Amino acid sequence

[AlexanderOsaka]

Hello, my current PhD research INVOLVES a detailed Proteomic study of a class of detoxication enzymes - GSTs. I'm running out of time to meet the deadline but I need to carry out Amino acid sequence of this protein. The feeders i'm getting on the cost is outrageous and i believe there are people in this scientific community who has probably done protein sequence before and can give me an advice on how to get a cheaper cost or maybe a fellowship.

Edited March 15, 2016 by AlexanderOsaka

[BabcockHall]

Do you have to perform the study by sequencing proteins, or for your purposes is sequencing the DNA just as good? IIUC the latter is far cheaper and more automated.

[hypervalent_iodine]

Cheaper cost or a fellowship? I'm not sure I follow that request. Are you asking for advice or a job?

[AlexanderOsaka]

Cheaper cost or a fellowship? I'm not sure I follow that request. Are you asking for advice or a job?

I'm actually looking at the possibilities of getting the work done either by getting a cheaper cost or better a fellowship to carry out the sequence in a lab that has the facility.

Do you have to perform the study by sequencing proteins, or for your purposes is sequencing the DNA just as good? IIUC the latter is far cheaper and more automated.

The ultimate goal of the research is to design a more potent inhibitor of water snail GSTs. Sequencing the GST protein will allow me to know the particular class of the enzyme present in my sample. Your suggestions are welcomed actually. Thanks

[CharonY]

I would recommend that you ask around mass spec facilities that do de novo sequencing, that is likely the cheapest option. Other methods such as Edmann tend to be more laborious. There are also commercial labs that are probably more expensive. But of course, it depends on what you consider expensive.

 

Edit: the cheapest ways i probably to enter a full collaboration on the project. The likelihood depends on how interesting and far the project is along the way.

Edited March 16, 2016 by CharonY

[AlexanderOsaka]

I would recommend that you ask around mass spec facilities that do de novo sequencing, that is likely the cheapest option. Other methods such as Edmann tend to be more laborious. There are also commercial labs that are probably more expensive. But of course, it depends on what you consider expensive.

 

Edit: the cheapest ways i probably to enter a full collaboration on the project. The likelihood depends on how interesting and far the project is along the way.

Dear CharonY,

Thanks for your input. Actually i don't mind going into collaboration. My research is highly interesting because it involves tackling a neglected tropical disease which is only second to malaria in terms of its economic impact. I have only had collaboration within my local environment in my previous researches (Undergraduate and Masters)- from which Four articles were published by renown publishers like elsevier. I am on the look out for collaborators that are based outside my local environment especially oversees, It's getting somewhat frustrating in that regard.

Any advice on how to do it better?

Edited March 18, 2016 by AlexanderOsaka

[BabcockHall]

Can you obtain the DNA for each enzyme?

[CharonY]

Dear CharonY,

Thanks for your input. Actually i don't mind going into collaboration. My research is highly interesting because it involves tackling a neglected tropical disease which is only second to malaria in terms of its economic impact. I have only had collaboration within my local environment in my previous researches (Undergraduate and Masters)- from which Four articles were published by renown publishers like elsevier. I am on the look out for collaborators that are based outside my local environment especially oversees, It's getting somewhat frustrating in that regard.

Any advice on how to do it better?

 

Well, typically researchers tend to collaborate on the PI level, as usually there is significant time and cost investment involved. Are you a grad student currently? If so, ask your adviser to poke around, there are many labs with MS facilities that one could ask.

[foxy john]

Do you REALLY need to sequence this protein or just get an N-terminal sequence done - very different proposition?

An N-term sequence will give you enough info to get a DNA primer done and to search the databases. It is far easier and faster to sequence DNA than protein. Don't forget that to do a full protein sequence you will need a large amount of material.