Unlock instant, AI-driven research and patent intelligence for your innovation.

Method and system for determining protein similarity and similar protein

A determination method and similarity technology, applied in the field of protein similarity and similar protein determination, can solve the problems of computational complexity and high cost, and achieve the effect of reducing the computational complexity, solving the high cost and reducing the complexity.

Inactive Publication Date: 2019-08-23
THE FIRST AFFILIATED HOSPITAL OF ZHENGZHOU UNIV
View PDF4 Cites 2 Cited by
  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

[0005] The purpose of the present invention is to provide a method and system for determining protein similarity, which is used to solve the problems of complex calculation and high cost due to the need to obtain protein structure when determining protein similarity in the prior art; at the same time, the present invention The purpose is also to provide a method and system for determining similar proteins, which are used to solve the problems of complex calculation and high cost in determining similar proteins in the prior art

Method used

the structure of the environmentally friendly knitted fabric provided by the present invention; figure 2 Flow chart of the yarn wrapping machine for environmentally friendly knitted fabrics and storage devices; image 3 Is the parameter map of the yarn covering machine
View more

Image

Smart Image Click on the blue labels to locate them in the text.
Viewing Examples
Smart Image
  • Method and system for determining protein similarity and similar protein
  • Method and system for determining protein similarity and similar protein
  • Method and system for determining protein similarity and similar protein

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0033] This embodiment provides a method for determining protein similarity, through protein spatial structure similarity, total atom number similarity, amino acid number similarity, amino acid type similarity, carbon atom number similarity, nitrogen atom number similarity, The similarity of the number of oxygen atoms, the similarity of P position, the similarity of S position and the path of α-carbon atoms at different elevation angles determine the similarity of proteins, thereby improving the accuracy of protein similarity calculation results.

[0034] The process flow of the protein similarity determination method provided by this embodiment is as follows: figure 1 shown, including the following steps:

[0035] (1) Establish a coordinate system, calculate the Mahalanobis distance between each atom in the two proteins and the origin, and layer the proteins according to the calculated Mahalanobis distance.

[0036] Unify the Markov coordinates into spatial coordinates with ...

Embodiment 2

[0094] This embodiment provides a method for determining similar proteins, comprising the following steps:

[0095] (1) Obtain protein codes and download PDB files through the PDB database, search their amino acid sequences through NCBI, and obtain protein sequences and secondary structure diagrams through secondary database searches;

[0096] (2) Perform BLASTP (Basic Local Alignment Search Tool) search on the obtained amino acid sequence to find proteins with the same amino acid sequence as the protein, and download the PDB files of these proteins;

[0097] (3) Screen a protein with the same function and the same domain as the target protein as a reference protein;

[0098] (4) Using the protein similarity calculation method provided in Method Example 1 to calculate the similarity between the target protein and each reference protein

[0099] (5) The protein with the highest similarity with the target protein is used as the similar protein of the target protein.

[0100] T...

the structure of the environmentally friendly knitted fabric provided by the present invention; figure 2 Flow chart of the yarn wrapping machine for environmentally friendly knitted fabrics and storage devices; image 3 Is the parameter map of the yarn covering machine
Login to View More

PUM

No PUM Login to View More

Abstract

The invention provides a method and a system for determining protein similarity and a similar protein. The method for determining the protein similarity comprises the following steps of calculating spatial structure similarity, total atom number similarity, amino acid number similarity, amino acid kind similarity, carbon atom number similarity, nitrogen atom number similarity, oxygen atom number similarity, phosphor element position similarity and sulfur element position similarity of the two proteins, and calculating the total similarity of the two proteins according to the similarity; calculating alpha-carbon atom path similarity of the two proteins according to the alpha-carbon atom paths of the two proteins in a preset elevation angle; and calculating the similarity of the two proteinsaccording to the total similarity and the alpha-carbon atom path similarity of the two proteins. The method and the system can reduce calculation complexity and settles a problem of relatively high cost.

Description

technical field [0001] The invention belongs to the technical field of protein similarity determination, and in particular relates to a protein similarity and a method and system for determining similar proteins. Background technique [0002] The occurrence and development of cancer is a multi-factor, multi-stage, and multi-step process, in which a large number of molecules participate and form a complex regulatory network. Identify key molecules and determine cancer high-risk early warning, early diagnosis and Biomarkers for effective treatment are one of the hotspots in cancer research. Among them, using bioinformatics methods to study new genes is an important research direction in the field of biomedicine. [0003] When using bioinformatics methods to study novel genes, protein similarity research is one of the important research topics. At present, the protein similarity determination methods mainly include: the similarity analysis method of three-dimensional protein ...

Claims

the structure of the environmentally friendly knitted fabric provided by the present invention; figure 2 Flow chart of the yarn wrapping machine for environmentally friendly knitted fabrics and storage devices; image 3 Is the parameter map of the yarn covering machine
Login to View More

Application Information

Patent Timeline
no application Login to View More
IPC IPC(8): G16B40/00G16B50/30
CPCG16B40/00G16B50/30
Inventor 刘春阳张建华金雯雯李颖越轩梦辉孙晓茜汪士杰
Owner THE FIRST AFFILIATED HOSPITAL OF ZHENGZHOU UNIV