Biology:NBPF16
 Generic protein structure example |
Neuroblastoma Breakpoint Family, Member 16, also known as NBPF16, is a protein which in humans is encoded by the NBPF16 gene.[1] The gene is 18762 bp long, with mRNA that is 3837 bp long. The gene is located on chromosome 1q21.1. Its sub-cellular location is predicted to be in the nucleus and cytoplasm.[2] It contains what is known as the NBPF repeat, which is a two exon stretch of sequence that is characteristic of all 21 members of the NBPF gene family. The repeat is considered the ancestral exons, and the NBPF family has been linked to primate evolution.[3]
Function
The function of NBPF16 is not fully understood. It is a member of the NBPF family of proteins, which have been linked to possible roles in oncogenesis and tumor suppressor genes.[3]
Protein
The protein is composed of 670 amino acids. The gene contains five domains of unknown function, called DUF1220. DUF1220 domains are found in all members of the NBPF gene family, although the number differs between each member. Repetitive structure with high intergenic and intragenic sequence conservation, both in coding and noncoding regions. Makes it possible for homologous recombination to occur easily between different alleles. The repetitiveness of it, and the other members of the NBPF gene family is thought to have arisen from segmental duplications on chromosome 1.[3]
Predicted properties
Properties of NBPF16 that were predicted using Bioinformatics tools:
- Molecular Weight: 76 kD[4]
- Isoelectric point: 4.43[5]
- Post-translational modification: None predicted.
- No predicted Signal Peptide or signal peptide cleavage site.[6]
- No interacting proteins or binding partners.
Expression
There is little to no expression data available for the gene, but most indications point to it being ubiquitously expressed throughout the body.
Homology
Orthologs
There exists no great orthologs outside of primates. These orthologs were gathered from BLAT.[7] and BLAST searches[8]
| Species | Organism common name | Sequence identity | Sequence similarity | Length (AAs) | |
| Homo sapiens | Human | 100% | 100% | 670 | |
| Pan troglodytes | Chimpanzee | 90% | 92% | 509 | |
| Macaca mulatta | Rhesus macaque | 57% | 68% | 620 | |
| Gallus gallus | Chicken | 36% | 54% | 1394 | |
| Rattus norvegicus | Norway rat | 34% | 67% | 2324 | |
| Bos taurus | Cattle | 34% | 50% | 816 | |
| Xenopus laevis | African clawed frog | 33% | 52% | 728 | |
| Mus musculus | House mouse | 32% | 55% | 2446 | |
Paralogs
Due to there being 21 other members of the NBPF gene family, there are 21 paralogs of NBPF16. They all show high conservation and repetitive structures.
References
- ↑ "Entrez Gene: NBPF16 neuroblastoma breakpoint family, member 16". https://www.ncbi.nlm.nih.gov/sites/entrez?Db=gene&Cmd=retrieve&dopt=full_report&list_uids=728936&log$=databasead&logdbfrom=protein. Retrieved 13 May 2009.
- ↑ "SDSC Biology Workbench". San Diego Supercomputer Center. http://workbench.sdsc.edu/. Retrieved 13 May 2009.
- ↑ 3.0 3.1 3.2 "A novel gene family NBPF: intricate structure generated by gene duplications during primate evolution". Molecular Biology and Evolution 22 (11): 2265–2274. August 2005. doi:10.1093/molbev/msi222. PMID 16079250.
- ↑ "Methods and algorithms for statistical analysis of protein sequences". Proceedings of the National Academy of Sciences of the United States of America 89 (6): 2002–6. March 1992. doi:10.1073/pnas.89.6.2002. PMID 1549558.
- ↑ "PI Program (Isoelectric Point Prediction)". Archived from the original on 26 October 2008. https://web.archive.org/web/20081026062821/http://www.embl-heidelberg.de/cgi/pi-wrapper.pl.
- ↑ "Improved prediction of signal peptides: SignalP 3.0". Journal of Molecular Biology 340 (4): 783–95. July 2004. doi:10.1016/j.jmb.2004.05.028. PMID 15223320.
- ↑ "BLAT Search Genome". http://genome.ucsc.edu/cgi-bin/hgBlat?command=start&org=Human&db=hg18&hgsid=122786349. Retrieved 13 May 2009.
- ↑ "BLAST". http://blast.ncbi.nlm.nih.gov/Blast.cgi. Retrieved 13 May 2009.
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