EXAFS Fitting for Ni sorb to bacterial biomass and Mn oxides
Dear all So far, this forum has been very helpful for me to learn and understand how to fit EXAFS spectra of Mn oxides, thanks everyone for your suggestions. Recently, I am working with Ni k-edge EXAFS and I have kind of similar question as Abhijeet Gaur (Ifeffit Digest, Vol 133, Issue 1), in my case, I am trying to fit EXAFS spectra of Ni(II) sorbed to bacterial biomass and Mn oxides (attached). I followed the Matt suggestions by replacing Ni in place of Mn after running Atoms (birnessite model) to generate feff.inp. I have two questions regarding this: 1) Ni(II) can be surface sorbed and or incorporated into Mn oxide structures. But, I cannot generate paths for this particular r-space. What and how can I edit the feff calculations? (attached). 2) Ni(II) sorp to bacterial biomass via some organic ligands (humic or carboxylic acids): The first shell mainly associates with Ni-O distances, there might be also Ni-C distances in later shells. I am wondering, how can I input the C in atoms or feff calculations? I would be happy to receive your comments. Regards Sathish
While I don't have much experience with biological samples in exafs, if you need to generate Ni - C paths, use the virtual path function in the new Dartemis which is very easy to use. Chris ******************************************** Dr. Christopher Patridge Assistant Professor of Chemistry Math and Natural Science Dept BFAC 009 D'Youville College 320 Porter Ave., Buffalo, NY 14150 716-829-8096 Sent from my iPhone
On Mar 18, 2014, at 4:13 AM, Sathish Mayanna
wrote: Dear all
So far, this forum has been very helpful for me to learn and understand how to fit EXAFS spectra of Mn oxides, thanks everyone for your suggestions.
Recently, I am working with Ni k-edge EXAFS and I have kind of similar question as Abhijeet Gaur (Ifeffit Digest, Vol 133, Issue 1), in my case, I am trying to fit EXAFS spectra of Ni(II) sorbed to bacterial biomass and Mn oxides (attached).
I followed the Matt suggestions by replacing Ni in place of Mn after running Atoms (birnessite model) to generate feff.inp.
I have two questions regarding this:
1) Ni(II) can be surface sorbed and or incorporated into Mn oxide structures. But, I cannot generate paths for this particular r-space. What and how can I edit the feff calculations? (attached).
2) Ni(II) sorp to bacterial biomass via some organic ligands (humic or carboxylic acids): The first shell mainly associates with Ni-O distances, there might be also Ni-C distances in later shells. I am wondering, how can I input the C in atoms or feff calculations?
I would be happy to receive your comments.
Regards Sathish
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participants (2)
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Chris Patridge
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Sathish Mayanna