What does it mean by PC in this article?

In summary, the paper discusses the use of PCASSO (Protein C-Alpha Secondary Structure Output) as an efficient and accurate method for assigning protein secondary structure elements (SSEs). PCASSO uses a pseudo-center (PC) approach to assign SSEs based on optimized geometric criteria, and only requires Cα atoms as input. The minimum cut-off distance for this algorithm is 6, but there is no specified maximum cut-off distance as it is likely an accuracy function rather than a specific value. The exact meaning of "cut-off" in this algorithm may vary depending on the specific aspect of PCASSO being discussed.
  • #1

user366312

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https://pubmed.ncbi.nlm.nih.gov/24995959/

What does it mean by PC in this article?

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  • #2
From the paper, PC is pseudo-center, @user366312.

Specifically, they are referring to the application: "SABA uses a similar approach to P-SEA but instead of directly computing the Cα coordinates SABA shifts the coordinates of the ith Cα atom to its pseudo-center (PC) position (defined as the center-of-geometry between Cα(i) and Cα(i+1)) and then assigns SSEs based on an optimized set of PC-dependent geometric criteria. This is thought to better represent the location of the backbone N-H/C=O atoms involved in secondary structure formation."

The application in the paper, PCASSO (Protein C-Alpha Secondary Structure Output), is an alternative approach to SABA (and others) that claims to be fast and efficient in assigning protein SSEs that only requires Cα atoms as input.
 
  • #3
I see that the minimum cut-off distance is 6.
What is the maximum cut-off distance?
 
  • #4
user366312 said:
I see that the minimum cut-off distance is 6.
What is the maximum cut-off distance?
Are you referring to the kth residue as 'distance'? If so, can't see a maximum, it is probably an accuracy function rather than a specific value.
 
  • #5
What does it actually mean by a "cut-off" in this PCASSO algorithm?
 
  • #6
user366312 said:
What does it actually mean by a "cut-off" in this PCASSO algorithm?
Can you note the section of the paper where you're reading this, @user366312, because I am not sure what aspect of PCASSO you are referring to?
 

1. What is the definition of "PC" in this article?

In this article, "PC" refers to a personal computer, which is a small electronic device used for various computing tasks such as word processing, internet browsing, and gaming.

2. How is "PC" different from a laptop or tablet?

Unlike laptops and tablets, which are portable and designed for on-the-go use, a PC is typically a stationary device that requires a separate monitor, keyboard, and mouse. PCs also tend to have more powerful processors and storage capabilities compared to laptops and tablets.

3. Is "PC" a generic term or does it refer to a specific brand or model?

"PC" is a generic term that can refer to any personal computer regardless of the brand or model. Some popular PC brands include Dell, HP, and Lenovo.

4. Can a PC run on different operating systems?

Yes, a PC can run on various operating systems such as Windows, MacOS, and Linux. The operating system is the software that manages the hardware and allows users to interact with the computer.

5. Are there any limitations to what a PC can do?

While PCs are versatile and can perform a wide range of tasks, they do have limitations. These limitations can include processing speed, storage capacity, and the ability to run certain software or programs. However, these limitations can often be overcome by upgrading hardware or using specialized software.

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