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 PCGF5
Gene summary
Basic gene Info.Gene symbolPCGF5
Gene namepolycomb group ring finger 5
CytomapUCSC genome browser: 10q23.32
Type of geneprotein-coding
DescriptionRING finger protein 159polycomb group RING finger protein 5ring finger protein (C3HC4 type) 159
Modification date20141207
dbXrefs HGNC : HGNC
Ensembl : ENSG00000180628
HPRD : 17825
Vega : OTTHUMG00000018740
ProteinUniProt: Q86SE9
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PCGF5
BioGPS: 84333
PathwayNCI Pathway Interaction Database: PCGF5
Pathway Commons: PCGF5
ContextiHOP: PCGF5
ligand binding site mutation search in PubMed: PCGF5
UCL Cancer Institute: PCGF5
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 PCGF5
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 PCGF5
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 PCGF5 from PDB

Differential gene expression and gene-gene network for PCGF5
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 PCGF5 and the right PPI network was created from samples without mutations in the LBS of PCGF5. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.


Phenotype information for PCGF5
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type

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

Pharmacological information for PCGF5
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 PCGF5 go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS
ZNZINC(2+)4s3oCC34 C53
ZNZINC(2+)4s3oFC34 C53

Conservation information for LBS of PCGF5
Multiple alignments for Q86SE9 in multiple species
LBSAA sequence# speciesSpecies
C18NPYITCYICKG3Homo sapiens, Mus musculus, Bos taurus
C18NRYITCSICRG1Danio rerio
C18NHFITCFVCKG1Danio rerio
C21ITCYICKGYLI3Homo sapiens, Mus musculus, Bos taurus
C21ITCSICRGYLI1Danio rerio
C21ITCFVCKGYLI1Danio rerio
C34TTVTECLHTFC4Homo sapiens, Mus musculus, Bos taurus, Danio rerio
C34TAVTECLHTFC1Danio rerio
C39CLHTFCKTCIV3Homo sapiens, Mus musculus, Bos taurus
C39CLHTFCKSCIV2Danio rerio, Danio rerio
C42TFCKTCIVQHF3Homo sapiens, Mus musculus, Bos taurus
C42TFCKSCIVQHF2Danio rerio, Danio rerio
C53EDSNDCPRCGN3Homo sapiens, Mus musculus, Bos taurus
C53EESNECPECGI1Danio rerio
C53EDSNDCPKCGI1Danio rerio
C56NDCPRCGNQVH3Homo sapiens, Mus musculus, Bos taurus
C56NECPECGIQVH1Danio rerio
C56NDCPKCGIQVH1Danio rerio
H36VTECLHTFCKT3Homo sapiens, Mus musculus, Bos taurus
H36VTECLHTFCKS2Danio rerio, Danio rerio

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