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	Gene Summary
	Translation studies in PubMed
	Exon Skipping Events
	Expression
	Expression Regulation
	Associated Genes
	Protein 3D Structure
	Protein-Protein Interaction
	Mutations
	Prognostic Analysis
	Gender Association
	Age Association
	Related Drugs
	Related Diseases

Translation Factor: DPH5 (NCBI Gene ID:51611)

Gene Summary

Gene Summary

Gene Information	Gene Name: DPH5
	Gene ID: 51611
	Gene Symbol	DPH5
	Gene ID	51611
	Gene Name	diphthamide biosynthesis 5
	Synonyms	AD-018\|CGI-30\|HSPC143\|NPD015
	Cytomap	1p21.2
	Type of Gene	protein-coding
	Description	diphthine methyl ester synthaseDPH5 homologdiphthamide biosynthesis methyltransferasediphthine synthaseprotein x 0011
	Modification date	20200320
	UniProtAcc	Q9H2P9

Child GO biological process term(s) under GO:0006412

GO ID	GO term
GO:0006417	Regulation of translation
GO:0006414	Translational elongation
GO:0006412	Translation

Gene ontology of translaction factor with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner

Gene

GO ID

GO term

PubMed ID

Inferred gene age of translation factor.

Gene

Inferred gene age group among (0 - 67.6], (67.6 - 355.7], (355.7 - 733], (733 - 1119.25], >1119.25

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Translation Studies in PubMed

We searched PubMed using 'DPH5[title] AND translation [title] AND human.'

Gene	Title	PMID
DPH5	.	.

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Exon Skipping Events

Skipped exons in TCGA and GTEx based on Ensembl gene isoform structure.
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
For more annotations, please visit our ExonSkipDB.

Open reading frame (ORF) analsis of exon skipping events based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.

ENST	Exon skip start (DNA)	Exon Skip end (DNA)	ORF
ENST00000370109	101458192	101458296	Frame-shift
ENST00000488176	101458192	101458296	Frame-shift
ENST00000370109	101460665	101460705	Frame-shift
ENST00000488176	101460665	101460705	Frame-shift
ENST00000370109	101467022	101467143	Frame-shift
ENST00000488176	101467022	101467143	Frame-shift
ENST00000370109	101479265	101479374	Frame-shift
ENST00000488176	101479265	101479374	Frame-shift
ENST00000370109	101487196	101487321	Frame-shift
ENST00000488176	101487196	101487321	Frame-shift
ENST00000370109	101490864	101491022	3UTR-3CDS
ENST00000488176	101490864	101491022	3UTR-3CDS

Exon skipping position in the amino acid sequence.

ENST

Exon skip start (DNA)

Exon Skip end (DNA)

Len(transcript seq)

Exon skip start (mRNA)

Exon Skip end (mRNA)

Len(amino acid seq)

Exon skip start (AA)

Exon Skip end (AA)

Potentially (partially) lost protein functional features of UniProt.

UniProtAcc

Exon skip start (AA)

Exon Skip end (AA)

Function feature start (AA)

Function feature end (AA)

Functional feature type

Functional feature desc.

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Expression

Gene expression level across TCGA pancancer

Gene expression level across GTEx pantissue

Expression level of gene isoforms across TCGA pancancer

Expression level of gene isoforms across GTEx pantissue

Cancer(tissue) type-specific expression level of Translation factor using z-score distriution

Differential expression between tumor and matched normal (in the cancer types with more than 10 matched samples)

Cancer type	Translation factor	FC	adj.pval
LUSC	DPH5	-1.6235156890085	0.000679097693381554
HNSC	DPH5	1.65799576563523	0.000797143226918707
PRAD	DPH5	1.05284539715115	0.0496995842628905
LUAD	DPH5	-1.84948986969044	6.6826904409067e-05
KICH	DPH5	2.78540560574647	8.80360603332519e-05

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Expression Regulation

Translation factor expression regulation through miRNA binding

Cancer type

Gene

miRNA

TargetScan binding score (Context++ score percentile)

