EuRBPDB

Basic Information
Cancer Related Information

Description

RBDs

Literatures

Expression

Transcripts

Gene Model

Pathways

PPI

Paralogs

Orthologs

Gene Ontology

Description

Ensembl ID: ENSG00000100298 (Gene tree)
Gene ID: 164668
Gene Symbol: APOBEC3H
Alias: ARP10
Full Name: apolipoprotein B mRNA editing enzyme catalytic subunit 3H
Gene Type: protein_coding
Species: Homo_sapiens
Status: confidence
Strand: Plus strand
Length: 6,845 bases
Position: chr22:39,097,223-39,104,067
Accession: 24100
RBP type: canonical RBP
Summary: This gene encodes a member of the apolipoprotein B mRNA-editing enzyme catalytic polypeptide 3 family of proteins. The encoded protein is a cytidine deaminase that has antiretroviral activity by generating lethal hypermutations in viral genomes. Polymorphisms and alternative splicing in this gene influence its antiretroviral activity and are associated with increased resistence to human immunodeficiency virus type 1 infection in certain populations. Alternative splicing results in multiple transcript variants.[provided by RefSeq, Oct 2009]

RNA binding domains(RBDs)

Protein ID	Domain	Pfam ID	E-value	Domain number	Total number
ENSP00000216123	APOBEC_N	PF08210.11	4.4e-35	1	1
ENSP00000411754	APOBEC_N	PF08210.11	4.5e-35	1	1
ENSP00000385741	APOBEC_N	PF08210.11	6.2e-35	1	1
ENSP00000483689	APOBEC_N	PF08210.11	6.2e-35	1	1
ENSP00000393520	APOBEC_N	PF08210.11	3.8e-27	1	1
ENSP00000482682	APOBEC_N	PF08210.11	3.8e-27	1	1
ENSP00000216123	APOBEC_C	PF05240.14	1.5e-24	1	1
ENSP00000411754	APOBEC_C	PF05240.14	1.5e-24	1	1
ENSP00000385741	APOBEC_C	PF05240.14	1.9e-24	1	1
ENSP00000483689	APOBEC_C	PF05240.14	1.9e-24	1	1
ENSP00000393520	APOBEC_C	PF05240.14	1.1e-09	1	1
ENSP00000482682	APOBEC_C	PF05240.14	1.1e-09	1	1

Literatures on RNA binding capacity

PID	Title	Article	Time	Author	Doi
29044109	APOBEC3H structure reveals an unusual mechanism of interaction with duplex RNA.	Nat Commun	2017 Oct 18	Bohn JA	doi: 10.1038/s41467-017-01309-6.
22859935	Reduced APOBEC3H variant anti-viral activities are associated with altered RNA binding activities.	PLoS One	2012	Zhen A	doi: 10.1371/journal.pone.0038771
27541140	The RNA Binding Specificity of Human APOBEC3 Proteins Resembles That of HIV-1 Nucleocapsid.	PLoS Pathog	2016 Aug 19	York A	doi: 10.1371/journal.ppat.1005833
29290613	The Antiviral and Cancer Genomic DNA Deaminase APOBEC3H Is Regulated by an RNA-Mediated Dimerization Mechanism.	Mol Cell	2018 Jan 4	Shaban NM	doi: 10.1016/j.molcel.2017.12.010
30414963	RNA-Mediated Dimerization of the Human Deoxycytidine Deaminase APOBEC3H Influences Enzyme Activity and Interaction with Nucleic Acids.	J Mol Biol	2018 Dec 7	Feng Y	doi: 10.1016/j.jmb.2018.11.006
30679582	A panel of eGFP reporters for single base editing by APOBEC-Cas9 editosome complexes.	Sci Rep	2019 Jan 24	Martin AS	doi: 10.1038/s41598-018-36739-9.
29491387	Understanding the Structure, Multimerization, Subcellular Localization and mC Selectivity of a Genomic Mutator and Anti-HIV Factor APOBEC3H.	Sci Rep	2018 Feb 28	Ito F	doi: 10.1038/s41598-018-21955-0.

