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Author Topic: nt_ids for residues i+1 and i-1  (Read 71 times)

Offline brinda.vallat

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nt_ids for residues i+1 and i-1
« on: February 18, 2021, 03:09:04 pm »
Dear Xiangjun,

Sometimes we are interested in looking at parameters of residues i+1 and i-1, for a given residue 'i' in the JSON output. If mmCIF files are used for the calculation, this information is straightforward. However, when PDB files are used, this is not always easy, especially if there are insertion codes. 

Would it be possible to identify the nt_ids of residues i+1 and i-1 connected by the backbone? This could be included in the "nts" list.

Thank you,
Brinda

Offline xiangjun

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Re: nt_ids for residues i+1 and i-1
« Reply #1 on: February 19, 2021, 11:01:07 am »
Hi Brinda,

Thanks for your request for a new feature in DSSR. Without funding support, I am not able to devote time/effort to new features to DSSR Basic other than bug fixes. Further development and user support are thus being committed to DSSR Pro version only.

Best regards,

Xiang-Jun
 
« Last Edit: February 19, 2021, 12:10:23 pm by xiangjun »
Dr. Xiang-Jun Lu [律祥俊]
Email: xiangjun@x3dna.org
Homepage: http://x3dna.org/
Forum: http://forum.x3dna.org/

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* DSSR has superseded the 3DNA v2.4 suite

Offline brinda.vallat

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Re: nt_ids for residues i+1 and i-1
« Reply #2 on: February 24, 2021, 11:47:56 am »
Thank you, Xiangjun.

We are trying to get the Pro version.

Offline xiangjun

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Re: nt_ids for residues i+1 and i-1
« Reply #3 on: February 24, 2021, 11:57:13 am »
Hi Brinda,

Thanks! Please let me know once you get the DSSR Pro Academic license. We will follow up from there.

I am positive that DSSR Pro users will feel that the software and quality service is worth the price.


Best regards,

Xiang-Jun
« Last Edit: February 24, 2021, 07:43:30 pm by xiangjun »
Dr. Xiang-Jun Lu [律祥俊]
Email: xiangjun@x3dna.org
Homepage: http://x3dna.org/
Forum: http://forum.x3dna.org/

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* Original Poster, please provide a summary
* DSSR has superseded the 3DNA v2.4 suite

 

Created and maintained by Dr. Xiang-Jun Lu [律祥俊] (xiangjun@x3dna.org)
The Bussemaker Laboratory at the Department of Biological Sciences, Columbia University.