biostudies-literatureGuo ZNational Natural Science Foundation of ChinaNational Key Research and Development Program of Chinabtae064https://www.ebi.ac.uk/biostudies/studies/S-EPMC10924749biostudies-literatureUnknown40(3)<h4>Motivation</h4>Protein structure comparison is pivotal for deriving homological relationships, elucidating protein functions, and understanding evolutionary developments. The burgeoning field of in-silico protein structure prediction now yields billions of models with near-experimental accuracy, necessitating sophisticated tools for discerning structural similarities among proteins, particularly when sequence similarity is limited.<h4>Results</h4>In this article, we have developed the align distance matrix with scale (ADAMS) pipeline, which synergizes the distance matrix alignment method with the scale-invariant feature transform algorithm, streamlining protein structure comparison on a proteomic scale. Utilizing a computer vision-centric strategy for contrasting disparate distance matBioinformatics (Oxford, England)Utilizing the scale-invariant feature transform algorithm to align distance matrices facilitates systematic protein structure comparison.PMC109247492017YFA0102900316714443187135231861143042317300522019YFA050840131991190Guo ZOu GWang YfalseUtilizing the scale-invariant feature transform algorithm to align distance matrices facilitates systematic protein structure comparison.<h4>Motivation</h4>Protein structure comparison is pivotal for deriving homological relationships, elucidating protein functions, and understanding evolutionary developments. The burgeoning field of in-silico protein structure prediction now yields billions of models with near-experimental accuracy, necessitating sophisticated tools for discerning structural similarities among proteins, particularly when sequence similarity is limited.<h4>Results</h4>In this article, we have developed the align distance matrix with scale (ADAMS) pipeline, which synergizes the distance matrix alignment method with the scale-invariant feature transform algorithm, streamlining protein structure comparison on a proteomic scale. Utilizing a computer vision-centric strategy for contrasting disparate distance mat2024-01-01T00:00:00Z2024 Mar2025-04-04T12:58:45.101Z2025-04-04T12:58:45.101ZS-EPMC109247493831877710.1093/bioinformatics/btae064