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 TRIM54
Gene summary
Basic gene Info.Gene symbolTRIM54
Gene nametripartite motif containing 54
CytomapUCSC genome browser: 2p23.3
Type of geneprotein-coding
Descriptionmuscle-specific RING finger protein 3muscle-specific RING-finger protein 3ring finger protein 30tripartite motif-containing 54tripartite motif-containing protein 54
Modification date20141207
dbXrefs MIM : 606474
Ensembl : ENSG00000138100
HPRD : 05928
Vega : OTTHUMG00000097078
ProteinUniProt: Q9BYV2
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_TRIM54
BioGPS: 57159
PathwayNCI Pathway Interaction Database: TRIM54
Pathway Commons: TRIM54
ContextiHOP: TRIM54
ligand binding site mutation search in PubMed: TRIM54
UCL Cancer Institute: TRIM54
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 TRIM54

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 TRIM54
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 TRIM54 from PDB

Differential gene expression and gene-gene network for TRIM54
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 TRIM54 and the right PPI network was created from samples without mutations in the LBS of TRIM54. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.


Phenotype information for TRIM54
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type

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

Pharmacological information for TRIM54
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 TRIM54 go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS

Conservation information for LBS of TRIM54
Multiple alignments for Q9BYV2 in multiple species
LBSAA sequence# speciesSpecies
C126EQHLMCEEHED3Mus musculus, Rattus norvegicus, Bos taurus
C126EQHLMCEEHEE1Homo sapiens
C138KINIYCLSCEV4Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus
C141IYCLSCEVPTC4Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus
C146CEVPTCSLCKV4Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus
C149PTCSLCKVFGA4Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus
C158GAHKDCEVAPL4Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus
H129LMCEEHEDEKI3Mus musculus, Rattus norvegicus, Bos taurus
H129LMCEEHEEEKI1Homo sapiens
H155KVFGAHKDCEV4Homo sapiens, Mus musculus, Rattus norvegicus, Bos taurus

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