Expression

Transcripts

Transcript ID	Name	Length	RefSeq ID	Protein ID	Length	RefSeq ID	UniportKB ID
ENST00000613996	APOBEC3H-207	465	-	ENSP00000482682	154 (aa)	-	A0A087WZI3
ENST00000401756	APOBEC3H-202	1023	XM_011529990	ENSP00000385741	200 (aa)	XP_011528292	Q6NTF7
ENST00000421988	APOBEC3H-203	592	-	ENSP00000393520	154 (aa)	-	Q6NTF7
ENST00000474235	APOBEC3H-205	338	-	-	- (aa)	-	-
ENST00000613677	APOBEC3H-206	730	-	ENSP00000483689	200 (aa)	-	UPI000188E67A
ENST00000348946	APOBEC3H-201	1046	-	ENSP00000216123	182 (aa)	-	Q6NTF7
ENST00000442487	APOBEC3H-204	988	-	ENSP00000411754	183 (aa)	-	Q6NTF7

Gene Model

Click here to download ENSG00000100298's gene model file

Pathways

Pathway ID	Pathway Name	Source
hsa05170	Human immunodeficiency virus 1 infection	KEGG

Protein-Protein Interaction (PPI)

Clik here to download ENSG00000100298's network

* RBP PPI network refers to all genes directly bind to RBP

Paralogs

Ensembl ID	Gene Symbol	Coverage	Identiy	Paralog	Gene Symbol	Coverage	Identiy
ENSG00000100298	APOBEC3H	99	33.163	ENSG00000179750	APOBEC3B	90	32.911
ENSG00000100298	APOBEC3H	99	34.759	ENSG00000128394	APOBEC3F	88	36.025
ENSG00000100298	APOBEC3H	74	41.045	ENSG00000244509	APOBEC3C	71	40.288
ENSG00000100298	APOBEC3H	97	33.862	ENSG00000239713	APOBEC3G	92	33.161

