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 LIN28A
Gene summary
Basic gene Info.Gene symbolLIN28A
Gene namelin-28 homolog A (C. elegans)
CytomapUCSC genome browser: 1p36.11
Type of geneprotein-coding
DescriptionRNA-binding protein LIN-28protein lin-28 homolog Azinc finger CCHC domain-containing protein 1zinc finger, CCHC domain containing 1
Modification date20141207
dbXrefs MIM : 611043
Ensembl : ENSG00000131914
HPRD : 17278
Vega : OTTHUMG00000003550
ProteinUniProt: Q9H9Z2
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_LIN28A
BioGPS: 79727
PathwayNCI Pathway Interaction Database: LIN28A
Pathway Commons: LIN28A
ContextiHOP: LIN28A
ligand binding site mutation search in PubMed: LIN28A
UCL Cancer Institute: LIN28A
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 LIN28A

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 LIN28A
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 LIN28A from PDB

Differential gene expression and gene-gene network for LIN28A
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 LIN28A and the right PPI network was created from samples without mutations in the LBS of LIN28A. Only genes with p-value < 0.05 are shown.
Red circle: input gene. Orange circle: LBSgene. Blue circle: other gene.


Phenotype information for LIN28A
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type
umls:C0007621Cell Transformation, Neoplastic1Biomarker

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

Pharmacological information for LIN28A
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 LIN28A go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS
NUCNucleic Acids2li8AM129 C139 H148

Conservation information for LBS of LIN28A
Multiple alignments for Q9H9Z2 in multiple species
LBSAA sequence# speciesSpecies
A149GLDHHAKECKL4Homo sapiens, Xenopus tropicalis, Gallus gallus, Mus musculus
A149GPNHHAKECQL1Danio rerio
A172ISHMVASCPLK1Homo sapiens
A172ISHMVANCPIK1Danio rerio
A172PNHMVAQCPAK1Xenopus tropicalis
A172ISHMVANCPAK1Gallus gallus
A172INHMVASCPLK1Mus musculus
C139SKGDRCYNCGG3Homo sapiens, Gallus gallus, Mus musculus
C139SKGDRCFNCGG1Danio rerio
C139QKGDRCYNCGG1Xenopus tropicalis
C142DRCYNCGGLDH4Homo sapiens, Xenopus tropicalis, Gallus gallus, Mus musculus
C142DRCFNCGGPNH1Danio rerio
C152HHAKECKLPPQ4Homo sapiens, Xenopus tropicalis, Gallus gallus, Mus musculus
C152HHAKECQLPPQ1Danio rerio
C161PQPKKCHFCQS5Homo sapiens, Danio rerio, Xenopus tropicalis, Gallus gallus, Mus musculus
D137RRSKGDRCYNC3Homo sapiens, Gallus gallus, Mus musculus
D137RRSKGDRCFNC1Danio rerio
D137RRQKGDRCYNC1Xenopus tropicalis
H147CGGLDHHAKEC4Homo sapiens, Xenopus tropicalis, Gallus gallus, Mus musculus
H147CGGPNHHAKEC1Danio rerio
H148GGLDHHAKECK4Homo sapiens, Xenopus tropicalis, Gallus gallus, Mus musculus
H148GGPNHHAKECQ1Danio rerio
H162QPKKCHFCQSI4Homo sapiens, Danio rerio, Gallus gallus, Mus musculus
H162QPKKCHFCQSP1Xenopus tropicalis
K131GKSMQKRRSKG1Homo sapiens
K131GT--QKRRSKG1Danio rerio
K131VKGQQKRRQKG1Xenopus tropicalis
K131SKSLQKRRSKG1Gallus gallus
K131GKNMQKRRSKG1Mus musculus
K150LDHHAKECKLP4Homo sapiens, Xenopus tropicalis, Gallus gallus, Mus musculus
K150PNHHAKECQLP1Danio rerio
K159LPPQPKKCHFC5Homo sapiens, Danio rerio, Xenopus tropicalis, Gallus gallus, Mus musculus
K160PPQPKKCHFCQ5Homo sapiens, Danio rerio, Xenopus tropicalis, Gallus gallus, Mus musculus
K177ASCPLKAQQ-G2Homo sapiens, Mus musculus
K177ANCPIKAQQLS1Danio rerio
K177AQCPAKASQ-A1Xenopus tropicalis
K177ANCPAKAQQ-S1Gallus gallus
M129PKGKSMQKRRS1Homo sapiens
M129PKGT--QKRRS1Danio rerio
M129PKVKGQQKRRQ1Xenopus tropicalis
M129PKSKSLQKRRS1Gallus gallus
M129PKGKNMQKRRS1Mus musculus
M170QSISHMVANCP2Danio rerio, Gallus gallus
M170QSISHMVASCP1Homo sapiens
M170QSPNHMVAQCP1Xenopus tropicalis
M170QSINHMVASCP1Mus musculus
Q130KGKSMQKRRSK1Homo sapiens
Q130KGT--QKRRSK1Danio rerio
Q130KVKGQQKRRQK1Xenopus tropicalis
Q130KSKSLQKRRSK1Gallus gallus
Q130KGKNMQKRRSK1Mus musculus
R132KSMQKRRSKGD1Homo sapiens
R132T--QKRRSKGD1Danio rerio
R132KGQQKRRQKGD1Xenopus tropicalis
R132KSLQKRRSKGD1Gallus gallus
R132KNMQKRRSKGD1Mus musculus
R133SMQKRRSKGDR1Homo sapiens
R133--QKRRSKGDR1Danio rerio
R133GQQKRRQKGDR1Xenopus tropicalis
R133SLQKRRSKGDR1Gallus gallus
R133NMQKRRSKGDR1Mus musculus
R138RSKGDRCYNCG3Homo sapiens, Gallus gallus, Mus musculus
R138RSKGDRCFNCG1Danio rerio
R138RQKGDRCYNCG1Xenopus tropicalis
S134MQKRRSKGDRC2Homo sapiens, Mus musculus
S134-QKRRSKGDRC1Danio rerio
S134QQKRRQKGDRC1Xenopus tropicalis
S134LQKRRSKGDRC1Gallus gallus
V171SISHMVASCPL1Homo sapiens
V171SISHMVANCPI1Danio rerio
V171SPNHMVAQCPA1Xenopus tropicalis
V171SISHMVANCPA1Gallus gallus
V171SINHMVASCPL1Mus musculus
Y140KGDRCYNCGGL4Homo sapiens, Xenopus tropicalis, Gallus gallus, Mus musculus
Y140KGDRCFNCGGP1Danio rerio

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