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mutLBSgeneDB |
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| Gene summary for PDLIM5 |
 Gene summary |
| Basic gene Info. | Gene symbol | PDLIM5 |
| Gene name | PDZ and LIM domain 5 | |
| Synonyms | ENH|ENH1|LIM | |
| Cytomap | UCSC genome browser: 4q22 | |
| Type of gene | protein-coding | |
| RefGenes | NM_001011513.3, NM_001011515.2,NM_001011516.2,NM_001256425.1,NM_001256426.1, NM_001256427.1,NM_001256428.1,NM_001256429.1,NM_006457.4, NR_046186.1, | |
| Description | PDZ and LIM domain protein 5enigma homologenigma-like LIM domain proteinenigma-like PDZ and LIM domains protein | |
| Modification date | 20141207 | |
| dbXrefs | MIM : 605904 | |
| HGNC : HGNC | ||
| Ensembl : ENSG00000163110 | ||
| HPRD : 05799 | ||
| Vega : OTTHUMG00000130973 | ||
| Protein | UniProt: Q96HC4 go to UniProt's Cross Reference DB Table | |
| Expression | CleanEX: HS_PDLIM5 | |
| BioGPS: 10611 | ||
| Pathway | NCI Pathway Interaction Database: PDLIM5 | |
| KEGG: PDLIM5 | ||
| REACTOME: PDLIM5 | ||
| Pathway Commons: PDLIM5 | ||
| Context | iHOP: PDLIM5 | |
| ligand binding site mutation search in PubMed: PDLIM5 | ||
| UCL Cancer Institute: PDLIM5 | ||
| Assigned class in mutLBSgeneDB | C: This gene just belongs to mutLBSgenes. | |
| Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
| GO ID | GO Term | PubMed ID |
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| Ligand binding site mutations for PDLIM5 |
| Cancer type specific mutLBS sorted by frequency |
| LBS | AAchange of nsSNV | Cancer type | # samples | C446 | A447T | COAD | 1 | C449 | C449Y | GBM | 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 PDLIM5 |
| 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 | C446 | A447T | -1.2341321 | C449 | C449Y | -0.79495561 |
| (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 PDLIM5 from PDB |
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| Differential gene expression and gene-gene network for PDLIM5 |
| 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 PDLIM5 |
| Gene level disease information (DisGeNet) |
| Disease ID | Disease name | # PubMed | Association type |
| umls:C0151744 | Myocardial Ischemia | 1 | Biomarker |
| Mutation level pathogenic information (ClinVar annotation) |
| Allele ID | AA change | Clinical significance | Origin | Phenotype IDs |
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| Pharmacological information for PDLIM5 |
| 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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| Drug information targeting mutLBSgene (Approved drugs only) |
| Drug status | DrugBank ID | Name | Type | Drug structure |
| Gene-centered ligand-gene interaction network |
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| Ligands binding to mutated ligand binding site of PDLIM5 go to BioLip |
| Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS |
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| Conservation information for LBS of PDLIM5 |
| Multiple alignments for Q96HC4 in multiple species |
| LBS | AA sequence | # species | Species | C420 | KRTPMCAHCNQ | 3 | Homo sapiens, Mus musculus, Rattus norvegicus | C423 | PMCAHCNQVIR | 2 | Homo sapiens, Mus musculus | C423 | PMCAHCNQAIR | 1 | Rattus norvegicus | C446 | PEEFNCAHCKN | 3 | Homo sapiens, Mus musculus, Rattus norvegicus | C449 | FNCAHCKNTMA | 3 | Homo sapiens, Mus musculus, Rattus norvegicus | C467 | KGALYCELCYE | 3 | Homo sapiens, Mus musculus, Rattus norvegicus | C470 | LYCELCYEKFF | 3 | Homo sapiens, Mus musculus, Rattus norvegicus | E443 | SWHPEEFNCAH | 3 | Homo sapiens, Mus musculus, Rattus norvegicus | H440 | LGKSWHPEEFN | 3 | Homo sapiens, Mus musculus, Rattus norvegicus |
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