Orthologs

Ensembl ID	Gene Symbol	Coverage	Identiy	Ortholog	Gene Symbol	Coverage	Identiy	Species
ENSG00000100298	APOBEC3H	100	46.486	ENSAMEG00000010818	-	76	46.486	Ailuropoda_melanoleuca
ENSG00000100298	APOBEC3H	100	72.581	ENSANAG00000025410	APOBEC3H	83	70.811	Aotus_nancymaae
ENSG00000100298	APOBEC3H	99	48.889	ENSBTAG00000007755	APOBEC3H	92	48.889	Bos_taurus
ENSG00000100298	APOBEC3H	100	72.078	ENSCJAG00000012524	APOBEC3H	100	69.481	Callithrix_jacchus
ENSG00000100298	APOBEC3H	99	46.703	ENSCAFG00000001361	APOBEC3Z3	93	45.604	Canis_familiaris
ENSG00000100298	APOBEC3H	99	46.154	ENSCAFG00020002584	-	96	45.026	Canis_lupus_dingo
ENSG00000100298	APOBEC3H	99	50.000	ENSCHIG00000026580	-	95	50.000	Capra_hircus
ENSG00000100298	APOBEC3H	98	51.124	ENSTSYG00000032894	-	100	51.124	Carlito_syrichta
ENSG00000100298	APOBEC3H	100	52.486	ENSCPOG00000009257	-	86	52.809	Cavia_porcellus
ENSG00000100298	APOBEC3H	100	74.522	ENSCCAG00000008525	APOBEC3H	100	73.885	Cebus_capucinus
ENSG00000100298	APOBEC3H	100	82.500	ENSCATG00000030302	APOBEC3H	100	82.500	Cercocebus_atys
ENSG00000100298	APOBEC3H	98	53.333	ENSCLAG00000016615	-	88	53.333	Chinchilla_lanigera
ENSG00000100298	APOBEC3H	100	80.874	ENSCSAG00000006371	APOBEC3H	87	80.874	Chlorocebus_sabaeus
ENSG00000100298	APOBEC3H	100	49.462	ENSCGRG00001022976	Apobec3	84	49.462	Cricetulus_griseus_chok1gshd
ENSG00000100298	APOBEC3H	100	49.462	ENSCGRG00000005621	Apobec3	84	49.462	Cricetulus_griseus_crigri
ENSG00000100298	APOBEC3H	99	50.811	ENSDORG00000027271	-	99	42.857	Dipodomys_ordii
ENSG00000100298	APOBEC3H	98	52.809	ENSECAG00000007726	APOBEC3H	75	52.809	Equus_caballus
ENSG00000100298	APOBEC3H	99	50.556	ENSFCAG00000005251	APOBEC3Z3	93	50.273	Felis_catus
ENSG00000100298	APOBEC3H	99	51.111	ENSSTOG00000007125	-	85	51.111	Ictidomys_tridecemlineatus
ENSG00000100298	APOBEC3H	97	48.529	ENSJJAG00000016840	-	73	48.529	Jaculus_jaculus
ENSG00000100298	APOBEC3H	100	51.124	ENSLAFG00000027404	-	95	51.124	Loxodonta_africana
ENSG00000100298	APOBEC3H	100	83.766	ENSMFAG00000031827	APOBEC3H	100	83.766	Macaca_fascicularis
ENSG00000100298	APOBEC3H	100	84.416	ENSMMUG00000001016	APOBEC3H	100	84.416	Macaca_mulatta
ENSG00000100298	APOBEC3H	100	83.766	ENSMNEG00000039259	APOBEC3H	100	83.766	Macaca_nemestrina
ENSG00000100298	APOBEC3H	100	84.416	ENSMLEG00000033417	APOBEC3H	100	84.416	Mandrillus_leucophaeus
ENSG00000100298	APOBEC3H	100	48.128	ENSMAUG00000011683	Apobec3	72	47.568	Mesocricetus_auratus
ENSG00000100298	APOBEC3H	99	48.901	ENSMOCG00000021576	Apobec3	83	48.333	Microtus_ochrogaster
ENSG00000100298	APOBEC3H	100	48.108	MGP_CAROLIEiJ_G0020029	Apobec3	92	47.568	Mus_caroli
ENSG00000100298	APOBEC3H	99	47.590	ENSMUSG00000009585	Apobec3	99	43.434	Mus_musculus
ENSG00000100298	APOBEC3H	100	48.936	MGP_PahariEiJ_G0020031	-	86	47.340	Mus_pahari
ENSG00000100298	APOBEC3H	100	47.027	MGP_SPRETEiJ_G0020927	Apobec3	98	38.095	Mus_spretus
ENSG00000100298	APOBEC3H	99	48.333	ENSMPUG00000013239	-	78	48.333	Mustela_putorius_furo
ENSG00000100298	APOBEC3H	100	48.333	ENSNGAG00000018998	Apobec3	93	48.333	Nannospalax_galili
ENSG00000100298	APOBEC3H	100	87.978	ENSNLEG00000015218	-	87	87.978	Nomascus_leucogenys
ENSG00000100298	APOBEC3H	98	40.223	ENSOCUG00000023913	-	81	40.223	Oryctolagus_cuniculus
ENSG00000100298	APOBEC3H	99	49.444	ENSOARG00000016290	APOBEC3F	96	49.444	Ovis_aries
ENSG00000100298	APOBEC3H	100	95.455	ENSPPAG00000036522	APOBEC3H	100	95.455	Pan_paniscus
ENSG00000100298	APOBEC3H	99	51.381	ENSPPRG00000003941	-	93	50.543	Panthera_pardus
ENSG00000100298	APOBEC3H	92	35.260	ENSPPRG00000003675	-	88	34.682	Panthera_pardus
ENSG00000100298	APOBEC3H	99	51.381	ENSPTIG00000010283	-	93	50.543	Panthera_tigris_altaica
ENSG00000100298	APOBEC3H	100	95.455	ENSPTRG00000014390	APOBEC3H	100	95.455	Pan_troglodytes
ENSG00000100298	APOBEC3H	100	84.066	ENSPANG00000010774	APOBEC3H	99	83.660	Papio_anubis
ENSG00000100298	APOBEC3H	100	45.161	ENSPEMG00000000456	Apobec3	76	44.624	Peromyscus_maniculatus_bairdii
ENSG00000100298	APOBEC3H	100	88.525	ENSPPYG00000011834	-	87	88.525	Pongo_abelii
ENSG00000100298	APOBEC3H	98	42.135	ENSPCAG00000015655	-	99	41.111	Procavia_capensis
ENSG00000100298	APOBEC3H	70	37.008	ENSPVAG00000024267	-	93	37.008	Pteropus_vampyrus
ENSG00000100298	APOBEC3H	98	51.124	ENSPVAG00000009462	-	98	51.124	Pteropus_vampyrus
ENSG00000100298	APOBEC3H	70	37.008	ENSPVAG00000024161	-	93	37.008	Pteropus_vampyrus
ENSG00000100298	APOBEC3H	100	48.663	ENSRNOG00000016852	Apobec3	87	48.663	Rattus_norvegicus
ENSG00000100298	APOBEC3H	100	81.967	ENSRBIG00000029088	APOBEC3H	100	81.818	Rhinopithecus_bieti
ENSG00000100298	APOBEC3H	100	81.421	ENSRROG00000024699	APOBEC3H	100	81.000	Rhinopithecus_roxellana
ENSG00000100298	APOBEC3H	99	70.492	ENSSBOG00000030005	APOBEC3H	100	69.504	Saimiri_boliviensis_boliviensis
ENSG00000100298	APOBEC3H	99	50.556	ENSSSCG00000000091	APOBEC3B	83	50.556	Sus_scrofa
ENSG00000100298	APOBEC3H	95	50.000	ENSTBEG00000001532	-	98	50.000	Tupaia_belangeri
ENSG00000100298	APOBEC3H	100	51.099	ENSTTRG00000001266	-	100	51.099	Tursiops_truncatus
ENSG00000100298	APOBEC3H	99	47.872	ENSUAMG00000004427	-	83	47.872	Ursus_americanus
ENSG00000100298	APOBEC3H	99	50.829	ENSUMAG00000014435	-	91	50.829	Ursus_maritimus
ENSG00000100298	APOBEC3H	71	51.538	ENSVPAG00000011108	-	98	51.538	Vicugna_pacos

