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