APOBEC3B

APOBEC3B
Dostupne strukture
PDB	Pretraga ortologa: PDBe RCSB
Spisak PDB ID kodova
	5CQD, 5CQH, 5CQI, 5CQK, 2NBQ
Identifikatori
Aliasi	APOBEC3B
Vanjski ID-jevi	OMIM: 607110 MGI: 1933111 HomoloGene: 105420 GeneCards: APOBEC3B
Lokacija gena (čovjek)
Hrom.	Hromosom 22 (čovjek)
Kraj	38,992,804 bp
Lokacija gena (miš)
Hrom.	Hromosom 15 (miš)
Kraj	79,800,107 bp
Obrazac RNK ekspresije
	Više referentnih podataka o ekspresiji
Ontologija gena
Molekularna funkcija	• hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines; • vezivanje iona cinka; • catalytic activity; • hydrolase activity; • vezivanje iona metala; • deoxycytidine deaminase activity; • vezivanje sa RNK; • cytidine deaminase activity;
Ćelijska komponenta	• jedro; • citoplazma;
Biološki proces	• negative regulation of transposition; • Urođeni imunski sistem; • immune system process; • defense response to virus; • cytidine deamination; • cytidine to uridine editing; • DNA demethylation;
	Izvori:Amigo / QuickGO
Ortolozi
	9582
	80287
	ENSG00000179750
	ENSMUSG00000009585
	Q9UH17
	Q99J72
	NM_004900; NM_001270411
	NM_001160415; NM_030255; NM_001347041
	NP_001257340; NP_004891
	NP_001153887; NP_001333970; NP_084531
	Wikipodaci
Pogledaj/uredi – čovjek	Pogledaj/uredi – miš

Vjerovatni DNK dC->dU–editirajući enzim APOBEC-3B jest protein koji je kod ljudi kodiran genom APOBEC3B sa hromosoma 22.^[5]^[6]^[7]

Aminokiselinska sekvenca[uredi | uredi izvor]

Dužina polipeptidnog lanca je 382 aminokiseline, a molekulska težina 45.924 Da.^[8]

C: Cistein

D: Asparaginska kiselina

E: Glutaminska kiselina

F: Fenilalanin

G: Glicin

H: Histidin

I: Izoleucin

K: Lizin

L: Leucin

M: Metionin

N: Asparagin

P: Prolin

Q: Glutamin

R: Arginin

S: Serin

T: Treonin

V: Valin

W: Triptofan

Y: Tirozin

10	20	30	40	50
MNPQIRNPME	RMYRDTFYDN	FENEPILYGR	SYTWLCYEVK	IKRGRSNLLW
DTGVFRGQVY	FKPQYHAEMC	FLSWFCGNQL	PAYKCFQITW	FVSWTPCPDC
VAKLAEFLSE	HPNVTLTISA	ARLYYYWERD	YRRALCRLSQ	AGARVTIMDY
EEFAYCWENF	VYNEGQQFMP	WYKFDENYAF	LHRTLKEILR	YLMDPDTFTF
NFNNDPLVLR	RRQTYLCYEV	ERLDNGTWVL	MDQHMGFLCN	EAKNLLCGFY
GRHAELRFLD	LVPSLQLDPA	QIYRVTWFIS	WSPCFSWGCA	GEVRAFLQEN
THVRLRIFAA	RIYDYDPLYK	EALQMLRDAG	AQVSIMTYDE	FEYCWDTFVY
RQGCPFQPWD	GLEEHSQALS	GRLRAILQNQ	GN

Funkcija[uredi | uredi izvor]

Ovaj gen je član genske porodice citidin-deaminaza, To je jedan od sedam srodnih gena ili pseudogena pronađenih u klasteru, za koji se smatra da je rezultat duplikacije gena na hromosomu 22. Članovi klastera kodiraju proteine koji su strukturno i funkcionalno povezani sa citidin-deaminazom koja editira C u U u RNK APOBEC1. Smatra se da proteini mogu biti enzimi koji editiraju RNK i da imaju ulogu u rastu ili kontroli ćelijskog ciklusa. Za ovaj gen, zajedno s APOBEC3A, posljednjih je godina pronađeno da je povezan s mutagenezom nekoliko karcinoma. Proteini APOBEC3A i APOBEC3B mogu uzrokovati specifične mutacije u genomima raka koje se nazivaju APOBEC-mutageneza i nekoliko faktora uključujući genetički i okolišni utjecaj na ovaj mutacijski obrazac među pacijentima posebno kod raka mokraćne bešike i dojke.^[7] Ovaj gen je također pretjerano eksprimiran u multiplom mijelomu, što može pomoći njegovom nastanku.^[9]

