2(L1CAM):c.2351A>G (p.Tyr784Cys) | Pathogenic |
| 2138775 | NM_001278116.2(L1CAM):c.3453_3456del (p.Lys1150_Tyr1151insTer) | Pathogenic |
| 2138776 | NM_001278116.2(L1CAM):c.2539G>T (p.Gly847Ter) | Pathogenic |
| 2138778 | NM_001278116.2(L1CAM):c.550C>T (p.Arg184Trp) | Pathogenic |
| 2138779 | NM_001278116.2(L1CAM):c.78T>A (p.Tyr26Ter) | Pathogenic |
| 216069 | NM_001278116.2(L1CAM):c.1939A>T (p.Lys647Ter) | Pathogenic |
| 2231064 | NM_001278116.2(L1CAM):c.3214C>T (p.Gln1072Ter) | Pathogenic |
| 235709 | NM_001278116.2(L1CAM):c.992-2A>G | Pathogenic |
| 2423048 | NC_000023.10:g.(?153135069)(153135421_?)del | Pathogenic |
| 253610 | GRCh37/hg19 Xq28(chrX:153126942-153141972)x0 | Pathogenic |
| 253651 | GRCh37/hg19 Xq28(chrX:153126942-153141190)x0 | Pathogenic |
SpliceAI
4723 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| X:153862890:TGTCA:T | acceptor_gain | 1.0000 |
| X:153862891:GTCA:G | acceptor_gain | 1.0000 |
| X:153862892:TCA:T | acceptor_gain | 1.0000 |
| X:153862893:CA:C | acceptor_gain | 1.0000 |
| X:153862893:CAC:C | acceptor_gain | 1.0000 |
| X:153862894:AC:A | acceptor_loss | 1.0000 |
| X:153862895:C:CC | acceptor_gain | 1.0000 |
| X:153862898:C:CT | acceptor_gain | 1.0000 |
| X:153863471:GCTCA:G | donor_loss | 1.0000 |
| X:153863472:CTCAC:C | donor_loss | 1.0000 |
| X:153863473:TCACC:T | donor_loss | 1.0000 |
| X:153863475:ACC:A | donor_loss | 1.0000 |
| X:153863476:C:G | donor_loss | 1.0000 |
| X:153863545:CTTCA:C | acceptor_gain | 1.0000 |
| X:153863547:TCA:T | acceptor_gain | 1.0000 |
| X:153863548:CA:C | acceptor_gain | 1.0000 |
| X:153863548:CAC:C | acceptor_gain | 1.0000 |
| X:153863550:C:CA | acceptor_loss | 1.0000 |
| X:153863550:C:CC | acceptor_gain | 1.0000 |
| X:153864316:CCTCA:C | donor_loss | 1.0000 |
| X:153864317:CTCA:C | donor_loss | 1.0000 |
| X:153864318:TCA:T | donor_loss | 1.0000 |
| X:153864319:CACC:C | donor_loss | 1.0000 |
| X:153864320:A:AC | donor_gain | 1.0000 |
| X:153864321:C:CC | donor_gain | 1.0000 |
| X:153864446:C:CC | acceptor_gain | 1.0000 |
| X:153864473:CTCTT:C | acceptor_gain | 1.0000 |
| X:153864475:CTT:C | acceptor_gain | 1.0000 |
| X:153864476:TT:T | acceptor_gain | 1.0000 |
| X:153864478:C:CC | acceptor_gain | 1.0000 |
AlphaMissense
8275 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| X:153867414:G:C | N693K | 1.000 |
| X:153867414:G:T | N693K | 1.000 |
| X:153868099:A:G | L576P | 1.000 |
| X:153868346:C:A | W553C | 1.000 |
| X:153868346:C:G | W553C | 1.000 |
| X:153868348:A:G | W553R | 1.000 |
| X:153868348:A:T | W553R | 1.000 |
| X:153868727:C:A | W460C | 1.000 |
| X:153868727:C:G | W460C | 1.000 |
| X:153868842:A:G | W460R | 1.000 |
| X:153868842:A:T | W460R | 1.000 |
| X:153869563:G:C | N408K | 1.000 |
| X:153869563:G:T | N408K | 1.000 |
| X:153870219:C:A | W276C | 1.000 |
| X:153870219:C:G | W276C | 1.000 |
| X:153870221:A:G | W276R | 1.000 |
| X:153870221:A:T | W276R | 1.000 |
| X:153871067:C:A | W171C | 1.000 |
| X:153871067:C:G | W171C | 1.000 |
| X:153872345:C:A | W69C | 1.000 |
| X:153872345:C:G | W69C | 1.000 |
| X:153864895:A:G | F991S | 0.999 |
| X:153865146:C:A | W938C | 0.999 |
| X:153865146:C:G | W938C | 0.999 |
| X:153865148:A:G | W938R | 0.999 |
| X:153865148:A:T | W938R | 0.999 |
| X:153865351:G:C | N899K | 0.999 |
| X:153865351:G:T | N899K | 0.999 |
| X:153865752:C:A | W833C | 0.999 |
| X:153865752:C:G | W833C | 0.999 |
