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 LIMK1
Gene summary
Basic gene Info.Gene symbolLIMK1
Gene nameLIM domain kinase 1
CytomapUCSC genome browser: 7q11.23
Type of geneprotein-coding
DescriptionLIM motif-containing protein kinase
Modification date20141222
dbXrefs MIM : 601329
Ensembl : ENSG00000106683
HPRD : 03210
Vega : OTTHUMG00000023448
ProteinUniProt: P53667
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_LIMK1
BioGPS: 3984
PathwayNCI Pathway Interaction Database: LIMK1
Pathway Commons: LIMK1
ContextiHOP: LIMK1
ligand binding site mutation search in PubMed: LIMK1
UCL Cancer Institute: LIMK1
Assigned class in mutLBSgeneDBB: This gene belongs to targetable_mutLBSgenes.

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO:0006468protein phosphorylation17512523
GO:0032233positive regulation of actin filament bundle assembly17512523
GO:0051444negative regulation of ubiquitin-protein transferase activity17512523

Ligand binding site mutations for LIMK1
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 LIMK1
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 LIMK1 from PDB

Differential gene expression and gene-gene network for LIMK1
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 LIMK1 and the right PPI network was created from samples without mutations in the LBS of LIMK1. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.


Phenotype information for LIMK1
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type

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

Pharmacological information for LIMK1
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.

Gene-centered drug-gene interaction network
Drug information targeting mutLBSgene (Approved drugs only)
Drug statusDrugBank IDNameTypeDrug structure
ApprovedDB08912DabrafenibSmall molecule

Gene-centered ligand-gene interaction network

Ligands binding to mutated ligand binding site of LIMK1 go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS

Conservation information for LBS of LIMK1
Multiple alignments for P53667 in multiple species
LBSAA sequence# speciesSpecies
A353GCFGQAIKVTH3Homo sapiens, Gallus gallus, Mus musculus
A353GFFGKVFKVTH1Drosophila melanogaster
E384RTFLKEVKVMR3Homo sapiens, Gallus gallus, Mus musculus
E384RNFIKEVAVLR1Drosophila melanogaster
E414LNFITEYIKGG3Homo sapiens, Gallus gallus, Mus musculus
E414LHMVTEYVAGG1Drosophila melanogaster
G346HGEVLGKGCFG3Homo sapiens, Gallus gallus, Mus musculus
G346IGEKLGEGFFG1Drosophila melanogaster
G419EYIKGGTLRGI2Homo sapiens, Mus musculus
G419EYVAGGCLKEL1Drosophila melanogaster
G419EYIKGGTLRGL1Gallus gallus
H464RDLNSHNCLVR3Homo sapiens, Gallus gallus, Mus musculus
H464RDLNSMNCLVR1Drosophila melanogaster
I416FITEYIKGGTL3Homo sapiens, Gallus gallus, Mus musculus
I416MVTEYVAGGCL1Drosophila melanogaster
K368EVMVMKELIRF3Homo sapiens, Gallus gallus, Mus musculus
K368EVMVLKELHRA1Drosophila melanogaster
L345IHGEVLGKGCF3Homo sapiens, Gallus gallus, Mus musculus
L345VIGEKLGEGFF1Drosophila melanogaster
L397EHPNVLKFIGV3Homo sapiens, Gallus gallus, Mus musculus
L397DHRHVLKFIGV1Drosophila melanogaster
L467NSHNCLVRENK2Homo sapiens, Gallus gallus
L467NSMNCLVREDR1Drosophila melanogaster
L467NSHNCLVRENR1Mus musculus
N465DLNSHNCLVRE3Homo sapiens, Gallus gallus, Mus musculus
N465DLNSMNCLVRE1Drosophila melanogaster
T413RLNFITEYIKG3Homo sapiens, Gallus gallus, Mus musculus
T413KLHMVTEYVAG1Drosophila melanogaster
T420YIKGGTLRGII2Homo sapiens, Mus musculus
T420YVAGGCLKELI1Drosophila melanogaster
T420YIKGGTLRGLI1Gallus gallus
V366TGEVMVMKELI3Homo sapiens, Gallus gallus, Mus musculus
V366SGEVMVLKELH1Drosophila melanogaster
Y415NFITEYIKGGT3Homo sapiens, Gallus gallus, Mus musculus
Y415HMVTEYVAGGC1Drosophila melanogaster

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