Coefficient

Pvalue

Translation factor expression regulation through methylation in the promoter of Translation factor

Cancer type

Gene

methyl group b

methyl group a

DEG pval

avg methyl in b

avg methyl in a

avg exp in b

avg exp in a

Translation factor expression regulation through methylation in the gene body of Translation factor (positive regulation)

Cancer type

Gene

methyl group b

methyl group a

DEG pval

avg methyl in b

avg methyl in a

avg exp in b

avg exp in a

Translation factor expression regulation through copy number variation of Translation factor

Cancer type	Gene	Coefficient	Pvalue
LAML	DPH5	0.057670231	0.008187127

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Associated Genes

Strongly correlated genes belong to cellular important gene groups with DPH5 (coefficient>0.8, pval<0.05, node color based on FC between tumor and matched normal). Significantly associated important genes in the individual cancer types. * Cell metabolism gene: cell metabolism genes from REACTOME (black edge), IUPHAR: drug target genes from IUPHAR (blue edge), Kinase: human kinase genes (brown edge), CGC: cancer gene census genes (orange edge), TSG: tumor suppresor genes (purple edge), Epifactor: epigenetic factors (light blue edge), TF: transcription factors (green)

Cancer type	Gene group	Translation factor	Correlated gene	Coefficient	Pvalue
GBM	Cell metabolism gene	DPH5	GEMIN6	0.800414938	1.26E-39
GBM	Cell metabolism gene	DPH5	PSMA5	0.809171239	4.14E-41
GBM	Cell metabolism gene	DPH5	SNRPG	0.827160611	2.08E-44
KICH	Cell metabolism gene	DPH5	NUDT5	0.811385481	1.82E-22

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Protein structure

Protein 3D structure
Visit iCn3D.

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Protein-Protein Interaction

Protein-protein interaction networks
* Overlap between up-regulated DEGs (log2FC<-1 and adj.P<0.05) and STRING PPI network (center: Translation factor, node: DEGs, edges: weighted by -log2(adj.P))

Overlap between down-regulated DEGs (log2FC>1 and adj.P<0.05) and STRING PPI network (center: Translation factor, node: DEGs, edges: weighted by -log2(adj.P))

* Edge colors based on TCGA cancer types.

* Overlap between DEGs (log2FC>1 and adj.P<0.05) and STRING PPI network per cancer (center: Translation factor, node: DEGs, node color: log2FC, edges: weighted by -log2(adj.P))

Cancer type	Translation factor	Interacting protein coding gene	FC	adj.pval
THCA	DPH5	NHP2	-4.50354225039153	0.000144459266043069
HNSC	DPH5	EEF2	-1.90805330069302	0.000299885096865183
KICH	DPH5	DNAJC24	1.38964695145852	0.000376403331756592
THCA	DPH5	EEF2	1.35574858496176	0.000711089919756285
BRCA	DPH5	DNAJC24	-1.14389652312681	0.000902838651961803
COAD	DPH5	EEF2	1.67025113686866	0.00197160243988037
HNSC	DPH5	DPH2	1.63786614401166	0.00315447678462988
STAD	DPH5	EEF2	-1.87846190344448	0.00733334058895707
LIHC	DPH5	NHP2L1	-1.51481836078682	0.00864730753913977
PRAD	DPH5	NHP2	-2.3754652899968	0.00883849918742049
KIRP	DPH5	NHP2	-1.28876621655782	0.0124990218318999
ESCA	DPH5	EEF2	-3.4598326417414	0.0185546875
BRCA	DPH5	DPH3	-2.55959741191714	1.53711242061404e-07
PRAD	DPH5	DPH1	1.04649113686082	2.13559901421379e-06
PRAD	DPH5	EEF2	1.63926479894191	2.70126293247147e-08
PRAD	DPH5	DPH2	-1.7499736242082	3.91792760836218e-09
LUSC	DPH5	NHP2	-1.5835906939555	5.18084356575054e-07
LUAD	DPH5	NHP2	-2.33834300504675	5.47570214265305e-08
BRCA	DPH5	NHP2	-5.36604889065533	5.61653473347207e-18
KIRC	DPH5	NHP2	-1.27061943816611	5.8006156553143e-05
BRCA	DPH5	DPH2	-2.32663867065443	6.11363360281251e-08
LUAD	DPH5	DPH3	-3.59138499390076	7.41012444787115e-08

