mutLBSgeneDB

mutLBSgeneDB
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 CLIP1
Gene summary
Basic gene Info.Gene symbolCLIP1
Gene nameCAP-GLY domain containing linker protein 1
SynonymsCLIP|CLIP-170|CLIP170|CYLN1|RSN
CytomapUCSC genome browser: 12q24.3
Type of geneprotein-coding
RefGenesNM_001247997.1,
NM_002956.2,NM_198240.1,
DescriptionCAP-Gly domain-containing linker protein 1cytoplasmic linker protein 1cytoplasmic linker protein 170 alpha-2cytoplasmic linker protein CLIP-170restin (Reed-Steinberg cell-expressed intermediate filament-associated protein)
Modification date20141222
dbXrefs MIM : 179838
HGNC : HGNC
Ensembl : ENSG00000130779
HPRD : 01568
Vega : OTTHUMG00000168922
ProteinUniProt: P30622
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_CLIP1
BioGPS: 6249
PathwayNCI Pathway Interaction Database: CLIP1
KEGG: CLIP1
REACTOME: CLIP1
Pathway Commons: CLIP1
ContextiHOP: CLIP1
ligand binding site mutation search in PubMed: CLIP1
UCL Cancer Institute: CLIP1
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 CLIP1
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
W87W87LLUAD1
W87W87LLUSC1
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 CLIP1
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
W87W87L-0.47763002
(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 CLIP1 from PDB

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Differential gene expression and gene-gene network for CLIP1
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 CLIP1 and the right PPI network was created from samples without mutations in the LBS of CLIP1. 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 CLIP1
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 CLIP1
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 CLIP1 go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS
IIIPeptide ligand (ASP,SER,TRP,LYS,ASP,GLY,CYS,TYR)3rdvAW87
IIIPeptide ligand (ASP,SER,TRP,LYS,ASP,GLY,CYS,TYR)3rdvBW87
IIIPeptide ligand (SER,TRP,LYS,ASP,GLY,CYS,TYR)3rdvCW87
IIIPeptide ligand (ASP,SER,TRP,LYS,ASP,GLY,CYS,TYR)3rdvDW87


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Conservation information for LBS of CLIP1
Multiple alignments for P30622 in multiple species
LBSAA sequence# speciesSpecies
A273KYGLFAPVHKV2Homo sapiens, Mus musculus
A273RYGLFAPVHKV1Gallus gallus
F118PLKGIFTRPSK2Homo sapiens, Mus musculus
F118PLRGIFTRPSK1Gallus gallus
F236LGETDFAKGEW3Homo sapiens, Gallus gallus, Mus musculus
F272PKYGLFAPVHK2Homo sapiens, Mus musculus
F272PRYGLFAPVHK1Gallus gallus
F82LGETQFAPGQW3Homo sapiens, Gallus gallus, Mus musculus
G97LDEPIGKNDGS3Homo sapiens, Gallus gallus, Mus musculus
I117EPLKGIFTRPS2Homo sapiens, Mus musculus
I117EPLRGIFTRPS1Gallus gallus
I96VLDEPIGKNDG3Homo sapiens, Gallus gallus, Mus musculus
K252DEPLGKNDGAV3Homo sapiens, Gallus gallus, Mus musculus
K277FAPVHKVTKIG3Homo sapiens, Gallus gallus, Mus musculus
K98DEPIGKNDGSV3Homo sapiens, Gallus gallus, Mus musculus
L271QPKYGLFAPVH2Homo sapiens, Mus musculus
L271QPRYGLFAPVH1Gallus gallus
N253EPLGKNDGAVA3Homo sapiens, Gallus gallus, Mus musculus
N67ERVWVNGNKPG3Homo sapiens, Gallus gallus, Mus musculus
N99EPIGKNDGSVA3Homo sapiens, Gallus gallus, Mus musculus
P274YGLFAPVHKVT3Homo sapiens, Gallus gallus, Mus musculus
T119LKGIFTRPSKL2Homo sapiens, Mus musculus
T119LRGIFTRPSKL1Gallus gallus
V66GERVWVNGNKP3Homo sapiens, Gallus gallus, Mus musculus
W241FAKGEWCGVEL3Homo sapiens, Gallus gallus, Mus musculus
W87FAPGQWAGIVL3Homo sapiens, Gallus gallus, Mus musculus


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