20170607 class lecture note
100,000 개의 단백질 structure 가 있다면 어떻게 나눌 수 있을까?
> 비슷한 이름의 단백질은 거의 비슷한 구조를 지닌다. 그러므로 (교수님은) 4000개 정도일 것이라고 생각한다.
> one ancester
단백질 구조는 type이다.
SCOP structure classification ~
Why do Korean students explain such as slow...? < Essay Topic
... Swissprot < UNIPROT < Interproscan (domain) < NCBI NR db ( NR : compacted data ... )
factors affecting protein..
1. rate of transcription of the gene.
2. efficiency of translation of mRNA into protein.
3. The rate of degradation of protein in the cell ( half-life ).
alpha - helix (first observed ), beta - sheet (second), random coil and turns (we don't know) , and another is almost same with Alpha and beta... so there isn't 3rd name..
Primary > Seconday > tertiary (3D, one single chain) > quaternary (interaction between different polypeptide unit .. )
N terminal (starting point), T terminal (end point)
sequence - structure relationship ( very important )...
<Domain> _ area, region ..
The most important unit of portein..
discrete portions of the porteins that fold independently from the rest of protein...
Determining the protein structure/ polypeptide sequence by :
1. x-ray crystallography
2. Nuclear magnetic resonance
3. Protein predicting programmes - computer based (Bioinformatics)
Relationship between structure and function ( Important ) "생긴대로 논다... .."
A little part of proteins ( sometimes ) one to two function.. but normally one function has one structure..
Marker > 작은 부분으로 단백질의 일부분을 바꿀 수 있는 것... ex) Cancer Marker
프로그램 왓슨 ( 셜록 홈즈의 조수 )
In function prediction, the structure is quite important..
Modifications of protein..
Glycosylation/ Phosphorylation/ Sulfation > 단백질을 수정하여 문제가 일어날 수도 있고, 이를 이용하기도 한다.
SDS > point means a group (maybe almost same proteins)
: sequence가 없을 경우 사용하는 방법
Mass spectrometry
ex ) MALDI-TOF : MALDI > method of ionization, TOF > a mass analyzer
어떤 단백질이 세포 내에 존재한다는 것을 genome 만으로 증망할 수 없다.
Ligand > anything having relationship with proteins.
Interaction Proteomics
> Protein chips : checking the interaction of proteins...
Target : somthing we'd like to catch
To catch target, we will use dye for signaling.. ex) GFP