Отчет студента Макарова Александра группы П3 за первый блок первого семестра курса биоинформатики

1.	full name of the protein: HEMN_ECOLI coproporphyrinogen III oxidase, SAM and NAD(P)H dependent, oxygen-independent

2.	short name: Hemn_Ecoli

3.	locus: hemN

4.	gene name: b38 67 

5.	P:\Home\Students\Ogion\Term1\Practice2\HEMN_ECOLI.fasta

6.	nuber of aa in Henm_Ecoli: 457 AA

7.	AA average frequencies in Hemn_Ecoli. HEMN_ECOLI.xls workbook AA_freq

АA              	Number  Average 
                        of AA	frequency
A Аланин               	36	0,079
C Цистеин             	9	0,020
D Аспаргиновая кислота	34	0,074
E Глутаминовая кислота	27	0,059
F Фенилаланин         	26	0,057
G Глицин              	24	0,053
H Гистидин            	12	0,026
I Изолейцин           	29	0,063
K Лизин               	21	0,046
L Лейцин              	50	0,109
M Метионин            	8	0,018
N Аспаргин            	17	0,037
P Пролин              	17	0,037
Q Глутамин            	36	0,079
R Аргинин             	30	0,066
S Серин               	18	0,039
T Треонин             	18	0,039
V Валин               	22	0,048
W Триптофан           	4	0,009
Y Тирозин             	19	0,042
Total number af aa in Hemn_Ecoli: 457

8.	Molecular weight of Hemn_Ecoli
On the workbook MW(HEMN_ECOLI.xls) there is a following tab, created using full AAstructure
of hemN and mw values of each AA:

AA	MW of   Number 
        each AA	of each AA	
A	89,09	36	
C	121,15	9	
D	133,1	34	
E	147,13	27	
F	165,19	26	
G	75,07	24	
H	155,16	12	
I	131,17	29	
K	146,19	21	
L	131,17	50	
M	149,21	8	
N	132,12	17	
P	115,13	17	
Q	146,15	36	
R	174,21	30	
S	105,09	18	
T	119,12	18	
V	117,16	22	
W	204,22	4	
Y	181,2	19	
Summ weight of all AA in the protein:			
60944,07 g/mole
(counted as a sum of product terms of number of each aa in hemn and its mw
- IT SI NOT A FINAL WEIGHT OF MY PROYEIN, ONLY A SUM OF WEIGHTS OF IT'S AA)		
Total number of aa in protein:		MW of water:	
457 AA      	                        18	g/mole
MW of Hemn_Ecoli :			
52736,07 g/mole			
(counted as diminution of total wieght of AA in the protein and weight of water 
driven out of polimerisation 457 aa) 

9.	Estimated ratios of hydrophobic and hydrophilic aa in the protein, full proteome of Ecoli
and in bacteria transport proteins TC.2A. Hemn_ECOLI.xls workbook HPhob "Mixed tab" and TAB 2.

                     Hemn_Ecoli E.Coli TC.2A
Total hydrophilic aa 0,427	0,373	0,0931
Total hydrophobic aa 0,394	0,411	0,6862

Ratio of number of hydrophilic aa to number of hydrophobic in Hemn_Ecoli:	
1,083
Ratio of number of hydrophilic aa to number of hydrophobic in Ecoli proteome:
0,908
Ratio of number of hydrophilic aa to number of hydrophobic in bacteria transport proteins TC.2A
0,136
AA was estimated as hydrophilic or hydrophobic according the results of comparison
of three different methods. See also report for practice4.

10.	MEAN CHARGE OF HEMN ECOLI WITHIN DIFFERENT VALUES OF pH. HEMN_ECOLI, workbook MEAN CHARGE
                       pH=1      pH=7     pH=8
Charge of the protein	62.94	-8,73	-13,03

11.	Comparison of average frequencies of AA in current protein HEMN_Ecoli with same 
values for full proteome(workbook Comparison). Histogram shows us that difference
doesn't go higher than 3% and doesn't give more than 1.5-fold increase/decrease 
in frecuences for each particular AA.