mutLBSgeneDB

mutLBSgeneDB
mutated Ligand Binding Site gene DataBase

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Gene Summary

Ligand Binding Site Mutation Information

Protein Structure Related Information

Gene Expression and Gene-Gene Network

Phenotype Information

Pharmacological Information

Conservation Information for LBS

Gene summary for CLEC4M
Gene summary
Basic gene Info.Gene symbolCLEC4M
Gene nameC-type lectin domain family 4, member M
SynonymsCD209L|CD299|DC-SIGN2|DC-SIGNR|DCSIGNR|HP10347|L-SIGN|LSIGN
CytomapUCSC genome browser: 19p13
Type of geneprotein-coding
RefGenesNM_001144904.1,
NM_001144905.1,NM_001144906.1,NM_001144907.1,NM_001144908.1,
NM_001144909.1,NM_001144910.1,NM_001144911.1,NM_014257.4,
NR_026707.1,NR_026708.1,NR_026709.1,NM_214675.1,
NM_214676.1,
DescriptionC-type lectin domain family 4 member MCD209 antigen-like protein 1CD299 antigenDC-SIGN-related proteindendritic cell-specific ICAM-3-grabbing non-integrin 2liver/lymph node-specific ICAM-3 grabbing non-integrinliver/lymph node-specific ICAM-3-grabbi
Modification date20141207
dbXrefs MIM : 605872
HGNC : HGNC
Ensembl : ENSG00000104938
HPRD : 12060
Vega : OTTHUMG00000182432
ProteinUniProt: Q9H2X3
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CLEC4M
BioGPS: 10332
PathwayNCI Pathway Interaction Database: CLEC4M
KEGG: CLEC4M
REACTOME: CLEC4M
Pathway Commons: CLEC4M
ContextiHOP: CLEC4M
ligand binding site mutation search in PubMed: CLEC4M
UCL Cancer Institute: CLEC4M
Assigned class in mutLBSgeneDBC: This gene just belongs to mutLBSgenes.

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO IDGO TermPubMed ID


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Ligand binding site mutations for CLEC4M

Cancer type specific mutLBS sorted by frequency
LBSAAchange of nsSNVCancer type# samples
E359E359DSKCM1
D256D256NUCEC1
D367A369VUCEC1
D332D332YUCEC1
cf) Cancer type abbreviation. BLCA: Bladder urothelial carcinoma, BRCA: Breast invasive carcinoma, CESC: Cervical squamous cell carcinoma and endocervical adenocarcinoma, COAD: Colon adenocarcinoma, GBM: Glioblastoma multiforme, LGG: Brain lower grade glioma, HNSC: Head and neck squamous cell carcinoma, KICH: Kidney chromophobe, KIRC: Kidney renal clear cell carcinoma, KIRP: Kidney renal papillary cell carcinoma, LAML: Acute myeloid leukemia, LUAD: Lung adenocarcinoma, LUSC: Lung squamous cell carcinoma, OV: Ovarian serous cystadenocarcinoma, PAAD: Pancreatic adenocarcinoma, PRAD: Prostate adenocarcinoma, SKCM: Skin cutaneous melanoma, STAD: Stomach adenocarcinoma, THCA: Thyroid carcinoma, UCEC: Uterine corpus endometrial carcinoma.


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Protein structure related information for CLEC4M
Relative protein structure stability change (ΔΔE) using Mupro 1.1
Mupro score denotes assessment of the effect of mutations on thermodynamic stability.
  (ΔΔE<0: mutation decreases stability, ΔΔE>0: mutation increases stability)
: nsSNV at non-LBS: nsSNV at LBS

nsSNVs sorted by the relative stability change of protein structure by each mutation
Blue: mutations of positive stability change. and red : the most recurrent mutation for this gene.
LBSAAchange of nsSNVRelative stability change
E359E359D-1.6213935
D256D256N-1.0923206
D367A369V-0.53195712
D332D332Y-0.14237677
(MuPro1.1: Jianlin Cheng et al., Prediction of Protein Stability Changes for Single-Site Mutations Using Support Vector Machines, PROTEINS: Structure, Function, and Bioinformatics. 2006, 62:1125-1132)

Structure image for CLEC4M from PDB

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Differential gene expression and gene-gene network for CLEC4M
Differential gene expression between mutated and non-mutated LBS samples in all 16 major cancer types

Differential co-expressed gene network based on protein-protein interaction data (CePIN)
* Left PPI network was created from samples with mutations in the LBS of CLEC4M and the right PPI network was created from samples without mutations in the LBS of CLEC4M. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.


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Phenotype information for CLEC4M
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type

Mutation level pathogenic information (ClinVar annotation)
Allele IDAA changeClinical significanceOriginPhenotype IDs

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Pharmacological information for CLEC4M
Gene expression profile of anticancer drug treated cell-lines (CCLE)
Heatmap showing the correlation between gene expression and drug response across all the cell-lines. We chose the top 20 among 138 drugs.We used Pearson's correlation coefficient.
Drug information targeting mutLBSgene (Approved drugs only)
Drug statusDrugBank IDNameTypeDrug structure

Gene-centered ligand-gene interaction network

Ligands binding to mutated ligand binding site of CLEC4M go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS
CACALCIUM(2+)1sl6AD256
CACALCIUM(2+)1sl6BD256
CACALCIUM(2+)1sl6CD256
CACALCIUM(2+)1sl6DD256
CACALCIUM(2+)1k9jAD332 D367
CACALCIUM(2+)1sl6AD332 D367
CACALCIUM(2+)1sl6BD332 D367
CACALCIUM(2+)1sl6CD332 D367
CACALCIUM(2+)1sl6DD332 D367
CACALCIUM(2+)1sl6ED332 D367
CACALCIUM(2+)1sl6FD332 D367
CACALCIUM(2+)1k9jAD367
CACALCIUM(2+)1sl6AD367
CACALCIUM(2+)1sl6BD367
CACALCIUM(2+)1sl6CD367
CACALCIUM(2+)1sl6DD367
CACALCIUM(2+)1sl6ED367
CACALCIUM(2+)1sl6FD367
MANALPHA-D-MANNOSE1k9jAE359
CACALCIUM(2+)1k9jAE359
FUCALPHA-L-FUCOPYRANOSE1sl6AE359
CACALCIUM(2+)1sl6AE359
FUCALPHA-L-FUCOPYRANOSE1sl6BE359
CACALCIUM(2+)1sl6BE359
FUCALPHA-L-FUCOPYRANOSE1sl6CE359
CACALCIUM(2+)1sl6CE359
FUCALPHA-L-FUCOPYRANOSE1sl6DE359
CACALCIUM(2+)1sl6DE359
FUCALPHA-L-FUCOPYRANOSE1sl6EE359
CACALCIUM(2+)1sl6EE359
FUCALPHA-L-FUCOPYRANOSE1sl6FE359
CACALCIUM(2+)1sl6FE359
CACALCIUM(2+)1xphAE359


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Conservation information for LBS of CLEC4M
Multiple alignments for Q9H2X3 in multiple species
LBSAA sequence# speciesSpecies


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