Protein-protein interactors with this translation factor (BIOGRID-3.4.160)

PPI interactors with DPH5

ENO1, MOV10, NXF1, C12orf10, CD2AP, HNRNPL, SFPQ, UFD1L, GCLC, NMD3, PARVA, SPG20, ZYX, KRAS, BICD2, LRRK2, FASN,

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Mutations

Clinically associated variants from ClinVar.

Gene

Chr

Position

RefSeq

VarSeq

RefSeeq

VarType

Pathogenic

Disease

VarInfo

nsSNVs with sample frequency (size of circle) from TCGA 33 cancers.

SNVs and Indels

Gene	Cancer type	Chromosome	Start	End	RefSeeq	MutSeq	Mutation type	AAchange	# samples
DPH5	HNSC	chr1	101490909	101490909	G	A	Silent	p.L31L	3
DPH5	PAAD	chr1	101456141	101456141	G	A	Silent	p.A227A	3
DPH5	PRAD	chr1	101487277	101487277	T	C	Silent	p.E60E	3
DPH5	UCEC	chr1	101467037	101467037	G	A	Missense_Mutation	p.T159I	3
DPH5	LUAD	chr1	101460684	101460684	G	T	Missense_Mutation	p.S171Y	2
DPH5	BLCA	chr1	101490988	101490988	G	A	Silent	p.L4L	2
DPH5	SKCM	chr1	101479281	101479281	G	A	Silent	p.G118G	2
DPH5	STAD	chr1	101458252	101458252	T	C	Missense_Mutation	p.Q192R	2
DPH5	STAD	chr1	101456138	101456138	G	A	Silent	p.D228D	2
DPH5	ESCA	chr1	101456046	101456046	A	-	Frame_Shift_Del	p.I259fs	2
DPH5	STAD	chr1	101456081	101456081	T	C	Silent	p.E247E	2
DPH5	PAAD	chr1	101456141	101456141	G	A	Silent		2
DPH5	ESCA	chr1	101456097	101456097	G	T	Missense_Mutation	p.T242N	2
DPH5	ESCA	chr1	101456100	101456100	C	T	Missense_Mutation	p.C241Y	2
DPH5	UCEC	chr1	101458270	101458270	C	T	Missense_Mutation	p.R186Q	2
DPH5	LGG	chr1	101458213	101458213	C	A	Missense_Mutation	p.R205I	2
DPH5	LIHC	chr1	101490900	101490900	A	T	Missense_Mutation		2
DPH5	BLCA	chr1	101456177	101456177	C	T	Silent		1
DPH5	READ	chr1	101458287	101458287	C	A	Missense_Mutation	p.K180N	1
DPH5	ESCA	chr1	101456100	101456100	C	T	Missense_Mutation		1
DPH5	SKCM	chr1	101456040	101456040	G	A	Missense_Mutation	p.P261L	1
DPH5	ESCA	chr1	101456051	101456051	G	T	Silent	p.G257G	1
DPH5	LUSC	chr1	101460686	101460686	C	A	Missense_Mutation	p.Q170H	1
DPH5	COAD	chr1	101490984	101490984	C	T	Missense_Mutation	p.G6R	1
DPH5	HNSC	chr1	101456010	101456010	G	A	Missense_Mutation		1
DPH5	LUSC	chr1	101487267	101487267	C	G	Missense_Mutation	p.E64Q	1
DPH5	COAD	chr1	101490997	101490997	C	T	Missense_Mutation	p.M1I	1
DPH5	HNSC	chr1	101456040	101456040	G	A	Missense_Mutation		1
DPH5	MESO	chr1	101479355	101479355	G	T	Missense_Mutation		1
DPH5	ESCA	chr1	101455897	101455897	A	-	RNA	NULL	1
DPH5	HNSC	chr1	101467118	101467118	G	A	Missense_Mutation	p.S132F	1
DPH5	OV	chr1	101228765	101228765	C	T	Silent	p.E215	1
DPH5	HNSC	chr1	101487279	101487279	C	T	Missense_Mutation	p.E60K	1
DPH5	STAD	chr1	101458257	101458257	T	C	Silent	p.V190V	1
DPH5	UCEC	chr1	101487287	101487287	T	C	Missense_Mutation	p.D57G	1
DPH5	KIRP	chr1	101456156	101456156	T	C	Silent	p.L222L	1
DPH5	ESCA	chr1	101456097	101456097	G	T	Missense_Mutation		1
DPH5	LGG	chr1	101458271	101458271	G	A	Missense_Mutation	p.R186W	1
DPH5	BLCA	chr1	101490988	101490988	G	A	Silent		1
DPH5	PRAD	chr1	101479332	101479332	C	A	Silent	p.L101L	1
DPH5	ESCA	chr1	101456051	101456051	G	T	Silent		1
DPH5	BLCA	chr1	101458223	101458223	G	T	Missense_Mutation		1
DPH5	READ	chr1	101458208	101458208	G	A	Nonsense_Mutation	p.R207X	1
DPH5	ESCA	chr1	101456046	101456046	A	-	Frame_Shift_Del		1