dbSNP variants (sampled 300 via entrez): RS1000379362 (X:153884867 G>A), RS1000422182 (X:153863804 C>G,T), RS1000535072 (X:153872511 T>G), RS1000687679 (X:153879894 A>T), RS1000826647 (X:153879690 C>T), RS1001292662 (X:153887650 C>A,T), RS1001354410 (X:153876197 T>C), RS1001663543 (X:153883384 G>A), RS1002303138 (X:153870574 C>A), RS1002969589 (X:153866525 G>T), RS1003036135 (X:153874387 A>G), RS1003192942 (X:153882162 G>A,T), RS1003246109 (X:153866854 G>T), RS1003736481 (X:153881838 C>A), RS1003886386 (X:153882202 G>T)
Disease associations
OMIM: gene MIM:308840 | disease phenotypes: MIM:213000, MIM:303350, MIM:304100, MIM:307000, MIM:618138, MIM:300673, MIM:142623
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| L1 syndrome | Definitive | X-linked |
| X-linked hydrocephalus with stenosis of the aqueduct of Sylvius | Definitive | X-linked |
| MASA syndrome | Strong | X-linked |
| X-linked complicated corpus callosum dysgenesis | Strong | X-linked |
| X-linked complicated spastic paraplegia type 1 | Supportive | X-linked |
ClinGen Gene-Disease Validity (1)
Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.
| Disease | Classification | Inheritance |
|---|---|---|
| L1 syndrome | Definitive | XL |
Mondo (15): isolated cerebellar hypoplasia/agenesis (MONDO:0008939), MASA syndrome (MONDO:0010559), X-linked complicated corpus callosum dysgenesis (MONDO:0010569), X-linked hydrocephalus with stenosis of the aqueduct of Sylvius (MONDO:0010611), L1 syndrome (MONDO:0017140), hereditary spastic paraplegia (MONDO:0019064), cerebellar ataxia (MONDO:0000437), peripheral neuropathy (MONDO:0005244), muscular dystrophy, limb-girdle, autosomal recessive 23 (MONDO:0029136), intellectual disability (MONDO:0001071), severe neonatal-onset encephalopathy with microcephaly (MONDO:0010397), Hirschsprung disease (MONDO:0018309), hereditary ataxia (MONDO:0100309), hydrops fetalis (MONDO:0015193), X-linked complicated spastic paraplegia type 1 (MONDO:0017630)
Orphanet (14): Isolated cerebellar agenesis (Orphanet:1398), X-linked complicated corpus callosum dysgenesis (Orphanet:1497), Hydrocephalus with stenosis of the aqueduct of Sylvius (Orphanet:2182), Cerebellar hypoplasia-tapetoretinal degeneration syndrome (Orphanet:2246), MASA syndrome (Orphanet:2466), L1 syndrome (Orphanet:275543), Hereditary spastic paraplegia (Orphanet:685), Rare ataxia (Orphanet:102002), Laminin subunit alpha 2-related limb-girdle muscular dystrophy R23 (Orphanet:565837), MECP2-related severe neonatal encephalopathy (Orphanet:209370), Hirschsprung disease (Orphanet:388), Hereditary ataxia (Orphanet:183518), Hydrops fetalis (Orphanet:1041), NON RARE IN EUROPE: Unexplained intellectual disability (Orphanet:319658)
HPO phenotypes
57 total (30 of 57 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000218 | High palate |
| HP:0000238 | Hydrocephalus |
| HP:0000252 | Microcephaly |
| HP:0000256 | Macrocephaly |
| HP:0000280 | Coarse facial features |
| HP:0000486 | Strabismus |
| HP:0000639 | Nystagmus |
| HP:0000750 | Delayed speech and language development |
| HP:0001181 | Adducted thumb |
| HP:0001188 | Hand clenching |
| HP:0001249 | Intellectual disability |
| HP:0001250 | Seizure |
| HP:0001251 | Ataxia |
| HP:0001256 | Mild intellectual disability |
| HP:0001257 | Spasticity |
| HP:0001258 | Spastic paraplegia |
| HP:0001263 | Global developmental delay |
| HP:0001268 | Mental deterioration |
| HP:0001274 | Agenesis of corpus callosum |
| HP:0001288 | Gait disturbance |
| HP:0001321 | Cerebellar hypoplasia |
| HP:0001324 | Muscle weakness |
| HP:0001331 | Absent septum pellucidum |
| HP:0001338 | Partial agenesis of the corpus callosum |
| HP:0001347 | Hyperreflexia |