Reference[uredi | uredi izvor]

^ ^a ^b ^c GRCh38: Ensembl release 89: ENSG00000179750 - Ensembl, maj 2017
^ ^a ^b ^c GRCm38: Ensembl release 89: ENSMUSG00000009585 - Ensembl, maj 2017
^ "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
^ "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
^ Jarmuz A, Chester A, Bayliss J, Gisbourne J, Dunham I, Scott J, Navaratnam N (Feb 2002). "An anthropoid-specific locus of orphan C to U RNA-editing enzymes on chromosome 22". Genomics. 79 (3): 285–96. doi:10.1006/geno.2002.6718. PMID 11863358.
^ Madsen P, Anant S, Rasmussen HH, Gromov P, Vorum H, Dumanski JP, Tommerup N, Collins JE, Wright CL, Dunham I, MacGinnitie AJ, Davidson NO, Celis JE (Sep 1999). "Psoriasis upregulated phorbolin-1 shares structural but not functional similarity to the mRNA-editing protein apobec-1". J Invest Dermatol. 113 (2): 162–9. doi:10.1046/j.1523-1747.1999.00682.x. PMID 10469298.
^ ^a ^b "Entrez Gene: APOBEC3B apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3B".
^ "UniProt, Q9UH17" (jezik: engleski). Pristupljeno 04-02-2022. Provjerite vrijednost datuma u parametru: |access-date= (pomoć)
^ Yamazaki, Hiroyuki; Shirakawa, Kotaro; Matsumoto, Tadahiko; Hirabayashi, Shigeki; Murakawa, Yasuhiro; Kobayashi, Masayuki; Sarca, Anamaria Daniela; Kazuma, Yasuhiro; Matsui, Hiroyuki; Maruyama, Wataru; Fukuda, Hirofumi; Shirakawa, Ryutaro; Shindo, Keisuke; Ri, Masaki; Iida, Shinsuke; Takaori-Kondo, Akifumi (9. 5. 2019). "Endogenous APOBEC3B Overexpression Constitutively Generates DNA Substitutions and Deletions in Myeloma Cells". Scientific Reports. 9 (1): 7122. doi:10.1038/s41598-019-43575-y. PMC 6509214. PMID 31073151.

Dopunska literatura[uredi | uredi izvor]

Wedekind JE, Dance GS, Sowden MP, Smith HC (2003). "Messenger RNA editing in mammals: new members of the APOBEC family seeking roles in the family business". Trends Genet. 19 (4): 207–16. doi:10.1016/S0168-9525(03)00054-4. PMID 12683974.
Dunham I, Shimizu N, Roe BA, et al. (1999). "The DNA sequence of human chromosome 22". Nature. 402 (6761): 489–95. doi:10.1038/990031. PMID 10591208.
Strausberg RL, Feingold EA, Grouse LH, et al. (2003). "Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences". Proc. Natl. Acad. Sci. U.S.A. 99 (26): 16899–903. doi:10.1073/pnas.242603899. PMC 139241. PMID 12477932.
Mariani R, Chen D, Schröfelbauer B, et al. (2003). "Species-specific exclusion of APOBEC3G from HIV-1 virions by Vif". Cell. 114 (1): 21–31. doi:10.1016/S0092-8674(03)00515-4. PMID 12859895.
Sawyer SL, Emerman M, Malik HS (2006). "Ancient Adaptive Evolution of the Primate Antiviral DNA-Editing Enzyme APOBEC3G". PLOS Biol. 2 (9): E275. doi:10.1371/journal.pbio.0020275. PMC 479043. PMID 15269786.
Yu Q, Chen D, König R, et al. (2005). "APOBEC3B and APOBEC3C are potent inhibitors of simian immunodeficiency virus replication". J. Biol. Chem. 279 (51): 53379–86. doi:10.1074/jbc.M408802200. PMID 15466872.
Gerhard DS, Wagner L, Feingold EA, et al. (2004). "The Status, Quality, and Expansion of the NIH Full-Length cDNA Project: The Mammalian Gene Collection (MGC)". Genome Res. 14 (10B): 2121–7. doi:10.1101/gr.2596504. PMC 528928. PMID 15489334.
Rose KM, Marin M, Kozak SL, Kabat D (2005). "Regulated production and anti-HIV type 1 activities of cytidine deaminases APOBEC3B, 3F, and 3G". AIDS Res. Hum. Retroviruses. 21 (7): 611–9. doi:10.1089/aid.2005.21.611. PMID 16060832.
Bogerd HP, Wiegand HL, Doehle BP, et al. (2006). "APOBEC3A and APOBEC3B are potent inhibitors of LTR-retrotransposon function in human cells". Nucleic Acids Res. 34 (1): 89–95. doi:10.1093/nar/gkj416. PMC 1326241. PMID 16407327.
Stenglein MD, Harris RS (2006). "APOBEC3B and APOBEC3F inhibit L1 retrotransposition by a DNA deamination-independent mechanism". J. Biol. Chem. 281 (25): 16837–41. doi:10.1074/jbc.M602367200. PMID 16648136.
Hakata Y, Landau NR (2007). "Reversed functional organization of mouse and human APOBEC3 cytidine deaminase domains". J. Biol. Chem. 281 (48): 36624–31. doi:10.1074/jbc.M604980200. PMID 17020885.
Kidd JM, Newman TL, Tuzun E, et al. (2007). "Population Stratification of a Common APOBEC Gene Deletion Polymorphism". PLOS Genet. 3 (4): e63. doi:10.1371/journal.pgen.0030063. PMC 1853121. PMID 17447845.
An APOBEC cytidine deaminase mutagenesis pattern is widespread in human cancers

