- NBPF16
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Neuroblastoma Breakpoint Family, Member 16 Identifiers Symbols NBPF16; AG3 External IDs OMIM: 614005 HomoloGene: 41035 GeneCards: NBPF16 Gene Gene Ontology Cellular component • cytoplasm Sources: Amigo / QuickGO Orthologs Species Human Mouse Entrez 728936 83679 Ensembl ENSG00000203827 ENSMUSG00000038170 UniProt Q5SXJ2 Q80YT7 RefSeq (mRNA) NM_001102663 NM_001039376 RefSeq (protein) NP_001096133 NP_001034465 Location (UCSC) Chr 1:
148.74 – 148.76 MbChr 3:
97.49 – 97.69 MbPubMed search [1] [2] 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 strech 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]
Contents
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". http://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.
- ^ a b c Vandepoele K, Van Roy N, Staes K, Speleman F, van Roy F (August 2005). "A novel gene family NBPF: intricate structure generated by gene duplications during primate evolution". Molecular Biology and Evolution 22 (11): 2265–2274. doi:10.1093/molbev/msi222. PMID 16079250.
- ^ Brendel V, Bucher P, Nourbakhsh IR, Blaisdell BE, Karlin S (March 1992). "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. doi:10.1073/pnas.89.6.2002. PMC 48584. PMID 1549558. http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pmcentrez&artid=48584.
- ^ "PI Program (Isoelectric Point Prediction)". http://www.embl-heidelberg.de/cgi/pi-wrapper.pl.
- ^ Bendtsen JD, Nielsen H, von Heijne G, Brunak S (July 2004). "Improved prediction of signal peptides: SignalP 3.0". Journal of Molecular Biology 340 (4): 783–95. 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.
Categories:- Human proteins
- Chromosome 1 gene stubs
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