| HP:0001360 | Holoprosencephaly |
| HP:0001387 | Joint stiffness |
| HP:0001419 | X-linked recessive inheritance |
| HP:0001761 | Pes cavus |
| HP:0001762 | Talipes equinovarus |
GWAS associations
0 associations (top):
MeSH disease descriptors (10)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D002524 | Cerebellar Ataxia | C10.228.140.252.190; C10.597.350.090.500; C23.888.592.350.090.200 |
| D006627 | Hirschsprung Disease | C06.198.439; C06.405.469.158.701.439; C16.131.314.439 |
| D015160 | Hydrops Fetalis | C12.050.703.277.060.480; C15.378.295.480; C15.378.420.826.100.350; C16.300.060.480; C16.320.365.826.100.350; C20.306.480; C23.888.277.395 |
| D008607 | Intellectual Disability | C10.597.606.360; C23.888.592.604.646; F01.700.687; F03.625.539 |
| D015419 | Spastic Paraplegia, Hereditary | C10.500.300.820; C10.574.500.495.820; C10.668.829.800.300.820; C16.131.666.300.820; C16.320.400.375.820 |
| C562568 | Cerebellar Hypoplasia (supp.) | |
| C564115 | Corpus Callosum, Partial Agenesis of, X-Linked (supp.) | |
| C566878 | Encephalopathy, Neonatal Severe, Due To Mecp2 Mutations (supp.) | |
| C531684 | Hereditary spinal ataxia (supp.) | |
| C536078 | Hydrocephalus, X-linked (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: yes
ChEMBL targets (1): CHEMBL5169129 (SINGLE PROTEIN)
PharmGKB: 1 entry (VIP=true, CPIC=false)
ChEMBL bioactivities
3 potent at pChembl≥5 of 3 total, top 3 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).
| pChembl | Type | Value | Unit | Molecule |
|---|---|---|---|---|
| 7.58 | Kd | 26.18 | nM | CHEMBL5653589 |
| 7.39 | ED50 | 40.78 | nM | CHEMBL5653589 |
| 6.42 | IC50 | 380 | nM | CHEMBL5202323 |
PubChem BioAssay actives
2 with measured affinity, of 3 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-[(2-methyl-6-pyridin-3-ylpyrazolo[3,4-d]pyrimidin-4-yl)amino]-N-[3-(trifluoromethyl)phenyl]benzamide | 2148633: Binding affinity to human L1CAM incubated for 45 mins by Kinobead based pull down assay | kd | 0.0262 | uM |
| potassium N-[(2-hydroxybenzoyl)amino]carbamodithioate | 1847362: Inhibition of L1 (unknown origin) using cefazolin as substrate incubated for 5 mins by Agilent UV8453 spectrometric analysis | ic50 | 0.3800 | uM |
CTD chemical–gene interactions
91 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Valproic Acid | affects cotreatment, increases expression, affects expression, decreases expression | 9 |
| trichostatin A | affects cotreatment, increases expression | 4 |
| sodium arsenite | affects splicing, decreases expression, affects cotreatment, increases abundance | 4 |
| Estradiol | affects cotreatment, increases expression, decreases expression | 4 |
| Ethanol | affects binding, decreases activity, increases response to substance, decreases reaction | 3 |
| methylmercuric chloride | increases expression, affects cotreatment | 2 |
| entinostat | increases expression, affects cotreatment | 2 |
| Panobinostat | affects cotreatment, increases expression | 2 |
| Benzo(a)pyrene | affects methylation, increases methylation | 2 |
| Cadmium | increases abundance, increases expression | 2 |
| Cisplatin | affects cotreatment, decreases expression, affects response to substance | 2 |
| Smoke | decreases expression, decreases reaction | 2 |
| Cadmium Chloride | increases abundance, increases expression | 2 |
| aristolochic acid I | decreases expression | 1 |
| FR900359 | increases phosphorylation | 1 |
| propionaldehyde | increases expression | 1 |
| bisphenol A | decreases expression | 1 |
