Fig. 5
Comparison of the active site of SsRidA with its homolog from E. coli. Superposition of SsRidA active site with active sites from 1QU9 (grey) and 2UYK (wheat) showing the geometry of 7 invariant residues. Active site residues contributed from two adjacent chains, Asn89 and Arg103 from chain A and Tyr17, Gly31, Asn57, Pro112 and Glu118 from chain B are clearly visible in this structure. SsRidA is represented as cartoon structure and follows the same color coding seen in Figs. 1A,B. Active site invariant residues (numbering based on SsRidA) are represented as sticks and the active site residues of SsRidA follows the same color coding of respective chains. Root mean square deviation (RMSD) values between SsRidA (Chain A) and its E. coli homologs 1QU9 (Chain A) and 2UYK (Chain A) are 0.96 and 0.92 respectively for 124 aligned residues. SsRidA cartoon and active site residue stick representations were created using PyMol molecular graphics program, version 2.5.5; Schrödinger LLC (https://www.pymol.org/)41 with ray tracing set at mode 2. RMSD values were calculated using RCSB pairwise structural alignment tool.
