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. 2017 Jul 6;9(6):1624–1636. doi: 10.1093/gbe/evx119

Table 1.

Sequence and Structure Similarity Profile of Protein Sequences Comprising Each Enzymatic Activity Assigned to the Bona Fide (+) Data Set of Intragenomic Analogous Enzymes

EC Gene UniprotKB PDB Cluster Gene UniprotKB PDB Cluster Identity (%) Similarity (%) Score TM-Score RMSD
1.3.1.20 DHDH Q9UQ10 2O48a 1 AKR1C2 P52895 2HDJ 2 16.3 28.0 40.0 0.34186 6.09
DHDH Q9UQ10 2O48a 1 AKR1C1 Q04828 1J96 2 16.0 27.5 33.0 0.33888 5.89
AKR1C2 P52895 2HDJ 2 AKR1C1 Q04828 1J96 2 97.8 98.5 1662.0 0.99487 0.40
1.15.1.1 SOD2 P04179 1LUV 1 SOD1 P00441 4XCR 2 13.6 24.8 37.5 0.24203 4.48
SOD2 P04179 1LUV 1 SOD3 P08294 2JLP 2 3.7 6.7 21.5 0.28352 5.09
SOD1 P00441 4XCR 2 SOD3 P08294 2JLP 2 25.1 34.4 265.5 0.70353 1.76
2.4.1.22 B4GALT2 O60909 ND 1 B4GALT1 P15291 2AH9 1 50.0 62.7 1049.5 ND ND
B4GALT2 O60909 ND 1 LALBA P00709 3B0O 2 4.0 7.0 7.5 ND ND
B4GALT1 P15291 2AH9 1 LALBA P00709 3B0O 2 6.8 12.0 9.0 0.23387 5.70
2.4.2.31 SIRT6 Q8N6T7 3K35 1 ART1 P52961 ND 2 15.4 23.7 30.5 ND ND
SIRT6 Q8N6T7 3K35 1 ART3 Q13508 ND 2 18.6 27.2 43.5 ND ND
SIRT6 Q8N6T7 3K35 1 ART4 Q93070 ND 2 2.1 3.2 17.5 ND ND
SIRT6 Q8N6T7 3K35 1 ART5 Q96L15 ND 2 4.3 5.7 15.5 ND ND
ART1 P52961 ND 2 ART3 Q13508 ND 2 21.7 33.0 263.5 ND ND
ART1 P52961 ND 2 ART4 Q93070 ND 2 29.3 42.7 377.0 ND ND
ART1 P52961 ND 2 ART5 Q96L15 ND 2 34.8 46.6 447.5 ND ND
ART3 Q13508 ND 2 ART4 Q93070 ND 2 18.8 30.5 221.0 ND ND
ART3 Q13508 ND 2 ART5 Q96L15 ND 2 25.6 35.1 391.5 ND ND
ART4 Q93070 ND 2 ART5 Q96L15 ND 2 28.7 43.9 321.0 ND ND
2.7.1.67 PI4KA P42356 ND 1 PI4KB Q9UBF8 4WAE 1 10.8 17.1 527.5 ND ND
PI4KA P42356 ND 1 PI4K2A Q9BTU6 4HND 2 3.8 6.4 46.0 ND ND
PI4KA P42356 ND 1 PI4K2B Q8TCG2 4WTV 2 4.7 8.0 28.5 ND ND
PI4KB Q9UBF8 4WAE 1 PI4K2A Q9BTU6 4HND 2 9.8 16.4 45.5 0.48577 4.85
PI4KB Q9UBF8 4WAE 1 PI4K2B Q8TCG2 4WTV 2 9.9 16.5 51.0 0.31144 4.58
PI4K2A Q9BTU6 4HND 2 PI4K2B Q8TCG2 4WTV 2 57.7 69.5 1472.5 0.46188 1.74
2.7.4.21 PPIP5K2 O43314 3T9A 1 PPIP5K1 Q6PFW1 ND 1 56.2 64.5 4170.5 ND ND