Gene Ontology

Go ID	Go_term	PubmedID	Evidence	Category
GO:0000932	P-body	22915799.	IDA	Component
GO:0003723	RNA binding	21873635.	IBA	Function
GO:0004126	cytidine deaminase activity	21873635.	IBA	Function
GO:0004126	cytidine deaminase activity	16571802.	IDA	Function
GO:0005515	protein binding	22915799.	IPI	Function
GO:0005634	nucleus	21873635.	IBA	Component
GO:0005634	nucleus	18779051.	IDA	Component
GO:0005737	cytoplasm	21873635.	IBA	Component
GO:0005737	cytoplasm	18779051.21835787.	IDA	Component
GO:0008270	zinc ion binding	-	IEA	Function
GO:0009972	cytidine deamination	-	IEA	Process
GO:0010529	negative regulation of transposition	18779051.20062055.	IDA	Process
GO:0010529	negative regulation of transposition	18827027.	IMP	Process
GO:0016554	cytidine to uridine editing	21873635.	IBA	Process
GO:0045087	innate immune response	-	IEA	Process
GO:0045869	negative regulation of single stranded viral RNA replication via double stranded DNA intermediate	18779051.21835787.	IDA	Process
GO:0048525	negative regulation of viral process	18827027.	IMP	Process
GO:0051607	defense response to virus	21835787.22457529.22915799.	IDA	Process
GO:0070383	DNA cytosine deamination	16571802.21835787.	IDA	Process
GO:0080111	DNA demethylation	21873635.	IBA	Process

Cancer associated literatures

PID	Title	Article	Time	Author	Doi
26459911	The eQTL-missense polymorphisms of APOBEC3H are associated with lung cancer risk in a Han Chinese population.	Sci Rep	2015 Oct 13	Zhu M	doi: 10.1038/srep14969.
27650891	The DNA cytosine deaminase APOBEC3H haplotype I likely contributes to breast and lung cancer mutagenesis.	Nat Commun	2016 Sep 21	Starrett GJ	doi: 10.1038/ncomms12918.

