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Table 2 Homology modelling results of proteins vary between MS-H and its field isolates

From: Preliminary comparative analysis of the genomes of selected field reisolates of the Mycoplasma synoviae vaccine strain MS-H reveals both stable and unstable mutations after passage in vivo

Gene locus-tag Percentage of residues modelled at > 90% confidence Protein product in MS-H Protein effect Model template library ID MS-H vs. isolates Secondary structure predictiona Protein length (amino acid) Mutational sensitivity b (potential functional/phenotypic effect)
α helix % β strand % Different structure
MSH_RS00965 99 GTP-binding protein Obg Non-conservative substitution c1udxA MS-H 26 26 Yes 424 Low
MS-H4, MS-H5 29 26
MSH_RS00965 99 GTP-binding protein Obg Conservative substitution c1udxA MS-H 26 26 No 424 Medium
101546-101731
MSH_RS01740 91 Peptide ABC transporter
ATP-binding protein
Frameshift c5ws4A MS-H 31 24 Yes 156 High
MS-H3, MS-H4-
101546-101731
68 7 796
MSH_RS01990 75 Cardiolipin synthetase Non-conservative Substitution c3hsiC MS-H 50 17 Yes 504 High
MS-H4 51 17
MSH_RS00995 0 Hypothetical protein Non-conservative substitution c2yu6A MS-H 65 8 No 398 NA
MS-H4 65 8
MSH_RS01480 0 Hypothetical protein Frameshift d1r5qa MS-H _ _ _ 166 NA
d1r8ja1 MS-H4 161
MSH_RS01480 0 Hypothetical protein Frameshift d1r5qa MS-H _ _ _ 166 NA
c3kblA MS-H5 56
MSH_RS01835 100 TatD family deoxyribonuclease Non-conservative substitution c3ipwA MS-H 47 16 No 268 Low
MS-H4 47 16
MSH_RS02805 100 S1 RNA-binding domain-containing protein Non-conservative substitution c2oceA MS-H 55 10 Yes 705 Low
MS-H4 56 10
MSH_RS01365 100 NAD-dependent glyceraldehyde
-3-phosphate dehydrogenase
Conservative substitution c3hq4R MS-H 27 31 Yes 334 Low
101546 27 32
MSH_RS02615 37 Hypothetical protein Conservative substitution c6dgvA MS-H 55 7 No 651 Medium
101546 55 7
MSH_RS02750 91 YbhB/YbcL family Raf kinase
inhibitor-like protein
Conservative substitution c2evvD MS-H 6 23 No 221 High
101546 6 23
MSH_RS02415 0 Hypothetical protein Non-conservative substitution c5il9A MS-H 22 38 _ 1575 NA
  101546 _ _
MSH_RS01430 16 Hypothetical protein Frameshift c4aq4A MS-H 36 12 Yes 797 Low
d1tdpa 101731 44 17 405
MSH_RS01990 75 Cardiolipin synthetase Conservative substitution c3hsiC MS-H 50 17 No 504 Low
101731 50 17
MSH_RS02470 92 DNA-directed RNA
polymerase subunit beta
Non-conservative substitution c3lu0C MS-H 33 25 No 1202 Low
101731 33 25
  1. a “Yes” indicates different secondary structure of respective protein between MS-H and its reisolate/s; “No” shows that MS-H and its reisolate/s have the same secondary structure of the respective protein; “_” indicates that only a domain of respective protein was modelled and as the result the percentage of α helix and β strand were not reliable
  2. b “High” indicates that respective mutation highly likely has functional/phenotypic effect; “Medium” shows that respective mutation moderately likely has functional/phenotypic effect; “Low” shows that respective mutation has low potential functional/phenotypic effect; “NA” indicates that position corresponding to respective mutation was not modelled