mutLBSgeneDB |
Gene summary for PGAM5 |
Gene summary |
Basic gene Info. | Gene symbol | PGAM5 |
Gene name | phosphoglycerate mutase family member 5 | |
Synonyms | BXLBV68 | |
Cytomap | UCSC genome browser: 12q24.33 | |
Type of gene | protein-coding | |
RefGenes | NM_001170543.1, NM_001170544.1,NM_138575.3, | |
Description | Bcl-XL-binding protein v68serine/threonine-protein phosphatase PGAM5, mitochondrial | |
Modification date | 20141207 | |
dbXrefs | MIM : 614939 | |
HGNC : HGNC | ||
Ensembl : ENSG00000247077 | ||
HPRD : 14681 | ||
Vega : OTTHUMG00000168021 | ||
Protein | UniProt: Q96HS1 go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_PGAM5 | |
BioGPS: 192111 | ||
Pathway | NCI Pathway Interaction Database: PGAM5 | |
KEGG: PGAM5 | ||
REACTOME: PGAM5 | ||
Pathway Commons: PGAM5 | ||
Context | iHOP: PGAM5 | |
ligand binding site mutation search in PubMed: PGAM5 | ||
UCL Cancer Institute: PGAM5 | ||
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 PGAM5 |
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 |
LBS | AAchange of nsSNV | Cancer type | # samples | R152 | A153T | 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 PGAM5 |
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. |
LBS | AAchange of nsSNV | Relative stability change | R152 | A153T | -0.45357434 |
(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 PGAM5 from PDB |
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Differential gene expression and gene-gene network for PGAM5 |
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 PGAM5 |
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 PGAM5 |
Drug information targeting mutLBSgene (Approved drugs only) |
Drug status | DrugBank ID | Name | Type | Drug structure |
Gene-centered ligand-gene interaction network |
Ligands binding to mutated ligand binding site of PGAM5 go to BioLip |
Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | PO4 | PHOSPHATE ION | 3o0t | A | R152 | PO4 | PHOSPHATE ION | 3o0t | B | R152 |
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Conservation information for LBS of PGAM5 |
Multiple alignments for Q96HS1 in multiple species |
LBS | AA sequence | # species | Species |
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