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 DPF3
Gene summary
Basic gene Info.Gene symbolDPF3
Gene nameD4, zinc and double PHD fingers, family 3
SynonymsBAF45C|CERD4
CytomapUCSC genome browser: 14q24.2
Type of geneprotein-coding
RefGenesNM_001280542.1,
NM_001280543.1,NM_001280544.1,NM_012074.4,
DescriptionBRG1-associated factor 45Czinc finger protein DPF3zinc finger protein cer-d4
Modification date20141207
dbXrefs MIM : 601672
HGNC : HGNC
Ensembl : ENSG00000205683
HPRD : 03395
Vega : OTTHUMG00000171364
ProteinUniProt: Q92784
go to UniProt's Cross Reference DB Table
ExpressionCleanEX: HS_DPF3
BioGPS: 8110
PathwayNCI Pathway Interaction Database: DPF3
KEGG: DPF3
REACTOME: DPF3
Pathway Commons: DPF3
ContextiHOP: DPF3
ligand binding site mutation search in PubMed: DPF3
UCL Cancer Institute: DPF3
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 DPF3
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
N272M271VKIRC1
L266G267VLUSC1
R289R289HSTAD1
C284A285TSTAD1
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 DPF3
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
L266G267V0.034310761
C284A285T-1.2821651
R289R289H-1.0557921
N272M271V-0.9711678
(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 DPF3 from PDB

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Differential gene expression and gene-gene network for DPF3
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 DPF3 and the right PPI network was created from samples without mutations in the LBS of DPF3. 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 DPF3
Gene level disease information (DisGeNet)
Disease IDDisease name# PubMedAssociation type
umls:C0031117Peripheral Nervous System Diseases1Biomarker

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

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Pharmacological information for DPF3
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 DPF3 go to BioLip
Ligand IDLigand short nameLigand long namePDB IDPDB namemutLBS
ZNZINC(2+)2kwjAC284
ZNZINC(2+)2kwkAC284
ZNZINC(2+)2kwnAC284
ZNZINC(2+)2kwoAC284
IIIPeptide ligand (ALA,ARG,THR,LYS,GLN,THR,ALA,ARG,LYS,SER,THR,GLY,GLY,LYS,ALA,PRO,ARG,LYS,GLN,LEU)2kwjAL266 R289
ZNZINC(2+)2kwkAN272
ZNZINC(2+)2kwoAN272
IIIPeptide ligand (GLY,LEU,GLY,LYS,GLY,GLY,ALA,LYS,ARG,HIS,ARG,LYS,VAL,LEU,ARG)2kwnAR289
IIIPeptide ligand (SER,GLY,ARG,GLY,LYS,GLY,GLY,LYS,GLY,LEU,GLY,LYS,GLY,GLY,ALA,LYS,ARG,HIS,ARG,LYS)2kwoAR289