Steven A Roberts, Michael S Lawrence, Leszek J Klimczak, Sara A Grimm, David Fargo, Petar Stojanov, Adam Kiezun, Gregory V Kryukov, Scott L Carter, Gordon Saksena, Shawn Harris, Ruchir R Shah, Michael A Resnick, Gad Getz & Dmitry A Gordenin

Candace D Middlebrooks, A Rouf Banday, Konichi Matsuda, et al. Association of germline variants in the APOBEC3 region with cancer risk and enrichment with APOBEC-signature mutations in tumors Exit Disclaimer. Nature Genetics 2016.

Vanjski linkovi[uredi | uredi izvor]

Lokacija ljudskog genoma APOBEC3B i stranica sa detaljima o genu APOBEC3B u UCSC Genome Browseru.

[refGRCh38Ensembl-1] GRCh38: Ensembl release 89: ENSG00000179750 - Ensembl, maj 2017

[refGRCm38Ensembl-2] GRCm38: Ensembl release 89: ENSMUSG00000009585 - Ensembl, maj 2017

[3] "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.

[4] "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.

[pmid11863358-5] Jarmuz A, Chester A, Bayliss J, Gisbourne J, Dunham I, Scott J, Navaratnam N (Feb 2002). "An anthropoid-specific locus of orphan C to U RNA-editing enzymes on chromosome 22". Genomics. 79 (3): 285–96. doi:10.1006/geno.2002.6718. PMID 11863358.

[pmid10469298-6] Madsen P, Anant S, Rasmussen HH, Gromov P, Vorum H, Dumanski JP, Tommerup N, Collins JE, Wright CL, Dunham I, MacGinnitie AJ, Davidson NO, Celis JE (Sep 1999). "Psoriasis upregulated phorbolin-1 shares structural but not functional similarity to the mRNA-editing protein apobec-1". J Invest Dermatol. 113 (2): 162–9. doi:10.1046/j.1523-1747.1999.00682.x. PMID 10469298.

[entrez-7] "Entrez Gene: APOBEC3B apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3B".

[UniProt-8] "UniProt, Q9UH17" (jezik: engleski). Pristupljeno 04-02-2022. Provjerite vrijednost datuma u parametru: |access-date= (pomoć)

[9] Yamazaki, Hiroyuki; Shirakawa, Kotaro; Matsumoto, Tadahiko; Hirabayashi, Shigeki; Murakawa, Yasuhiro; Kobayashi, Masayuki; Sarca, Anamaria Daniela; Kazuma, Yasuhiro; Matsui, Hiroyuki; Maruyama, Wataru; Fukuda, Hirofumi; Shirakawa, Ryutaro; Shindo, Keisuke; Ri, Masaki; Iida, Shinsuke; Takaori-Kondo, Akifumi (9. 5. 2019). "Endogenous APOBEC3B Overexpression Constitutively Generates DNA Substitutions and Deletions in Myeloma Cells". Scientific Reports. 9 (1): 7122. doi:10.1038/s41598-019-43575-y. PMC 6509214. PMID 31073151.

[1]

[2]

[3]

[4]

[5]

[6]

[7]

[8]

[9]

p r u Enzimi
Teme	Aktivno mjesto Alosterna regulacija Difuzijski limitirani enzim EC broj Enzimska kataliza Inhibicija enzimskih reakcija Kinetika enzima Koenzim Kooperativnost Lineweaver–Burkov dijagram Michaelis–Mentenova kinetika Mjesto vezanja Spisak enzima
Tipovi	EC1 Oksidoreduktaze/spisak EC2 Transferaze/spisak EC3 Hidrolaze/spisak EC4 Lijaze/spisak EC5 Izomeraze/spisak EC6 Ligaze/spisak