User:Rebeca Rodriguez/Notebook/Chem 471/2015/10/28: Difference between revisions

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|style="background-color: #EEE"|[[Image:BDLlogo_notext_lr.png|128px]]<span style="font-size:22px;"> Biomaterials Design Lab</span>
|style="background-color: #EEE"|[[Image:owwnotebook_icon.png|128px]]<span style="font-size:22px;"> Project name</span>
|style="background-color: #F2F2F2" align="center"|<html><img src="/images/9/94/Report.png" border="0" /></html> [[{{#sub:{{FULLPAGENAME}}|0|-11}}|Main project page]]<br />{{#if:{{#lnpreventry:{{FULLPAGENAME}}}}|<html><img src="/images/c/c3/Resultset_previous.png" border="0" /></html>[[{{#lnpreventry:{{FULLPAGENAME}}}}{{!}}Previous entry]]<html>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</html>}}{{#if:{{#lnnextentry:{{FULLPAGENAME}}}}|[[{{#lnnextentry:{{FULLPAGENAME}}}}{{!}}Next entry]]<html><img src="/images/5/5c/Resultset_next.png" border="0" /></html>}}
|style="background-color: #F2F2F2" align="center"|<html><img src="/images/9/94/Report.png" border="0" /></html> [[{{#sub:{{FULLPAGENAME}}|0|-11}}|Main project page]]<br />{{#if:{{#lnpreventry:{{FULLPAGENAME}}}}|<html><img src="/images/c/c3/Resultset_previous.png" border="0" /></html>[[{{#lnpreventry:{{FULLPAGENAME}}}}{{!}}Previous entry]]<html>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</html>}}{{#if:{{#lnnextentry:{{FULLPAGENAME}}}}|[[{{#lnnextentry:{{FULLPAGENAME}}}}{{!}}Next entry]]<html><img src="/images/5/5c/Resultset_next.png" border="0" /></html>}}
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==Bradford Analysis of Protease Degradation==


The general procedure today was taken from [[User:Matt_Hartings/Notebook/AU_Biomaterials_Design_Lab/2015/10/06#Bradford_Analysis_of_Protease_Degradation|Dr. Hartings's notebook]].


All samples will be incubated in eppendorf tubes, which will be placed in the 37°C water bath on the shaker.
Samples should all contain the same concentration of materials.


You should make samples for measurements at 10 minutes, 15 minutes, 30 minutes, 45 minutes, 1 hr, 1.5 hr, 2 hr. (Note, this is for the first time you do this. As you get better, I will expect you to get more measurements done).


==Objective==
# Protease Prep
Learn how to maintain an OpenWetWare Notebook.
## Place the 1mL of Tris/CaCl2 buffer in the pre-measured proteinase k '''(0.00093 g)''' sample and record the concentration '''(3.21·10<sup>-5</sup> M, second dilution: 3.21·10<sup>-6</sup> M)'''
 
# Sample Prep
==Description==
## To a fiber sample tube (that  has been centrifuge for 10 minutes at 300 RPM and had the supernatant removed) add the appropriate amounts of buffer and proteinase k '''(3.1μL Proteinase K, 996.9 μL Buffer)'''.
# Add experimental record here. Include what, how, and why...
### The total volume should be 1mL
### The final proteinase K concentration should be 10nM
### Vortex the sample to disperse the fibers
# Blank Prep (you will have one blank to match each sample)
## To a clean eppendorf tube add the appropriate amounts of buffer and proteinase k '''(3.1μL Proteinase K, 996.9 μL Buffer)'''.
### The total volume should be 1mL
### The final proteinase k concentration should be 10nM
# Incubate Sample and Blanks
## Place the tubes (for both the Blanks and Samples) in the shaker with the 37°C water bath
# Measurement
## Remove the tubes (the sample and a corresponding blank) from the water bath at the appropriate time
## For the case of a sample with fibers, centrifuge the sample for 1 min to pull any fibers to the bottom of the tube
## To a plastic cuvette add
### 600 uL of pre-mixed Bradford dilution
### 750 uL of sample
### 1650 uL of buffer
## Record the UV-Vis spectrum from 400-800 nm
# Using the Bradford standardization curve and your data from the 0 fiber sample, determine the concentration of released protein in your solution.


