mutLBSgeneDB

mutLBSgeneDB
mutated Ligand Binding Site gene DataBase

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Bioinformatics and Systems Medicine Laboratory Bioinformatics and Systems Medicine Laboratory

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 MRPL13
Gene summary
Basic gene Info.Gene symbolMRPL13
Gene namemitochondrial ribosomal protein L13
SynonymsL13|L13A|L13mt|RPL13|RPML13
CytomapUCSC genome browser: 8q22.1-q22.3
Type of geneprotein-coding
RefGenesNM_014078.5,
Description39S ribosomal protein L13, mitochondrialMRP-L13
Modification date20141207
dbXrefs MIM : 610200
HGNC : HGNC
Ensembl : ENSG00000172172
HPRD : 14740
Vega : OTTHUMG00000165039
ProteinUniProt: Q9BYD1
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_MRPL13
BioGPS: 28998
PathwayNCI Pathway Interaction Database: MRPL13
KEGG: MRPL13
REACTOME: MRPL13
Pathway Commons: MRPL13
ContextiHOP: MRPL13
ligand binding site mutation search in PubMed: MRPL13
UCL Cancer Institute: MRPL13
Assigned class in mutLBSgeneDBC: This gene just belongs to mutLBSgenes.

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO IDGO TermPubMed ID


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Ligand binding site mutations for MRPL13

Cancer type specific mutLBS sorted by frequency
LBSAAchange of nsSNVCancer type# samples
S78S78FCOAD1
P27Q26RUCEC1
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 MRPL13
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
P27Q26R-0.57007598
S78S78F-0.52297809
(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 MRPL13 from PDB

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Differential gene expression and gene-gene network for MRPL13
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 MRPL13 and the right PPI network was created from samples without mutations in the LBS of MRPL13. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.


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Phenotype information for MRPL13
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type
umls:C1458155Breast Neoplasms1Biomarker
umls:C0007137Carcinoma, Squamous Cell1Biomarker
umls:C0242656Disease Progression1Biomarker
umls:C0026640Mouth Neoplasms1Biomarker
umls:C0038356Stomach Neoplasms1Biomarker

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

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Pharmacological information for MRPL13
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 MRPL13 go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS
NUCNucleic Acids3j7yKP27 S78


