Difference between revisions of "Part:BBa K2440007"

Latest revision as of 12:43, 30 October 2017

RNF8 3-UTR

This is the 3’prime untranslated region of RNF8 gene. It is the section of mRNA that immediately follows the translation termination codon and contains regulatory regions that post-transcriptionally influence gene expression. ¹.

Usage and Biology

RNF8 gene is a human gene which encodes an enzyme called E3 ubiquitin-protein ligase RNF8. ²

RNF8 plays an important role in the immune system and in the DNA repair process. ³

The RNF8 protein contains a RING finger motif and an FHA domain. It could interact with several class II ubiquitin-conjugating enzymes and participate in the ubiquitination reaction of certain nuclear proteins. ⁴

There are 3 DNA repair pathways by which RNF8 promotes the repairing of DNA damage: homologous recombinational repair (HRR), non-homologous end joining (NHEJ), and nucleotide excision repair (NER). ^4-6

The double-strand break in DNA could be repaired by either HRR and NHEJ. While the pyrimidine dimers, which are induced by UV, could be repaired by NER. ^5-7

The depletion of RNF8 protein causes cell growth inhibition and cell cycle arrest. ⁸

Sequence and Features

Assembly Compatibility:

10
INCOMPATIBLE WITH RFC[10]
Illegal EcoRI site found at 1435
Illegal XbaI site found at 3
Illegal PstI site found at 637
Illegal PstI site found at 2007
12
INCOMPATIBLE WITH RFC[12]
Illegal EcoRI site found at 1435
Illegal PstI site found at 637
Illegal PstI site found at 2007
21
INCOMPATIBLE WITH RFC[21]
Illegal EcoRI site found at 1435
Illegal BglII site found at 927
Illegal BglII site found at 1755
23
INCOMPATIBLE WITH RFC[23]
Illegal EcoRI site found at 1435
Illegal XbaI site found at 3
Illegal PstI site found at 637
Illegal PstI site found at 2007
25
INCOMPATIBLE WITH RFC[25]
Illegal EcoRI site found at 1435
Illegal XbaI site found at 3
Illegal PstI site found at 637
Illegal PstI site found at 2007
1000
INCOMPATIBLE WITH RFC[1000]
Illegal BsaI site found at 1116

Reference

[1] Mazumder B, Seshadri V, Fox PL (2003). "Translational control by the 3'-UTR: the ends specify the means". Trends Biochem. Sci. 28 (2): 91–8. PMID 12575997. DOI:10.1016/S0968-0004(03)00002-1

[2] Ishikawa K, Nagase T, Suyama M, Miyajima N, Tanaka A, Kotani H, Nomura N, Ohara O (Jun 1998). "Prediction of the coding sequences of unidentified human genes. X. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro". DNA Research. 5 (3): 169–76. PMID 9734811. DOI:10.1093/dnares/5.3.169

[3] Ramachandran S, Chahwan R, Nepal RM, Frieder D, Panier S, Roa S, Zaheen A, Durocher D, Scharff MD, Martin A (2010). "The RNF8/RNF168 ubiquitin ligase cascade facilitates class switch recombination". Proc Natl Acad. Sci. U.S.A. 107 (2): 809–14. PMC 2818930. PMID 20080757. DOI:10.1073/pnas.0913790107.

[4] Xia Y, Yang W, Fa M, Li X, Wang Y, Jiang Y, Zheng Y, Lee JH, Li J, Lu Z (Jun 2017).” RNF8 mediates histone H3 ubiquitylation and promotes glycolysis and tumorigenesis.” J Exp Med. 214(6):1843-1855. PMID: 28507061 PMCID: PMC5461008 DOI: 10.1084/jem.20170015

[5] Lu CS, Truong LN, Aslanian A, Shi LZ, Li Y, Hwang PY, Koh KH, Hunter T, Yates JR, Berns MW, Wu X (2012). "The RING finger protein RNF8 ubiquitinates Nbs1 to promote DNA double-strand break repair by homologous recombination". J Biol Chem. 287 (52): 43984–94. PMID: 23115235 PMCID: PMC3527981 DOI: 10.1074/jbc.M112.421545

[6] Feng L, Chen J (2012). "The E3 ligase RNF8 regulates KU80 removal and NHEJ repair".Nat Struct Mol Biol. 19(2):201-6. PMID: 22266820 PMCID: PMC3888515 DOI: 10.1038/nsmb.2211

[7] Marteijn JA, Bekker-Jensen S, Mailand N, Lans H, Schwertman P, Gourdin AM, Dantuma NP, Lukas J, Vermeulen W (2009). "Nucleotide excision repair-induced H2A ubiquitination is dependent on MDC1 and RNF8 and reveals a universal DNA damage response". J. Cell Biol. 186 (6): 835–47. PMID: 19797077 PMCID: PMC2753161 DOI: 10.1083/jcb.200902150

[8] Wang M, Chen X, Chen H, Zhang X, Li J, Gong H, Shiyan C, Yang F (Jul 2015). “RNF8 plays an important role in the radioresistance of human nasopharyngeal cancer cells in vitro.” Oncol Rep. 34(1):341-9. PMID: 25955491 DOI: 10.3892/or.2015.3958.

