Additional file 5. Atomic coordinates of 3D structural models of all four TMTCs with ligands (divalent metal ion and dolichyl-phosphate-mannose. The file AF5-2020-10-3Dmodel-TMTCs.zip provides the atomic coordinates for the 3D structural models of the four human TMTCs generated with template structures 5ezm and 5f15.

Additional file 3. HHPred outputs when searching TMTCs against Pfam or PDB structures. The compressed library file AF3-2020-06-HHPred-TMTCs.zip contains the outputs when running the four human TMTC sequences as input of HHPred against PDB sequences and against Pfam domains (as of 23rd of June 2020).

Additional file 2. Positions of TM regions and the DUF1736 segment in TMTC sequences. The file AF2-2020-06-TMs-TMTCs.xlsx provides the sequence positions of 11 TM regions (maximum consensus region from 5 TM predictors DAS-tmfilter [43, 44], HMMTOP [45, 46], PHOBIUS [47, 48], TMHMM [49, 50] and TOPPRED2 [51, 52]) in various animal TMTC sequences (the same sequences used in the alignment of Fig. 1) as well as the sequence segments that correspond to the DUF1736 region. We also indicate the approximate core of the hydrophobic region in EL4/DUF1736 that gives rise to false-positive TM predictions but actually represents a helix in the ER lumen parallel to the ER membrane (column “helical hydrophobic region”) if the TM predictors detect any. To emphasize, ‘exact boundaries’ of TM regions are difficult to derive with sequence-analytic methods; a flexibility of up to a few residues on either side should be considered as only the hydrophobic core of the TM is accurately predicted.

Additional file 1. The grand alignment of TMTCs. The compressed library file AF1-2020-10-grand-aln-TMTCs.zip provides the alignment shown in Fig. 1 in the “.aln” and “.jvp” formats.

Additional file 5. Atomic coordinates of 3D structural models of all four TMTCs with ligands (divalent metal ion and dolichyl-phosphate-mannose. The file AF5-2020-10-3Dmodel-TMTCs.zip provides the atomic coordinates for the 3D structural models of the four human TMTCs generated with template structures 5ezm and 5f15.

Additional file 3. HHPred outputs when searching TMTCs against Pfam or PDB structures. The compressed library file AF3-2020-06-HHPred-TMTCs.zip contains the outputs when running the four human TMTC sequences as input of HHPred against PDB sequences and against Pfam domains (as of 23rd of June 2020).

Additional file 2. Positions of TM regions and the DUF1736 segment in TMTC sequences. The file AF2-2020-06-TMs-TMTCs.xlsx provides the sequence positions of 11 TM regions (maximum consensus region from 5 TM predictors DAS-tmfilter [43, 44], HMMTOP [45, 46], PHOBIUS [47, 48], TMHMM [49, 50] and TOPPRED2 [51, 52]) in various animal TMTC sequences (the same sequences used in the alignment of Fig. 1) as well as the sequence segments that correspond to the DUF1736 region. We also indicate the approximate core of the hydrophobic region in EL4/DUF1736 that gives rise to false-positive TM predictions but actually represents a helix in the ER lumen parallel to the ER membrane (column “helical hydrophobic region”) if the TM predictors detect any. To emphasize, ‘exact boundaries’ of TM regions are difficult to derive with sequence-analytic methods; a flexibility of up to a few residues on either side should be considered as only the hydrophobic core of the TM is accurately predicted.

Additional file 1. The grand alignment of TMTCs. The compressed library file AF1-2020-10-grand-aln-TMTCs.zip provides the alignment shown in Fig. 1 in the “.aln” and “.jvp” formats.

Additional file 14 : Table S13. Pseudomonas aeruginosa expression matrix. Genes are found in rows, while samples are found in columns.

Additional file 14 : Table S13. Pseudomonas aeruginosa expression matrix. Genes are found in rows, while samples are found in columns.