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mutLBSgeneDB |
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| Gene summary for LIMK1 |
 Gene summary |
| Basic gene Info. | Gene symbol | LIMK1 |
| Gene name | LIM domain kinase 1 | |
| Synonyms | LIMK|LIMK-1 | |
| Cytomap | UCSC genome browser: 7q11.23 | |
| Type of gene | protein-coding | |
| RefGenes | NM_001204426.1, NM_002314.3,NM_016735.1, | |
| Description | LIM motif-containing protein kinase | |
| Modification date | 20141222 | |
| dbXrefs | MIM : 601329 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000106683 | ||
| HPRD : 03210 | ||
| Vega : OTTHUMG00000023448 | ||
| Protein | UniProt: P53667 go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_LIMK1 | |
| BioGPS: 3984 | ||
| Pathway | NCI Pathway Interaction Database: LIMK1 | |
| KEGG: LIMK1 | ||
| REACTOME: LIMK1 | ||
| Pathway Commons: LIMK1 | ||
| Context | iHOP: LIMK1 | |
| ligand binding site mutation search in PubMed: LIMK1 | ||
| UCL Cancer Institute: LIMK1 | ||
| Assigned class in mutLBSgeneDB | B: This gene belongs to targetable_mutLBSgenes. | |
| Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
| GO ID | GO Term | PubMed ID | GO:0006468 | protein phosphorylation | 17512523 | GO:0032233 | positive regulation of actin filament bundle assembly | 17512523 | GO:0051444 | negative regulation of ubiquitin-protein transferase activity | 17512523 |
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| 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. |
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| Cancer type specific mutLBS sorted by frequency |
| LBS | AAchange of nsSNV | Cancer type | # samples | K368 | K368T | COAD | 1 | H464 | S463F | SKCM | 1 | L397 | V396M | UCEC | 1 |
| 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 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 |
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| 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. |
| LBS | AAchange of nsSNV | Relative stability change | L397 | V396M | -1.1372169 | H464 | S463F | -0.61929047 | K368 | K368T | -0.093787971 |
| (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 |
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| 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) |
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| Phenotype information for LIMK1 |
| Gene level disease information (DisGeNet) |
| Disease ID | Disease name | # PubMed | Association type |
| Mutation level pathogenic information (ClinVar annotation) |
| Allele ID | AA change | Clinical significance | Origin | Phenotype IDs |
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| 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. |
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| Gene-centered drug-gene interaction network |
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| Drug information targeting mutLBSgene (Approved drugs only) |
| Drug status | DrugBank ID | Name | Type | Drug structure |
| Approved | DB08912 | Dabrafenib | Small molecule |  |
| Gene-centered ligand-gene interaction network |
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| Ligands binding to mutated ligand binding site of LIMK1 go to BioLip |
| Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | STU | STAUROSPORINE | 3s95 | A | K368 L397 H464 | STU | STAUROSPORINE | 3s95 | B | K368 L397 H464 |
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| Conservation information for LBS of LIMK1 |
| Multiple alignments for P53667 in multiple species |
| LBS | AA sequence | # species | Species | A353 | GCFGQAIKVTH | 3 | Homo sapiens, Gallus gallus, Mus musculus | A353 | GFFGKVFKVTH | 1 | Drosophila melanogaster | E384 | RTFLKEVKVMR | 3 | Homo sapiens, Gallus gallus, Mus musculus | E384 | RNFIKEVAVLR | 1 | Drosophila melanogaster | E414 | LNFITEYIKGG | 3 | Homo sapiens, Gallus gallus, Mus musculus | E414 | LHMVTEYVAGG | 1 | Drosophila melanogaster | G346 | HGEVLGKGCFG | 3 | Homo sapiens, Gallus gallus, Mus musculus | G346 | IGEKLGEGFFG | 1 | Drosophila melanogaster | G419 | EYIKGGTLRGI | 2 | Homo sapiens, Mus musculus | G419 | EYVAGGCLKEL | 1 | Drosophila melanogaster | G419 | EYIKGGTLRGL | 1 | Gallus gallus | H464 | RDLNSHNCLVR | 3 | Homo sapiens, Gallus gallus, Mus musculus | H464 | RDLNSMNCLVR | 1 | Drosophila melanogaster | I416 | FITEYIKGGTL | 3 | Homo sapiens, Gallus gallus, Mus musculus | I416 | MVTEYVAGGCL | 1 | Drosophila melanogaster | K368 | EVMVMKELIRF | 3 | Homo sapiens, Gallus gallus, Mus musculus | K368 | EVMVLKELHRA | 1 | Drosophila melanogaster | L345 | IHGEVLGKGCF | 3 | Homo sapiens, Gallus gallus, Mus musculus | L345 | VIGEKLGEGFF | 1 | Drosophila melanogaster | L397 | EHPNVLKFIGV | 3 | Homo sapiens, Gallus gallus, Mus musculus | L397 | DHRHVLKFIGV | 1 | Drosophila melanogaster | L467 | NSHNCLVRENK | 2 | Homo sapiens, Gallus gallus | L467 | NSMNCLVREDR | 1 | Drosophila melanogaster | L467 | NSHNCLVRENR | 1 | Mus musculus | N465 | DLNSHNCLVRE | 3 | Homo sapiens, Gallus gallus, Mus musculus | N465 | DLNSMNCLVRE | 1 | Drosophila melanogaster | T413 | RLNFITEYIKG | 3 | Homo sapiens, Gallus gallus, Mus musculus | T413 | KLHMVTEYVAG | 1 | Drosophila melanogaster | T420 | YIKGGTLRGII | 2 | Homo sapiens, Mus musculus | T420 | YVAGGCLKELI | 1 | Drosophila melanogaster | T420 | YIKGGTLRGLI | 1 | Gallus gallus | V366 | TGEVMVMKELI | 3 | Homo sapiens, Gallus gallus, Mus musculus | V366 | SGEVMVLKELH | 1 | Drosophila melanogaster | Y415 | NFITEYIKGGT | 3 | Homo sapiens, Gallus gallus, Mus musculus | Y415 | HMVTEYVAGGC | 1 | Drosophila melanogaster |
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