| beta-lapachone | increases expression | 1 |
| arsenite | increases expression | 1 |
| butyraldehyde | increases expression | 1 |
| manganese chloride | increases abundance, affects cotreatment, decreases expression | 1 |
| potassium chromate(VI) | increases expression | 1 |
| ferrous chloride | increases expression | 1 |
| 2,3-bis(3’-hydroxybenzyl)butyrolactone | affects cotreatment, decreases expression | 1 |
| aflatoxin B2 | increases methylation | 1 |
| diallyl trisulfide | decreases reaction, increases expression | 1 |
| pentanal | increases expression | 1 |
| altertoxin II | increases expression | 1 |
| perfluorooctane sulfonic acid | decreases expression | 1 |
| azoxystrobin | decreases expression | 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 |
|---|---|---|---|
| CHEMBL5098373 | Binding | Inhibition of L1 (unknown origin) using cefazolin as substrate incubated for 5 mins by Agilent UV8453 spectrometric analysis | Recent research and development of NDM-1 inhibitors. — Eur J Med Chem |
Cellosaurus cell lines
6 cell lines: 4 cancer cell line, 1 induced pluripotent stem cell, 1 spontaneously immortalized cell line
First 10 cell lines (id-ordered, not curated):
| Cellosaurus | Name | Category | Sex |
|---|---|---|---|
| CVCL_B1VE | Abcam HeLa L1CAM KO 1 | Cancer cell line | Female |
| CVCL_B1VF | Abcam HeLa L1CAM KO 2 | Cancer cell line | Female |
| CVCL_B5G6 | ZZUi033-A | Induced pluripotent stem cell | Male |
| CVCL_D1TD | Abcam U-87MG L1CAM KO | Cancer cell line | Male |
| CVCL_E6X4 | OV-MZ-2 Delta(2,27)L1CAM | Cancer cell line | Female |
| CVCL_X975 | CHO-hL1 | Spontaneously immortalized cell line | Female |
Clinical trials (associated diseases)
298 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT07542548 | PHASE4 | COMPLETED | D-Cycloserine for Serine Palmitoyltransferase Inhibition |
| NCT00950196 | PHASE4 | COMPLETED | Amantadine for Improving Neurologic Symptoms in Ataxia-Telangiectasia |
| NCT04107740 | PHASE4 | COMPLETED | C-Trelin Orally Disintegrated(OD) Tablet 5mg in Ataxia Due to Spinocerebellar Degeneration |
| NCT00380965 | PHASE4 | COMPLETED | Evaluation of the Efficacy of Cesamet™ for the Treatment of Pain in Patients With Chemotherapy-Induced Neuropathy |
| NCT00487981 | PHASE4 | TERMINATED | Spinal Cord Stimulation for Painful Diabetic Neuropathy |
| NCT00904202 | PHASE4 | COMPLETED | A Study Of Lidocaine Patch 5% Alone, Gabapentin Alone, And Lidocaine Patch 5% And Gabapentin In Combination For The Relief Of Pain In Patients With Diverse Peripheral Neuropathic Pain Conditions |
| NCT01192113 | PHASE4 | COMPLETED | Safety and Efficacy of Mecobalamin Injection in Peripheral Neuropathies Patients (Study JGAZSY091109) |
| NCT01373983 | PHASE4 | COMPLETED | Intrathecal Bolus Doses of Ziconotide |
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Related Atlas pages
- Associated diseases: L1 syndrome, MASA syndrome, X-linked complicated corpus callosum dysgenesis, X-linked hydrocephalus with stenosis of the aqueduct of Sylvius, X-linked complicated spastic paraplegia type 1
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): cerebellar ataxia, hereditary ataxia, Hirschsprung disease, hydrops fetalis, isolated cerebellar hypoplasia/agenesis, L1 syndrome, MASA syndrome, muscular dystrophy, limb-girdle, autosomal recessive 23, severe neonatal-onset encephalopathy with microcephaly, X-linked complicated corpus callosum dysgenesis, X-linked complicated spastic paraplegia type 1, X-linked hydrocephalus with stenosis of the aqueduct of Sylvius