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 CCL13
Gene summary
Basic gene Info.Gene symbolCCL13
Gene namechemokine (C-C motif) ligand 13
SynonymsCKb10|MCP-4|NCC-1|NCC1|SCYA13|SCYL1
CytomapUCSC genome browser: 17q11.2
Type of geneprotein-coding
RefGenesNM_005408.2,
DescriptionC-C motif chemokine 13CK-beta-10monocyte chemoattractant protein 4monocyte chemotactic protein 4new CC chemokine 1small inducible cytokine subfamily A (Cys-Cys), member 13small-inducible cytokine A13
Modification date20141207
dbXrefs MIM : 601391
HGNC : HGNC
Ensembl : ENSG00000181374
HPRD : 03230
Vega : OTTHUMG00000132890
ProteinUniProt: Q99616
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CCL13
BioGPS: 6357
PathwayNCI Pathway Interaction Database: CCL13
KEGG: CCL13
REACTOME: CCL13
Pathway Commons: CCL13
ContextiHOP: CCL13
ligand binding site mutation search in PubMed: CCL13
UCL Cancer Institute: CCL13
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
GO:0007010cytoskeleton organization10072545
GO:0008360regulation of cell shape10072545
GO:0048245eosinophil chemotaxis10072545


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Ligand binding site mutations for CCL13
Lollipop-style diagram of mutations at LBS in amino-acid sequence.
We represented ligand binding site mutations only. (You can see big image via clicking.)
 
: non-synonymous mutation on LBS, Circle size denotes number of samples.

Cancer type specific mutLBS sorted by frequency
LBSAAchange of nsSNVCancer type# samples
T67T67NBRCA1
K68K68NGBM1
K71E72DLUAD1
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 CCL13
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
K68K68N-0.94516778
K71E72D-0.63957744
T67T67N-0.52822459
(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 CCL13 from PDB

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Differential gene expression and gene-gene network for CCL13
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 CCL13 and the right PPI network was created from samples without mutations in the LBS of CCL13. 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 CCL13
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 CCL13
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 CCL13 go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS


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Conservation information for LBS of CCL13
Multiple alignments for Q99616 in multiple species
LBSAA sequence# speciesSpecies
K68VIFRTKLGKEI1Homo sapiens
K68VVFVTKLKREV1Mus musculus
K68VVFVTKLKREI1Rattus norvegicus
K71RTKLGKEICAD1Homo sapiens
K71VTKLKREVCAD1Mus musculus
K71VTKLKREICAD1Rattus norvegicus
L69IFRTKLGKEIC1Homo sapiens
L69VFVTKLKREVC1Mus musculus
L69VFVTKLKREIC1Rattus norvegicus
R47KISLQRLKSYV1Homo sapiens
R47MIPMSRLESYK1Mus musculus
R47MIPMSRLENYK1Rattus norvegicus
T67AVVFVTKLKRE2Mus musculus, Rattus norvegicus
T67AVIFRTKLGKE1Homo sapiens


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