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Conservation information for LBS of DPF3
Multiple alignments for Q92784 in multiple species
LBSAA sequence# speciesSpecies
C262IPNNYCDFCLG3Homo sapiens, Mus musculus, Gallus gallus
C262EISTSCDFCSG1Caenorhabditis elegans
C262IPNDYCDFCLG1Danio rerio
C265NYCDFCLGGSN3Homo sapiens, Mus musculus, Gallus gallus
C265TSCDFCSGTAF1Caenorhabditis elegans
C265DYCDFCLGDSG1Danio rerio
C284EELVSCADCGR2Homo sapiens, Mus musculus
C284EELVSCSDCGR2Danio rerio, Gallus gallus
C284EDLVSCHDCGR1Caenorhabditis elegans
C287VSCADCGRSGH2Homo sapiens, Mus musculus
C287VSCSDCGRSGH2Danio rerio, Gallus gallus
C287VSCHDCGRSGH1Caenorhabditis elegans
C295SGHPTCLQFTL2Homo sapiens, Mus musculus
C295SGHPSCLNFNQ1Caenorhabditis elegans
C295SGHPSCLQFTD1Danio rerio
C295SGHPTCLQFTT1Gallus gallus
C313TYKWQCIECKS2Homo sapiens, Mus musculus
C313TYQWQCIECKS2Danio rerio, Gallus gallus
C313RSGWQCLECKS1Caenorhabditis elegans
C316WQCIECKSCIL2Homo sapiens, Mus musculus
C316WQCIECKSCSL2Danio rerio, Gallus gallus
C316WQCLECKSCTI1Caenorhabditis elegans
C334DQLLFCDDCDR4Homo sapiens, Danio rerio, Mus musculus, Gallus gallus
C334DKLLFCDDCDR1Caenorhabditis elegans
C337LFCDDCDRGYH5Homo sapiens, Caenorhabditis elegans, Danio rerio, Mus musculus, Gallus gallus
C360EGSWSCHLCWE2Homo sapiens, Mus musculus
C360DDEYSCRLCQV1Caenorhabditis elegans
C360EGSWSCHLCQN1Danio rerio
C360EGSWSCHLCRE1Gallus gallus
C363WSCHLCWELLK2Homo sapiens, Mus musculus
C363YSCRLCQVEFG1Caenorhabditis elegans
C363WSCHLCQNLLK1Danio rerio
C363WSCHLCRELLR1Gallus gallus
D263PNNYCDFCLGG3Homo sapiens, Mus musculus, Gallus gallus
D263ISTSCDFCSGT1Caenorhabditis elegans
D263PNDYCDFCLGD1Danio rerio
D328GTSENDDQLLF4Homo sapiens, Danio rerio, Mus musculus, Gallus gallus
D328GTSENDDKLLF1Caenorhabditis elegans
D329TSENDDQLLFC4Homo sapiens, Danio rerio, Mus musculus, Gallus gallus
D329TSENDDKLLFC1Caenorhabditis elegans
D335QLLFCDDCDRG4Homo sapiens, Danio rerio, Mus musculus, Gallus gallus
D335KLLFCDDCDRG1Caenorhabditis elegans
D338FCDDCDRGYHM4Homo sapiens, Danio rerio, Mus musculus, Gallus gallus
D338FCDDCDRGYHL1Caenorhabditis elegans
E315KWQCIECKSCI2Homo sapiens, Mus musculus
E315QWQCIECKSCS2Danio rerio, Gallus gallus
E315GWQCLECKSCT1Caenorhabditis elegans
E355VAEPPEGSWSC2Homo sapiens, Mus musculus
E355LEKAPDDEYSC1Caenorhabditis elegans
E355MTQPPEGSWSC1Danio rerio
E355VFEPPEGSWSC1Gallus gallus
F264NNYCDFCLGGS3Homo sapiens, Mus musculus, Gallus gallus
F264STSCDFCSGTA1Caenorhabditis elegans
F264NDYCDFCLGDS1Danio rerio
F298PTCLQFTLNMT2Homo sapiens, Mus musculus
F298PSCLNFNQNVT1Caenorhabditis elegans
F298PSCLQFTDNMM1Danio rerio
F298PTCLQFTTNMT1Gallus gallus
F333DDQLLFCDDCD4Homo sapiens, Danio rerio, Mus musculus, Gallus gallus
F333DDKLLFCDDCD1Caenorhabditis elegans
G291DCGRSGHPTCL3Homo sapiens, Mus musculus, Gallus gallus
G291DCGRSGHPSCL2Caenorhabditis elegans, Danio rerio
G356AEPPEGSWSCH2Homo sapiens, Mus musculus
G356EKAPDDEYSCR1Caenorhabditis elegans
G356TQPPEGSWSCH1Danio rerio
G356FEPPEGSWSCH1Gallus gallus
H292CGRSGHPTCLQ3Homo sapiens, Mus musculus, Gallus gallus
