Difference between revisions of "Claudia's Assignment"

From GcatWiki
Jump to: navigation, search
(Introduction)
Line 126: Line 126:
 
[[Image:Pic18.png]]<br>
 
[[Image:Pic18.png]]<br>
 
[[Image:Pic19.png]]<br>
 
[[Image:Pic19.png]]<br>
 
[http://img.jgi.doe.gov/cgi-bin/geba/main.cgi?section=GeneDetail&page=geneDetail&gene_oid=644033168 AAA+ family ATPase 644033168]<br>
 
A BLAST using megablast produced no results other than our own species.<br>
 
A BLAST using blastn produced the following results:<br>
 
[[Image:Pic20.png]]<br>
 
[[Image:Pic21.png]]<br>
 
[[Image:Pic22.png]]<br>
 
[[Image:Pic23.png]]<br>
 

Revision as of 03:10, 1 October 2009

Introduction

From the background information on our species, Halomicrobium mukohataei, we know that our organism is not only a halophile, or salt-loving, but also that the organism in fact requires a high salinity environment to survive. This trait is unique and compelling because of the harsh environment and the many pumps and mechanisms that must be present for an living organism to survive. However, our organism is not the only one to have such adaptations. There are a number of halophile species as well as a number of salt-tolerant organisms, including a number of bacteria and a few yeasts.
Originally, I wanted to look into the genes that encoded adaptations to the high-salinity environment, specifically ion (cation) pumps. Of the proteins with known functions, our organism appears to encode 22 different proteins functioning as ion or ion-dependent pumps. I wanted to investigate these pumps, and their roles within the organism's metabolic pathways.

Cation Pumps

The following is a list of the cation pumps and cation-influenced structures encoded in our organism's genome:

Na+/proline symporter 644032116
A BLAST (megablast) of the gene encoding this ion pump produced the following results:
Picture 5.png

Kef-type K+ ransport system, predicted NAD-binding component 644032129
A BLAST using megablast produced no results other than our own species.
A BLAST (blastn) of the gene encoding this ion pump produced the following results:
Picture 6.png

Ca2+/Na+ antiporter 644032240
A BLAST using megablast produced no results other than our own species.
A BLAST using blastn produced the following results:
Picture 7.png

Mn2+/Fe2_ transporter, NRAMP family 644032307
A BLAST using megablast produced the following results:
Picture 8.png

H(+)-transporting ATP synthase, vacuolar type, subunit D ( EC:3.6.3.14 ) 644032373
A BLAST using megablast produced the following results:
Picture 10.png
A BLAST using blastn produced the following results:
Picture 11.png

archaeal/vacuolar-type H+-ATPase subunit B ( EC:3.6.3.14 ) 644032378
A BLAST using megablast produced the following results:
Picture 12.png
A BLAST using blastn produced the following results:
Picture 13.png

archaeal/vacuolar-type H+-ATPase subunit F ( EC:3.6.3.14 ) 644032380
A BLAST using megablast produced no results other than our own species.
A BLAST using blastn produced the following results:
Picture 14.png

archaeal/vacuolar-type H+-ATPase subunit E ( EC:3.6.3.14 ) 644032382
A BLAST using megablast produced no results other than our own species.
A BLAST using blastn produced the following results:
Picture 15.png

archaeal/vacuolar-type H+-ATPase subunit I ( EC:3.6.3.14 ) 644032384
A BLAST using megablast produced the following results:
Picture 16.png
A BLAST using blastn produced the following results:
Picture 17.png

K+ transport system, NAD-binding component 644032472
A BLAST using megablast produced no results other than our own species.
A BLAST using blast n produced the following results:
Picture 18.png

NAD+ synthetase ( EC:6.3.5.1 ) 644032488
A BLAST using megablast produced no results other than our own species.
A BLAST using blastn produced the following results:
Picture 19.png

NH(3)-dependent NAD(+) synthetase (EC 6.3.1.5) (IMGterm) 644032494
A BLAST using megablast produced the following results:
Picture 20.png
Picture 22.png
Picture 21.png
A BLAST using blastn produced the following results:
Picture 24.png

ABC-type Mn2+/Zn2+ transport system, permease component 644032648
A BLAST using megablast produced no results other than our own species.
A BLAST using blast n produced the following results:
File:Picture 27.png

K+ transport system, NAD-binding component 644032689
A BLAST using megablast produced the following results:
Picture 28.png
Picture 29.png
Trk active potassium channel
Potassium channel protein
A BLAST using blastn produced the following results:
Picture 30.png

NADH:ubiquinone oxidoreductase subunit 5 (chain L)/multisubunit Na+/H+ antiporter, MnhA subunit ( EC:1.6.5.3 ) 644032725
A BLAST using megablast produced no results other than our own species.
A BLAST using blastn produced the following results:
Pic3.png
Pic1.png
Pic2.png

K+ transport system, membrane component 644032854
A BLAST using megablast produced no results other than our own species.
A BLAST using blastn produced the following results:
Pic4.png
Pic5.png

NhaP-type Na+(K+)/H+ antiporter 644032916
A BLAST using megablast produced the following results:
Pic6.png
Pic7.png
A BLAST using blastn produced the following results:
Pic8.png
Pic9.png

AAA+ family ATPase 644032920
A BLAST using megablast produced the following results:
Pic10.png
Pic11.png
A BLAST using blastn produced the following results:
Pic12.png
Pic13.png

ABC-type Fe3+ transport system, periplasmic component 644033032
A BLAST using megablast produced no results other than our own species.
A BLAST using blastn produced the following results:
Pic14.png
Pic15.png

ABC-type Mn2+/Zn2+ transport system, permease component 644033110
A BLAST using megablast produced the following results:
Pic16.png
Pic17.png
A BLAST using blastn produced the following results:
Pic18.png
Pic19.png