Fig. 4
The crystallographic tertiary structure of putative GABA permeases (CsgabP, aka amino-acid permease [BAT1]) from Citrus sinensis using AlphaFold. (A and B) AlphaFold2-based predicted three-dimensional (3D) structure model and its associated mesh surface of CsgabP-1 (XP_006468761.1) and CsgabP-2 (XP_006468762.1), respectively. The tertiary structures of CsgabPs were predicted using the AlphaFold241,42 model based on ColabFold43 using the multiple sequence alignment (MSA) mode of “mmseqs2_uniref_env” of five cycles and recycle early stop tolerance of 0.75. The tertiary structures were generated using the Neurosnap platform for computational biology tools (https://neurosnap.ai/service/AlphaFold2, accessed on October, 9th, 2024) and visualized with the UCSF-Chimera package. Protein chains are colored according to the rainbow color spectrum, from blue (N-terminus) to red (C-terminus). (C and D) Predicted local distance difference test (pLDDT), (E and F) Multiple sequence alignment (MSA) sequence Coverage, and (G and H) Predicted aligned error.
