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 SRF
Gene summary
Basic gene Info.Gene symbolSRF
Gene nameserum response factor (c-fos serum response element-binding transcription factor)
CytomapUCSC genome browser: 6p21.1
Type of geneprotein-coding
Descriptionserum response factor
Modification date20141207
dbXrefs MIM : 600589
Ensembl : ENSG00000112658
HPRD : 02788
Vega : OTTHUMG00000014722
ProteinUniProt: P11831
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_SRF
BioGPS: 6722
PathwayNCI Pathway Interaction Database: SRF
Pathway Commons: SRF
ContextiHOP: SRF
ligand binding site mutation search in PubMed: SRF
UCL Cancer Institute: SRF
Assigned class in mutLBSgeneDBB: This gene belongs to targetable_mutLBSgenes.

Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez
GO:0001829trophectodermal cell differentiation17576768
GO:0006366transcription from RNA polymerase II promoter3203386
GO:0009725response to hormone17975004
GO:0010735positive regulation of transcription via serum response element binding3203386
GO:0045597positive regulation of cell differentiation17576768
GO:0045944positive regulation of transcription from RNA polymerase II promoter17576768
GO:0045987positive regulation of smooth muscle contraction17215356
GO:0051091positive regulation of sequence-specific DNA binding transcription factor activity19098903
GO:0060261positive regulation of transcription initiation from RNA polymerase II promoter8887666

Ligand binding site mutations for SRF
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 SRF
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 SRF from PDB

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


Phenotype information for SRF
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type
umls:C0019693HIV Infections1Biomarker

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

Pharmacological information for SRF
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 SRF go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS
NUCNucleic Acids1hbxAG142
NUCNucleic Acids1hbxAG142
NUCNucleic Acids1hbxBG142
NUCNucleic Acids1hbxDG142
NUCNucleic Acids1hbxDG142
NUCNucleic Acids1hbxEG142
NUCNucleic Acids1k6oBG142
NUCNucleic Acids1k6oCG142
NUCNucleic Acids1k6oCG142
NUCNucleic Acids1srsAG142
NUCNucleic Acids1srsAG142
NUCNucleic Acids1srsBG142
NUCNucleic Acids1hbxBG142 K154 S162
NUCNucleic Acids1hbxEG142 K154 S162
NUCNucleic Acids1srsBG142 K154 S162
NUCNucleic Acids1k6oBG142 S162

Conservation information for LBS of SRF
Multiple alignments for P11831 in multiple species
LBSAA sequence# speciesSpecies

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