==Data==
==Data==
* Add data and results here...
==Notes==
This area is for any observations or conclusions that you would like to note.
Use categories like tags. Change the "Course" category to the one corresponding to your course. The "Miscellaneous" tag can be used for particular experiments, as instructed by your professor. Please be sure to change or delete this tag as required so that the categories remain well organized.
[[Category:Course]]
[[Category:Miscellaneous]]


The spectrum for the overall blank with no protease or fiber sample was subtracted from all other spectra (blank and sample spectra). The spectra were further corrected by subtracting the absorbance at the isosbestic point. This data will be redone because of the data does not lead us to any sure conclusions.


[[Category:Course]]
[[Image:Bradford_Spectra_Proteinase_K_10nM_Oct_28.png|1000px]]
[[Category:Miscellaneous]]


The figure above shows the Bradford spectra for AuNP fiber solutions degraded by 10 nM proteinase K.


[[Image:Calibration_Curve_Oct_28.png|1000px]]. 


The figure above plots the absorbance at 600 nm against the time elapsed. 


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Revision as of 16:18, 23 November 2015

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Bradford Analysis of Protease Degradation

The general procedure today was taken from Dr. Hartings's notebook.

All samples will be incubated in eppendorf tubes, which will be placed in the 37°C water bath on the shaker. Samples should all contain the same concentration of materials.

You should make samples for measurements at 10 minutes, 15 minutes, 30 minutes, 45 minutes, 1 hr, 1.5 hr, 2 hr. (Note, this is for the first time you do this. As you get better, I will expect you to get more measurements done).

  1. Protease Prep
    1. Place the 1mL of Tris/CaCl2 buffer in the pre-measured proteinase k (0.00093 g) sample and record the concentration (3.21·10-5 M, second dilution: 3.21·10-6 M)
  2. Sample Prep
    1. To a fiber sample tube (that has been centrifuge for 10 minutes at 300 RPM and had the supernatant removed) add the appropriate amounts of buffer and proteinase k (3.1μL Proteinase K, 996.9 μL Buffer).
      1. The total volume should be 1mL
      2. The final proteinase K concentration should be 10nM
      3. Vortex the sample to disperse the fibers
  3. Blank Prep (you will have one blank to match each sample)
    1. To a clean eppendorf tube add the appropriate amounts of buffer and proteinase k (3.1μL Proteinase K, 996.9 μL Buffer).
      1. The total volume should be 1mL
      2. The final proteinase k concentration should be 10nM
  4. Incubate Sample and Blanks
    1. Place the tubes (for both the Blanks and Samples) in the shaker with the 37°C water bath
  5. Measurement
    1. Remove the tubes (the sample and a corresponding blank) from the water bath at the appropriate time
    2. For the case of a sample with fibers, centrifuge the sample for 1 min to pull any fibers to the bottom of the tube
    3. To a plastic cuvette add
      1. 600 uL of pre-mixed Bradford dilution
      2. 750 uL of sample
      3. 1650 uL of buffer
    4. Record the UV-Vis spectrum from 400-800 nm
  6. Using the Bradford standardization curve and your data from the 0 fiber sample, determine the concentration of released protein in your solution.

Data

The spectrum for the overall blank with no protease or fiber sample was subtracted from all other spectra (blank and sample spectra). The spectra were further corrected by subtracting the absorbance at the isosbestic point. This data will be redone because of the data does not lead us to any sure conclusions.

The figure above shows the Bradford spectra for AuNP fiber solutions degraded by 10 nM proteinase K.

.

The figure above plots the absorbance at 600 nm against the time elapsed.


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