@@ Line 13: / Line 13: @@
 The RNF8 protein contains a RING finger motif and an FHA domain. It could interact with several class II ubiquitin-conjugating enzymes and participate in the ubiquitination reaction of certain nuclear proteins. <sup>4</sup>
-There are 3 DNA repair pathways by which RNF8 promotes the repairing of DNA damage: homologous recombinational repair (HRR), non-homologous end joining (NHEJ), and nucleotide excision repair (NER). <sup>456 </sup>
+There are 3 DNA repair pathways by which RNF8 promotes the repairing of DNA damage: homologous recombinational repair (HRR), non-homologous end joining (NHEJ), and nucleotide excision repair (NER). <sup>4-6 </sup>
-The double-strand break in DNA could be repaired by either HRR and NHEJ. While the pyrimidine dimers, which are induced by UV, could be repaired by NER. <sup>567 </sup>
+The double-strand break in DNA could be repaired by either HRR and NHEJ. While the pyrimidine dimers, which are induced by UV, could be repaired by NER. <sup>5-7 </sup>
 The depletion of RNF8 protein causes cell growth inhibition and cell cycle arrest. <sup>8 </sup>
@@ Line 29: / Line 29: @@
 <partinfo>BBa_K2440007 parameters</partinfo>
 <!-- -->
+===Reference===
+[1] Mazumder B, Seshadri V, Fox PL (2003). "Translational control by the 3'-UTR: the ends specify the means". Trends Biochem. Sci. 28 (2): 91–8. PMID 12575997. DOI:10.1016/S0968-0004(03)00002-1
+[2] Ishikawa K, Nagase T, Suyama M, Miyajima N, Tanaka A, Kotani H, Nomura N, Ohara O (Jun 1998). "Prediction of the coding sequences of unidentified human genes. X. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro". DNA Research. 5 (3): 169–76. PMID 9734811. DOI:10.1093/dnares/5.3.169
+[3] Ramachandran S, Chahwan R, Nepal RM, Frieder D, Panier S, Roa S, Zaheen A, Durocher D, Scharff MD, Martin A (2010). "The RNF8/RNF168 ubiquitin ligase cascade facilitates class switch recombination". Proc Natl Acad. Sci. U.S.A. 107 (2): 809–14. PMC 2818930. PMID 20080757. DOI:10.1073/pnas.0913790107.
+[4] Xia Y, Yang W, Fa M, Li X, Wang Y, Jiang Y, Zheng Y, Lee JH, Li J, Lu Z (Jun 2017).” RNF8 mediates histone H3 ubiquitylation and promotes glycolysis and tumorigenesis.” J Exp Med. 214(6):1843-1855. PMID: 28507061 PMCID: PMC5461008 DOI: 10.1084/jem.20170015
+[5] Lu CS, Truong LN, Aslanian A, Shi LZ, Li Y, Hwang PY, Koh KH, Hunter T, Yates JR, Berns MW, Wu X (2012). "The RING finger protein RNF8 ubiquitinates Nbs1 to promote DNA double-strand break repair by homologous recombination". J Biol Chem. 287 (52): 43984–94. PMID: 23115235 PMCID: PMC3527981 DOI: 10.1074/jbc.M112.421545
+[6] Feng L, Chen J (2012). "The E3 ligase RNF8 regulates KU80 removal and NHEJ repair".Nat Struct Mol Biol. 19(2):201-6. PMID: 22266820 PMCID: PMC3888515 DOI: 10.1038/nsmb.2211
+[7] Marteijn JA, Bekker-Jensen S, Mailand N, Lans H, Schwertman P, Gourdin AM, Dantuma NP, Lukas J, Vermeulen W (2009). "Nucleotide excision repair-induced H2A ubiquitination is dependent on MDC1 and RNF8 and reveals a universal DNA damage response". J. Cell Biol. 186 (6): 835–47. PMID: 19797077 PMCID: PMC2753161 DOI: 10.1083/jcb.200902150
+[8] Wang M, Chen X, Chen H, Zhang X, Li J, Gong H, Shiyan C, Yang F (Jul 2015). “RNF8 plays an important role in the radioresistance of human nasopharyngeal cancer cells in vitro.” Oncol Rep. 34(1):341-9. PMID: 25955491 DOI: 10.3892/or.2015.3958.