S-Stem Scholar Kathleen Corfman's Blog

 Hello! As a reminder my protein is UniProt: Q9BZP6 CHIA. This week, I searched my protein on Interactome, and String. Interactome only gave 3 different proteins that CHIA has interactions with: TBC1D5, COX20, and RBBP8NL. String, on the other hand, showed that CHIA interacts with 10 different proteins: CTCF, MDFIC, NAGK, RENBP, HEXA, HEXB, CHIT1, IL13, CHID1, and SLC32A1. And this is just for Homo sapiens; there may be even more if I didn't narrow the species search down. As you also probably noticed, none of the proteins on either site matched one another; each site had totally different proteins shown. I did investigate whether or not any of the proteins were just going by a different name on each site, and they were all unique proteins. There did not seem to be any obvious indicators whether or not any of these proteins were predicted or experimentally validated. In addition, none of the proteins on String seem to interact with the ones mentioned on Interactome, and vise versa....

 This week we did an I-TASSER for Deinococcus Radiodurans. These are screenshots of my results. I thought it would get a bit messy having the full lengths of the Predicted Secondary Structures, Predicted Solvent Accessibility, and the Top 10 Threading Templates Used on the blog, but I do have the full screenshots in a word file!

9/16/2020 My protein is   UniProt: Q9BZP6 CHIA (1x) or acidic mammalian chitinase. This week we did research on NCBI. For our proteins, we searched the conserved domains , searched the nucleotide database, did a BLAST, and checked out primers. I got a bit confused with my protein. I tried all sorts of search variants from just “Q9BZP6” to “CHIA” to “acidic mammalian chitinase.” Due to relevance, I included the summaries for “Q9BZP6” and “CHIA”. Search 1 said there was nucleotide results, but when I clicked on them it took me straight to the protein page. It allowed a protein BLAST, but not an option to make primers. Search 2 is a search on the CHIA gene itself. I included the conserved domain for search 2.  The BLAST I included is for search 2 , as well as the primers.   Search 1 (Q9BZP6)   This is the protein itself. These results have no discrepancies with the results given by UniProt.  Locus: CHIA_HUMAN  Size: 476 aa  Accession: Q9...

9/9/20 I began researching the functions and structure of my protein: UniProt:Q9BZP6 CHIA (1x) . Protein: acidic mammalian chitinase Gene: CHIA. Structure Sequence Length : 476 Mass : 52,271 Da Function A pretty compressed summary of this protein’s several functions is: degrading chitin and chitotriose, Th2 immune response, IL-13 inflammation response, chemokine production, protecting lung epithelial cells against apoptosis, and phosphorylation of AKT1. In addition, it may contribute to the defense against nematodes, fungi, and other pathogens. This protein’s function in inflammatory response and apoptosis prevention is inhibited by allosamidin, which suggests that this proteins functions depend on carbohydrate binding. Interactions Interacts with EGFR, a gene that instructs in making the epidermal growth factor receptor. It also has binary interactions with four proteins: TBCD5_HUMAN, COX20_HUMAN, RB8NL_HUMAN, AND EGFR_HUMAN. Diseases Involved Lung cancer ...

Hello, all 😙 My protein this semester is CH—CH-CHIA! Just kidding... sort of.  It’s called UniProtKB-Q9BZP6 (CHIA_HUMAN) or (in English)  acidic mammalian chitinase, and the gene is CHIA.  It’s sequence length is 476. The mass is 52,271 Da. It has several functions it is involved in. Though I have listed all of the functions UniProt provides, I compressed each one quite a lot ☺️  -Degrades chitin and chitriose. -Th2 immune response. -IL-13 inflammation response. -Chemokine production. -Protects lung epithelial cells from apoptosis. -Phosphorylation pf AKT1. -May help in defense against nematodes, fungi, and other (unlisted) pathogens. This is a little summary of what I have so far. More information to come!