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Conservation information for LBS of MRPL13
Multiple alignments for Q9BYD1 in multiple species
LBSAA sequence# speciesSpecies
A107AIVKLAIYGML3Homo sapiens, Mus musculus, Bos taurus
A107MVMKKAVYNSM1Drosophila melanogaster
A107RIVEHAVRGML1Arabidopsis thaliana
A107EILKKAVSGML1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
A107DLLRRAVGGML1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
A49KPVYHQLSDCG2Mus musculus, Bos taurus
A49KPVYHALSDCG1Homo sapiens
A49KPIYHPMNDCG1Drosophila melanogaster
A49LASYTPSVDMG1Arabidopsis thaliana
A49KPVYHPSQDCG1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
A49KPIYHPAADCG1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
F87GYPGGFRQVTA2Homo sapiens, Mus musculus
F87GYPGG-ASWTL1Drosophila melanogaster
F87GYPGGFKQVTA1Bos taurus
F87GRPGGMTVETF1Arabidopsis thaliana
F87GRPGQLKLQTM1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
F87GQPGHLKEWTM1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
G110KLAIYGMLPKN3Homo sapiens, Mus musculus, Bos taurus
G110KKAVYNSMRGN1Drosophila melanogaster
G110EHAVRGMLPKG1Arabidopsis thaliana
G110KKAVSGMLPKN1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
G110RRAVGGMLPRN1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
G29KMQPPGKLAAM1Homo sapiens
G29TWQNPFESAKL1Drosophila melanogaster
G29KMQPPGKLAVI1Mus musculus
G29KMQPPGKLAAL1Bos taurus
G29TDKILGRLAST1Arabidopsis thaliana
G29DKRTLGRLASA1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
G29KNVPLGRLASQ1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
G85HTGYPGGFRQV2Homo sapiens, Mus musculus
G85HTGYPGG-ASW1Drosophila melanogaster
G85HTGYPGGFKQV1Bos taurus
G85HSGRPGGMTVE1Arabidopsis thaliana
G85HSGRPGQLKLQ1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
G85HSGQPGHLKEW1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
H117LPKNLHRRTMM2Homo sapiens, Mus musculus
H117MRGNLQRRHTM1Drosophila melanogaster
H117LPKNLHRRTLM1Bos taurus
H117LPKGRLGRALF1Arabidopsis thaliana
H117LPKNKLRKQRL1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
H117LPRNKLWDRRM1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
H80KVYSSHTGYPG3Homo sapiens, Mus musculus, Bos taurus
H80RVYFHHTGYPG1Drosophila melanogaster
H80KLYRRHSGRPG1Arabidopsis thaliana
H80KTYWSHSGRPG1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
H80HKYYSHSGQPG1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
K114YGMLPKNLHRR3Homo sapiens, Mus musculus, Bos taurus
K114YNSMRGNLQRR1Drosophila melanogaster
K114RGMLPKGRLGR1Arabidopsis thaliana
K114SGMLPKNKLRK1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
K114GGMLPRNKLWD1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
K30MQPPGKLAAMA1Homo sapiens
K30WQNPFESAKLV1Drosophila melanogaster
K30MQPPGKLAVIA1Mus musculus
K30MQPPGKLAALA1Bos taurus
K30DKILGRLASTI1Arabidopsis thaliana
K30KRTLGRLASAI1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
K30NVPLGRLASQI1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
K71AFSGNKWEQKV3Homo sapiens, Mus musculus, Bos taurus
K71ALPGDEWVKRV1Drosophila melanogaster
K71AVSGKKRNQKL1Arabidopsis thaliana
K71RVTGKKFEQKT1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
K71GISGRKLENHK1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
K75NKWEQKVYSSH3Homo sapiens, Mus musculus, Bos taurus
K75DEWVKRVYFHH1Drosophila melanogaster
K75KKRNQKLYRRH1Arabidopsis thaliana
K75KKFEQKTYWSH1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
K75RKLENHKYYSH1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
L116MLPKNLHRRTM2Homo sapiens, Mus musculus
L116SMRGNLQRRHT1Drosophila melanogaster
L116MLPKNLHRRTL1Bos taurus
L116MLPKGRLGRAL1Arabidopsis thaliana
L116MLPKNKLRKQR1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
L116MLPRNKLWDRR1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
L50PVYHQLSDCGD2Mus musculus, Bos taurus
L50PVYHALSDCGD1Homo sapiens
L50PIYHPMNDCGD1Drosophila melanogaster
L50ASYTPSVDMGA1Arabidopsis thaliana
L50PVYHPSQDCGD1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
L50PIYHPAADCGD1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
M111LAIYGMLPKNL3Homo sapiens, Mus musculus, Bos taurus
M111KAVYNSMRGNL1Drosophila melanogaster
M111HAVRGMLPKGR1Arabidopsis thaliana
M111KAVSGMLPKNK1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
M111RAVGGMLPRNK1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
N115GMLPKNLHRRT3Homo sapiens, Mus musculus, Bos taurus
N115NSMRGNLQRRH1Drosophila melanogaster
N115GMLPKGRLGRA1Arabidopsis thaliana
N115GMLPKNKLRKQ1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
N115GMLPRNKLWDR1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
P27--KMQPPGKLA3Homo sapiens, Mus musculus, Bos taurus
P27--TWQNPFESA1Drosophila melanogaster
P27--TDKILGRLA1Arabidopsis thaliana
P27ARDKRTLGRLA1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
P27--KNVPLGRLA1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
P28-KMQPPGKLAA2Homo sapiens, Bos taurus
P28-TWQNPFESAK1Drosophila melanogaster
P28-KMQPPGKLAV1Mus musculus
P28-TDKILGRLAS1Arabidopsis thaliana
P28RDKRTLGRLAS1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
P28-KNVPLGRLAS1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
P84SHTGYPGGFRQ2Homo sapiens, Mus musculus
P84HHTGYPGG-AS1Drosophila melanogaster
P84SHTGYPGGFKQ1Bos taurus
P84RHSGRPGGMTV1Arabidopsis thaliana
P84SHSGRPGQLKL1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
P84SHSGQPGHLKE1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
R118PKNLHRRTMME1Homo sapiens
R118RGNLQRRHTMQ1Drosophila melanogaster
R118PKNLHRRTMMQ1Mus musculus
R118PKNLHRRTLMQ1Bos taurus
R118PKGRLGRALFN1Arabidopsis thaliana
R118PKNKLRKQRLD1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
R118PRNKLWDRRMK1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
R119KNLHRRTMMER1Homo sapiens
R119GNLQRRHTMQR1Drosophila melanogaster
R119KNLHRRTMMQR1Mus musculus
R119KNLHRRTLMQR1Bos taurus
R119KGRLGRALFNH1Arabidopsis thaliana
R119KNKLRKQRLDR1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
R119RNKLWDRRMKR1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
R38AMASIRLQGLH1Homo sapiens
R38KLVKTHLLGLQ1Drosophila melanogaster
R38VIASNKLQGLN1Mus musculus
R38ALASVRLQGLH1Bos taurus
R38STIANHIRGKN1Arabidopsis thaliana
R38SAIAITLIGRH1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
R38SQIATTLMGKH1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
S68RHIAFSGNKWE3Homo sapiens, Mus musculus, Bos taurus
S68REIALPGDEWV1Drosophila melanogaster
S68EKVAVSGKKRN1Arabidopsis thaliana
S68QKIRVTGKKFE1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
S68SEIGISGRKLE1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
S78EQKVYSSHTGY3Homo sapiens, Mus musculus, Bos taurus
S78VKRVYFHHTGY1Drosophila melanogaster
S78NQKLYRRHSGR1Arabidopsis thaliana
S78EQKTYWSHSGR1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
S78ENHKYYSHSGQ1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
Y109VKLAIYGMLPK3Homo sapiens, Mus musculus, Bos taurus
Y109MKKAVYNSMRG1Drosophila melanogaster
Y109VEHAVRGMLPK1Arabidopsis thaliana
Y109LKKAVSGMLPK1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Y109LRRAVGGMLPR1Schizosaccharomyces pombe (strain 972 / ATCC 24843)
Y176---------3Arabidopsis thaliana, Saccharomyces cerevisiae (strain ATCC 204508 / S288c), Schizosaccharomyces pombe (strain 972 / ATCC 24843)
Y176TPPEDYRL-1Homo sapiens
Y176DYPKDYILR1Drosophila melanogaster
Y176TPPDDFRM-1Mus musculus
Y176SPPEDYRL-1Bos taurus
Y83SSHTGYPGGFR2Homo sapiens, Mus musculus
Y83FHHTGYPGG-A1Drosophila melanogaster
Y83SSHTGYPGGFK1Bos taurus
Y83RRHSGRPGGMT1Arabidopsis thaliana
Y83WSHSGRPGQLK1Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
Y83YSHSGQPGHLK1Schizosaccharomyces pombe (strain 972 / ATCC 24843)


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