Copy number variation (CNV) of DPH5
* Click on the image to open the original image in a new window.

Fusion gene breakpoints (product of the structural variants (SVs)) across DPH5
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Fusion genes with this translation factor from FusionGDB2.0.

FusionGDB2 ID	Disease	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
92653	PRAD	TCGA-EJ-7330-01A	COL11A1	chr1	103352466	-	DPH5	chr1	101491617	-
97671	N/A	BC003660	DPH5	chr1	101455619	-	ARSD	chrX	2824349	-
97170	N/A	CA488992	DPH5	chr1	101455868	-	DYNC2H1	chr11	103145532	-
92653	BRCA	TCGA-AN-A0FJ-01A	EXTL2	chr1	101360189	-	DPH5	chr1	101487321	-
92654	N/A	BQ003023	TNFRSF1B	chr1	12268962	-	DPH5	chr1	101443342	-

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Prognostic Analysis

Kaplan-Meier plots with logrank tests of overall survival (OS)

Cancer type

Translation factor

Coefficent

Hazard ratio

Wald test pval

Likelihool ratio pval

Logrank test pval

# samples

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Translation factor and Gender

Differential gene expression between female and male. (Wilcoxon test, pval<0.05)

Cancer type	Translation factor	pval	adj.p
HNSC	DPH5	0.00798628050192711	0.22
BLCA	DPH5	0.011337980355558	0.31
LIHC	DPH5	0.0130698919441256	0.34
THYM	DPH5	0.0251662728468352	0.63

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Translation factor and Age

Differential gene expression between young and old age groups (Wilcoxon test, pval<0.05)

Cancer type	Translation factor	pval	adj.p
LUSC	DPH5	0.0148350849045145	0.45
KIRC	DPH5	0.0312366012574323	0.87
LGG	DPH5	0.000863995049920896	0.029
LAML	DPH5	0.00360930577372296	0.12
CESC	DPH5	0.0262854457847544	0.76
BLCA	DPH5	0.00596642821768457	0.18

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Related Drugs

Drugs targeting genes involved in this translation factor.
(DrugBank Version 5.1.8 2021-05-08)

UniProtAcc	DrugBank ID	Drug name	Drug activity	Drug type	Drug status
Q9H2P9	DB01752	S-adenosyl-L-homocysteine		Small molecule	Experimental
Q9H2P9	DB01752	S-adenosyl-L-homocysteine

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Related Diseases

Diseases associated with this translation factor.
(DisGeNet 4.0)

Disease ID

Disease Name

# PubMeds

Disease source