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 SRP19
Gene summary
Basic gene Info.Gene symbolSRP19
Gene namesignal recognition particle 19kDa
Synonyms-
CytomapUCSC genome browser: 5q21-q22
Type of geneprotein-coding
RefGenesNM_001204193.1,
NM_001204194.1,NM_001204196.1,NM_001204199.1,NM_003135.2,
Descriptionsignal recognition particle 19 kDa proteinsignal recognition particle 19kD
Modification date20141207
dbXrefs MIM : 182175
HGNC : HGNC
Ensembl : ENSG00000153037
HPRD : 01644
ProteinUniProt: P09132
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_SRP19
BioGPS: 6728
PathwayNCI Pathway Interaction Database: SRP19
KEGG: SRP19
REACTOME: SRP19
Pathway Commons: SRP19
ContextiHOP: SRP19
ligand binding site mutation search in PubMed: SRP19
UCL Cancer Institute: SRP19
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
GO:0042493response to drug18089836


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Ligand binding site mutations for SRP19
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
Y19P20HSKCM1
R74R74CUCEC1
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 SRP19
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
R74R74C-0.93178175
Y19P20H-0.85146762
(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 SRP19 from PDB

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Differential gene expression and gene-gene network for SRP19
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 SRP19 and the right PPI network was created from samples without mutations in the LBS of SRP19. 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 SRP19
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type

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

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Pharmacological information for SRP19
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 SRP19 go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS
NUCNucleic Acids1jidAY19
NUCNucleic Acids1mfqBY19 R74
NUCNucleic Acids1ry1BY19 R74
NUCNucleic Acids2j37BY19 R74
NUCNucleic Acids3ktvBY19 R74
NUCNucleic Acids3ktvDY19 R74
NUCNucleic Acids4p3eBY19 R74


