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 PTGDS
Gene summary
Basic gene Info.Gene symbolPTGDS
Gene nameprostaglandin D2 synthase 21kDa (brain)
CytomapUCSC genome browser: 9q34.2-q34.3
Type of geneprotein-coding
DescriptionPGD2 synthasebeta-trace proteincerebrin-28glutathione-independent PGD synthaseglutathione-independent PGD synthetaselipocalin-type prostaglandin D synthaselipocalin-type prostaglandin-D synthaseprostaglandin D synthaseprostaglandin-D2 synthasepro
Modification date20141207
dbXrefs MIM : 176803
Ensembl : ENSG00000107317
HPRD : 08904
Vega : OTTHUMG00000020957
ProteinUniProt: P41222
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_PTGDS
BioGPS: 5730
PathwayNCI Pathway Interaction Database: PTGDS
Pathway Commons: PTGDS
ContextiHOP: PTGDS
ligand binding site mutation search in PubMed: PTGDS
UCL Cancer Institute: PTGDS
Assigned class in mutLBSgeneDBC: This gene just belongs to mutLBSgenes.

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO:0001516prostaglandin biosynthetic process20667974

Ligand binding site mutations for PTGDS
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 PTGDS
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 PTGDS from PDB

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


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

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

Pharmacological information for PTGDS
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.
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 PTGDS go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS
PWZ(5E)-7-{(1R,4S,5S,6R)-5-[(1E,3S)-3-HYDROXYOCT-1-EN-1- YL]-2-OXABICYCLO[2.2.1]HEPT-6-YL}HEPT-5-ENOIC ACID4imoAS67 W112
PWZ(5E)-7-{(1R,4S,5S,6R)-5-[(1E,3S)-3-HYDROXYOCT-1-EN-1- YL]-2-OXABICYCLO[2.2.1]HEPT-6-YL}HEPT-5-ENOIC ACID4imoAW112

Conservation information for LBS of PTGDS
Multiple alignments for P41222 in multiple species
LBSAA sequence# speciesSpecies
F143GPGQDFRMATL3Mus musculus, Rattus norvegicus, Bos taurus
F143GPGEDFRMATL1Homo sapiens
F143GLGQDFHMATL1Canis lupus familiaris
G140GTKGPGQDFRM2Mus musculus, Rattus norvegicus
G140GSKGPGEDFRM1Homo sapiens
G140GSKGLGQDFHM1Canis lupus familiaris
G140GVRGPGQDFRM1Bos taurus
P139QGSKGPGEDFR1Homo sapiens
P139RGTKGPGQDFR1Mus musculus
P139KGTKGPGQDFR1Rattus norvegicus
P139AGSKGLGQDFH1Canis lupus familiaris
P139EGVRGPGQDFR1Bos taurus
S109SYSYRSPHWGS1Homo sapiens
S109HYTYSSPHSGS1Mus musculus
S109QYTYNSPHWGS1Rattus norvegicus
S109CYSYTSPHWGS1Canis lupus familiaris
S109CYSYTSPHWSS1Bos taurus
S45LGRWYSAGLAS2Mus musculus, Rattus norvegicus
S45LGRWFTSGLAS2Canis lupus familiaris, Bos taurus
S45LGRWFSAGLAS1Homo sapiens
S67LSMCKSVVAPA2Homo sapiens, Bos taurus
S67LYMCKTVVAPS1Mus musculus
S67LFMCQTVVAPS1Rattus norvegicus
S67LSMCMSVVAPT1Canis lupus familiaris
S81GLNLTSTFLRK5Homo sapiens, Mus musculus, Rattus norvegicus, Canis lupus familiaris, Bos taurus
W112YRSPHWGSTYS1Homo sapiens
W112YSSPHSGSIHS1Mus musculus
W112YNSPHWGSFHS1Rattus norvegicus
W112YTSPHWGSTHD1Canis lupus familiaris
W112YTSPHWSSTHE1Bos taurus
W54ASNSSWFREKK3Mus musculus, Rattus norvegicus, Canis lupus familiaris
W54ASNSSWLREKK1Homo sapiens
Y107PGCYSYTSPHW2Canis lupus familiaris, Bos taurus
Y107LGSYSYRSPHW1Homo sapiens
Y107PGHYTYSSPHS1Mus musculus
Y107PGQYTYNSPHW1Rattus norvegicus
Y116HWGSTYSVSVV1Homo sapiens
Y116HSGSIHSVSVV1Mus musculus
Y116HWGSFHSLSVV1Rattus norvegicus
Y116HWGSTHDVWVV1Canis lupus familiaris
Y116HWSSTHEVSVA1Bos taurus
Y149RMATLYSRTQT2Homo sapiens, Mus musculus
Y149RMATLYSRAQL1Rattus norvegicus
Y149HMATLYSRTQT1Canis lupus familiaris
Y149RMATLYSRSQN1Bos taurus

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