H292CGRSGHPSCLN1Caenorhabditis elegans
H292CGRSGHPSCLQ1Danio rerio
I314YKWQCIECKSC2Homo sapiens, Mus musculus
I314YQWQCIECKSC2Danio rerio, Gallus gallus
I314SGWQCLECKSC1Caenorhabditis elegans
K317QCIECKSCILC2Homo sapiens, Mus musculus
K317QCIECKSCSLC2Danio rerio, Gallus gallus
K317QCLECKSCTIC1Caenorhabditis elegans
L266YCDFCLGGSNM3Homo sapiens, Mus musculus, Gallus gallus
L266SCDFCSGTAFM1Caenorhabditis elegans
L266YCDFCLGDSGS1Danio rerio
L296GHPTCLQFTLN2Homo sapiens, Mus musculus
L296GHPSCLNFNQN1Caenorhabditis elegans
L296GHPSCLQFTDN1Danio rerio
L296GHPTCLQFTTN1Gallus gallus
L331ENDDQLLFCDD4Homo sapiens, Danio rerio, Mus musculus, Gallus gallus
L331ENDDKLLFCDD1Caenorhabditis elegans
L332NDDQLLFCDDC4Homo sapiens, Danio rerio, Mus musculus, Gallus gallus
L332NDDKLLFCDDC1Caenorhabditis elegans
M302QFTLNMTEAVK2Homo sapiens, Mus musculus
M302NFNQNVTKIIK1Caenorhabditis elegans
M302QFTDNMMQAVR1Danio rerio
M302QFTTNMTEAVK1Gallus gallus
M343DRGYHMYCLNP3Homo sapiens, Mus musculus, Gallus gallus
M343DRGYHLYCLTP1Caenorhabditis elegans
M343DRGYHMYCLKP1Danio rerio
N272GGSNMNKKSGR3Homo sapiens, Mus musculus, Gallus gallus
N272GTAFMNKNTKL1Caenorhabditis elegans
N272GDSGSNRKTGQ1Danio rerio
P353PPVAEPPEGSW2Homo sapiens, Mus musculus
P353PALEKAPDDEY1Caenorhabditis elegans
P353PPMTQPPEGSW1Danio rerio
P353PPVFEPPEGSW1Gallus gallus
P354PVAEPPEGSWS2Homo sapiens, Mus musculus
P354ALEKAPDDEYS1Caenorhabditis elegans
P354PMTQPPEGSWS1Danio rerio
P354PVFEPPEGSWS1Gallus gallus
Q297HPTCLQFTLNM2Homo sapiens, Mus musculus
Q297HPSCLNFNQNV1Caenorhabditis elegans
Q297HPSCLQFTDNM1Danio rerio
Q297HPTCLQFTTNM1Gallus gallus
Q330SENDDQLLFCD4Homo sapiens, Danio rerio, Mus musculus, Gallus gallus
Q330SENDDKLLFCD1Caenorhabditis elegans
R289CADCGRSGHPT2Homo sapiens, Mus musculus
R289CHDCGRSGHPS1Caenorhabditis elegans
R289CSDCGRSGHPS1Danio rerio
R289CSDCGRSGHPT1Gallus gallus
R339CDDCDRGYHMY4Homo sapiens, Danio rerio, Mus musculus, Gallus gallus
R339CDDCDRGYHLY1Caenorhabditis elegans
S290ADCGRSGHPTC2Homo sapiens, Mus musculus
S290HDCGRSGHPSC1Caenorhabditis elegans
S290SDCGRSGHPSC1Danio rerio
S290SDCGRSGHPTC1Gallus gallus
S318CIECKSCILCG2Homo sapiens, Mus musculus
S318CIECKSCSLCG2Danio rerio, Gallus gallus
S318CLECKSCTICG1Caenorhabditis elegans
S325ILCGTSENDDQ2Homo sapiens, Mus musculus
S325SLCGTSENDDQ2Danio rerio, Gallus gallus
S325TICGTSENDDK1Caenorhabditis elegans
S357EPPEGSWSCHL3Homo sapiens, Mus musculus, Gallus gallus
S357KAPDDEYSCRL1Caenorhabditis elegans
S357QPPEGSWSCHL1Danio rerio
S359PEGSWSCHLCW2Homo sapiens, Mus musculus
S359PDDEYSCRLCQ1Caenorhabditis elegans
S359PEGSWSCHLCQ1Danio rerio
S359PEGSWSCHLCR1Gallus gallus
W311VKTYKWQCIEC2Homo sapiens, Mus musculus
W311IKRSGWQCLEC1Caenorhabditis elegans
W311VRTYQWQCIEC1Danio rerio
W311VKTYQWQCIEC1Gallus gallus
W358PPEGSWSCHLC4Homo sapiens, Danio rerio, Mus musculus, Gallus gallus
W358APDDEYSCRLC1Caenorhabditis elegans
Y261VIPNNYCDFCL2Homo sapiens, Mus musculus
Y261IEISTSCDFCS1Caenorhabditis elegans
Y261IIPNDYCDFCL1Danio rerio
Y261IIPNNYCDFCL1Gallus gallus


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