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 LIMS2
Gene summary
Basic gene Info.Gene symbolLIMS2
Gene nameLIM and senescent cell antigen-like domains 2
CytomapUCSC genome browser: 2q14.3
Type of geneprotein-coding
DescriptionILK-binding proteinLIM and senescent cell antigen-like-containing domain protein 2LIM-like protein 2particularly interesting new Cys-His protein 2
Modification date20141207
dbXrefs MIM : 607908
Ensembl : ENSG00000072163
Vega : OTTHUMG00000131529
ProteinUniProt: Q7Z4I7
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_LIMS2
BioGPS: 55679
PathwayNCI Pathway Interaction Database: LIMS2
Pathway Commons: LIMS2
ContextiHOP: LIMS2
ligand binding site mutation search in PubMed: LIMS2
UCL Cancer Institute: LIMS2
Assigned class in mutLBSgeneDBC: This gene just belongs to mutLBSgenes.

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez

Ligand binding site mutations for LIMS2
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
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.

Protein structure related information for LIMS2
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
(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 LIMS2 from PDB

Differential gene expression and gene-gene network for LIMS2
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 LIMS2 and the right PPI network was created from samples without mutations in the LBS of LIMS2. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.


Phenotype information for LIMS2
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type

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

Pharmacological information for LIMS2
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 LIMS2 go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS

Conservation information for LBS of LIMS2
Multiple alignments for Q7Z4I7 in multiple species
LBSAA sequence# speciesSpecies
C15LANAVCQRCQA2Homo sapiens, Bos taurus
C15LADAMCQRCQA1Mus musculus
C18AVCQRCQARFS1Homo sapiens
C18AMCQRCQARFA1Mus musculus
C40LYHEHCFVCAQ3Homo sapiens, Mus musculus, Bos taurus
C43EHCFVCAQCFR3Homo sapiens, Mus musculus, Bos taurus
C46FVCAQCFRPFP3Homo sapiens, Mus musculus, Bos taurus
C64EGRKYCEHDFQ3Homo sapiens, Mus musculus, Bos taurus
D67KYCEHDFQMLF3Homo sapiens, Mus musculus, Bos taurus
H37NGELYHEHCFV3Homo sapiens, Mus musculus, Bos taurus

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