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Conservation information for LBS of SRP19
Multiple alignments for P09132 in multiple species
LBSAA sequence# speciesSpecies
C17QDRFICIYPAY2Homo sapiens, Bos taurus
C17IKKWVVIYPVY1Arabidopsis thaliana
C17IKKWNVIYPVY1Oryza sativa subsp. japonica
C17MERWICIYPAY1Drosophila melanogaster
D13---DQDRFICI2Homo sapiens, Bos taurus
D13---NIKKWVVI1Arabidopsis thaliana
D13--SSIKKWNVI1Oryza sativa subsp. japonica
D13KHNDMERWICI1Drosophila melanogaster
F15-DQDRFICIYP2Homo sapiens, Bos taurus
F15-NIKKWVVIYP1Arabidopsis thaliana
F15SSIKKWNVIYP1Oryza sativa subsp. japonica
F15NDMERWICIYP1Drosophila melanogaster
I16DQDRFICIYPA2Homo sapiens, Bos taurus
I16NIKKWVVIYPV1Arabidopsis thaliana
I16SIKKWNVIYPV1Oryza sativa subsp. japonica
I16DMERWICIYPA1Drosophila melanogaster
I29NNKKTIAEGRR2Homo sapiens, Bos taurus
I29NSKKTVAEGRR2Arabidopsis thaliana, Oryza sativa subsp. japonica
I29NRKKTRQEGRR1Drosophila melanogaster
I37GRRIPISKAVE2Homo sapiens, Bos taurus
I37GRRISVSKSCE1Arabidopsis thaliana
I37GRRIASGKACP1Oryza sativa subsp. japonica
I37GRRLPKENCVD1Drosophila melanogaster
K66FLEKNKMYSRE2Homo sapiens, Bos taurus
K66AVEIDKAYPRD1Arabidopsis thaliana
K66AIELDKAYPRD1Oryza sativa subsp. japonica
K66LMENKK-YCRE1Drosophila melanogaster
M67LEKNKMYSREW2Homo sapiens, Bos taurus
M67VEIDKAYPRDF1Arabidopsis thaliana
M67IELDKAYPRDF1Oryza sativa subsp. japonica
M67MENKK-YCREN1Drosophila melanogaster
P36EGRRIPISKAV2Homo sapiens, Bos taurus
P36EGRRISVSKSC1Arabidopsis thaliana
P36EGRRIASGKAC1Oryza sativa subsp. japonica
P36EGRRLPKENCV1Drosophila melanogaster
R101VQFPSRKSVML2Homo sapiens, Bos taurus
R101PAITSRKHLMQ1Arabidopsis thaliana
R101PAIKTKKQLMI1Oryza sativa subsp. japonica
R101NDFPTRESIML1Drosophila melanogaster
R14--DQDRFICIY2Homo sapiens, Bos taurus
R14--NIKKWVVIY1Arabidopsis thaliana
R14-SSIKKWNVIY1Oryza sativa subsp. japonica
R14HNDMERWICIY1Drosophila melanogaster
R33TIAEGRRIPIS2Homo sapiens, Bos taurus
R33TVAEGRRISVS1Arabidopsis thaliana
R33TVAEGRRIASG1Oryza sativa subsp. japonica
R33TRQEGRRLPKE1Drosophila melanogaster
R34IAEGRRIPISK2Homo sapiens, Bos taurus
R34VAEGRRISVSK1Arabidopsis thaliana
R34VAEGRRIASGK1Oryza sativa subsp. japonica
R34RQEGRRLPKEN1Drosophila melanogaster
R70NKMYSREWNRD2Homo sapiens, Bos taurus
R70DKAYPRDFMQ-1Arabidopsis thaliana
R70DKAYPRDFFQ-1Oryza sativa subsp. japonica
R70KK-YCRENSSE1Drosophila melanogaster
R74SREWNRDVQYR1Homo sapiens
R74PRDFMQ----V1Arabidopsis thaliana
R74PRDFFQ----V1Oryza sativa subsp. japonica
R74SREWNRDLQYR1Bos taurus
R74CRENSSEMEFR1Drosophila melanogaster
R81---VGRVRVQL2Arabidopsis thaliana, Oryza sativa subsp. japonica
R81VQYRGRVRVQL1Homo sapiens
R81LQYRGRVRVQL1Bos taurus
R81MEFRGRVRVQL1Drosophila melanogaster
R83YRGRVRVQLKQ2Homo sapiens, Bos taurus
R83-VGRVRVQLKR1Arabidopsis thaliana
R83-VGRVRVQLKK1Oryza sativa subsp. japonica
R83FRGRVRVQLRN1Drosophila melanogaster
S69KNKMYSREWNR2Homo sapiens, Bos taurus
S69IDKAYPRDFMQ1Arabidopsis thaliana
S69LDKAYPRDFFQ1Oryza sativa subsp. japonica
S69NKK-YCRENSS1Drosophila melanogaster
T28LNNKKTIAEGR2Homo sapiens, Bos taurus
T28INSKKTVAEGR1Arabidopsis thaliana
T28LNSKKTVAEGR1Oryza sativa subsp. japonica
T28INRKKTRQEGR1Drosophila melanogaster
Y19RFICIYPAYLN2Homo sapiens, Bos taurus
Y19KWVVIYPVYIN1Arabidopsis thaliana
Y19KWNVIYPVYLN1Oryza sativa subsp. japonica
Y19RWICIYPAYIN1Drosophila melanogaster
Y22CIYPAYLNNKK2Homo sapiens, Bos taurus
Y22VIYPVYINSKK1Arabidopsis thaliana
Y22VIYPVYLNSKK1Oryza sativa subsp. japonica
Y22CIYPAYINRKK1Drosophila melanogaster
Y68EKNKMYSREWN2Homo sapiens, Bos taurus
Y68EIDKAYPRDFM1Arabidopsis thaliana
Y68ELDKAYPRDFF1Oryza sativa subsp. japonica
Y68ENKK-YCRENS1Drosophila melanogaster


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