Differential Expression

Expression in 33 cancers

Mutations

Cancer	Chr	Position	Mutation Type	dbSNP	Protein-change	Allele Freq	RBD
BLCA	chr22	39101346	Missense_Mutation	novel	S87F	0.15
BLCA	chr22	39101347	Silent	rs773083408	S87S	0.15
BLCA	chr22	39101247	Missense_Mutation	novel	H54R	0.15
BLCA	chr22	39101384	Missense_Mutation	novel	D100N	0.38
CESC	chr22	39101351	Missense_Mutation	NA	A89S	0.11
CESC	chr22	39101915	Splice_Region	novel		0.23
COAD	chr22	39100296	Silent	rs539789572	A6A	0.17
COAD	chr22	39100304	Missense_Mutation	NA	F9S	0.36
COAD	chr22	39101294	Missense_Mutation	NA	E70K	0.5
COAD	chr22	39100386	Silent	novel	P36P	0.22
COAD	chr22	39101927	Missense_Mutation	novel	D143G	0.3
ESCA	chr22	39101270	Missense_Mutation	rs766612664	E62K	0.14
GBM	chr22	39103701	3'UTR	novel		0.06
GBM	chr22	39101286	Missense_Mutation	novel	G67E	0.42
GBM	chr22	39101960	Missense_Mutation	NA	P154L	0.41
HNSC	chr22	39101286	Missense_Mutation	novel	G67E	0.28
HNSC	chr22	39101500	Silent	rs775553421	F138F	0.21
LGG	chr22	39101960	Missense_Mutation	NA	P154L	0.79
LGG	chr22	39101433	Missense_Mutation	novel	C116Y	0.19	APOBEC_N
LIHC	chr22	39101457	Missense_Mutation	rs374311513	R124Q	0.45	APOBEC_N
LUAD	chr22	39102043	Splice_Site	rs368222781	X181_splice	0.55
LUAD	chr22	39101931	Frame_Shift_Ins	novel	*W145Lfs17**	0.35
LUAD	chr22	39101377	Missense_Mutation	NA	K97N	0.18
LUSC	chr22	39100307	Missense_Mutation	NA	R10L	0.39
LUSC	chr22	39100330	Missense_Mutation	novel	R18C	0.46
PAAD	chr22	39103872	3'UTR	novel		0.08
SKCM	chr22	39101334	Missense_Mutation	NA	S83N	0.35
SKCM	chr22	39102011	Missense_Mutation	NA	R171Q	0.16
SKCM	chr22	39101940	Missense_Mutation	NA	N147K	0.18
SKCM	chr22	39101396	Silent	NA	L104L	0.33
SKCM	chr22	39101332	Nonsense_Mutation	NA	W82*	0.36
SKCM	chr22	39101934	Nonsense_Mutation	novel	W145*	0.36
SKCM	chr22	39103703	3'UTR	novel		0.32
STAD	chr22	39100361	Missense_Mutation	NA	A28V	0.12
UCEC	chr22	39100411	Missense_Mutation	novel	G45C	0.21
UCEC	chr22	39100363	Missense_Mutation	novel	L29I	0.07
UCEC	chr22	39101936	Missense_Mutation	novel	E146G	0.3
UCEC	chr22	39100406	Missense_Mutation	rs769176395	T43M	0.09
UCEC	chr22	39102528	Missense_Mutation	rs552952015	A187V	0.41
UCEC	chr22	39103737	3'UTR	novel		0.26
UCEC	chr22	39100305	Silent	novel	F9F	0.15
UCEC	chr22	39102014	Missense_Mutation	novel	A172V	0.6
UCEC	chr22	39101270	Missense_Mutation	rs766612664	E62K	0.19
UCEC	chr22	39103858	3'UTR	novel		0.6
UCEC	chr22	39101961	Silent	rs147418182	P154P	0.36
UCEC	chr22	39102025	Missense_Mutation	NA	R176W	0.39
UCEC	chr22	39100307	Missense_Mutation	rs372088508	R10H	0.33
UCEC	chr22	39102030	Silent	novel	L177L	0.06
UCEC	chr22	39103806	3'UTR	novel		0.06
UCEC	chr22	39102022	Nonsense_Mutation	rs535832435	R175*	0.43

Copy Number Variations (CNVs)

Cancer	Type	Freq	Q-value
PCPG	DEL	0.3148	0.044123
THCA	DEL	0.1563	0.046486
THYM	DEL	0.0813	0.063154

Survival Analysis

Cancer	P-value	Q-value
THYM	0.0039	Kaplan-Meier Survival Analysis
KIRC	0.00031	Kaplan-Meier Survival Analysis
SARC	0.0051	Kaplan-Meier Survival Analysis
ACC	0.046	Kaplan-Meier Survival Analysis
HNSC	0.004	Kaplan-Meier Survival Analysis
SKCM	0.00011	Kaplan-Meier Survival Analysis
BRCA	0.019	Kaplan-Meier Survival Analysis
BLCA	0.0001	Kaplan-Meier Survival Analysis
CESC	0.00049	Kaplan-Meier Survival Analysis
LAML	0.0071	Kaplan-Meier Survival Analysis
UCEC	0.00074	Kaplan-Meier Survival Analysis
LIHC	0.034	Kaplan-Meier Survival Analysis
LGG	0.00095	Kaplan-Meier Survival Analysis
CHOL	0.031	Kaplan-Meier Survival Analysis
THCA	0.015	Kaplan-Meier Survival Analysis
LUAD	0.0033	Kaplan-Meier Survival Analysis
UVM	0.016	Kaplan-Meier Survival Analysis
OV	0.012	Kaplan-Meier Survival Analysis