PPIP5K2 O43314 3T9A 1 IP6K1 Q92551 ND 2 8.0 12.8 50.0 ND ND
PPIP5K2 O43314 3T9A 1 IP6K3 Q96PC2 ND 2 7.1 11.2 49.5 ND ND
PPIP5K2 O43314 3T9A 1 IP6K2 Q9UHH9 ND 2 7.0 11.3 47.5 ND ND
PPIP5K1 Q6PFW1 ND 1 IP6K1 Q92551 ND 2 6.7 10.5 96.5 ND ND
PPIP5K1 Q6PFW1 ND 1 IP6K3 Q96PC2 ND 2 5.8 10.2 42.5 ND ND
PPIP5K1 Q6PFW1 ND 1 IP6K2 Q9UHH9 ND 2 6.1 9.6 43.5 ND ND
IP6K1 Q92551 ND 2 IP6K3 Q96PC2 ND 2 47.6 61.4 1072.0 ND ND
IP6K1 Q92551 ND 2 IP6K2 Q9UHH9 ND 2 46.3 62.2 1019.0 ND ND
IP6K3 Q96PC2 ND 2 IP6K2 Q9UHH9 ND 2 44.7 58.7 911.0 ND ND
3.1.1.3 AADAC P22760 ND 3 CEL B4DSX9 ND 3 10.3 17.7 100.5 ND ND
AADAC P22760 ND 3 LIPC P11150 ND 4 17.1 27.6 26.0 ND ND
AADAC P22760 ND 3 PNLIP P16233 1LPB 4 13.6 24.5 18.0 ND ND
AADAC P22760 ND 3 PNLIPRP1 P54315 2PPL 4 11.5 20.7 25.5 ND ND
AADAC P22760 ND 3 PNLIPRP3 Q17RR3 ND 4 13.5 22.3 36.0 ND ND
AADAC P22760 ND 3 LIPG Q9Y5X9 ND 4 11.7 22.4 15.0 ND ND
AADAC P22760 ND 3 PNLIPRP2 P54317 2OXE 4 14.6 26.6 36.0 ND ND
CEL B4DSX9 ND 3 LIPC P11150 ND 4 10.3 15.8 41.0 ND ND
CEL B4DSX9 ND 3 PNLIP P16233 1LPB 4 11.8 18.7 34.0 ND ND
CEL B4DSX9 ND 3 PNLIPRP1 P54315 2PPL 4 5.6 8.6 29.0 ND ND
CEL B4DSX9 ND 3 PNLIPRP3 Q17RR3 ND 4 7.4 12.7 31.5 ND ND
CEL B4DSX9 ND 3 LIPG Q9Y5X9 ND 4 11.5 19.2 42.5 ND ND
CEL B4DSX9 ND 3 PNLIPRP2 P54317 2OXE 4 4.8 8.5 21.5 ND ND
AADAC P22760 ND 3 LIPF P07098 1HLG 9 18.2 31.1 57.0 ND ND
CEL B4DSX9 ND 3 LIPF P07098 1HLG 9 13.5 22.3 32.0 ND ND
AADAC P22760 ND 3 PNPLA3 Q9NST1 ND 10 3.4 5.1 36.0 ND ND
CEL B4DSX9 ND 3 PNPLA3 Q9NST1 ND 10 17.8 26.5 42.5 ND ND
LIPC P11150 ND 4 PNLIP P16233 1LPB 4 28.4 42.1 503.0 ND ND
LIPC P11150 ND 4 PNLIPRP1 P54315 2PPL 4 29.0 42.3 506.0 ND ND
LIPC P11150 ND 4 PNLIPRP3 Q17RR3 ND 4 29.5 43.9 536.0 ND ND
LIPC P11150 ND 4 LIPG Q9Y5X9 ND 4 41.3 61.0 1059.5 ND ND
LIPC P11150 ND 4 PNLIPRP2 P54317 2OXE 4 27.1 43.0 473.5 ND ND
PNLIP P16233 1LPB 4 PNLIPRP1 P54315 2PPL 4 67.3 80.6 1750.0 0.93392 1.76
PNLIP P16233 1LPB 4 PNLIPRP3 Q17RR3 ND 4 47.3 63.7 1113.5 ND ND
PNLIP P16233 1LPB 4 LIPG Q9Y5X9 ND 4 30.5 42.2 556.5 ND ND
PNLIP P16233 1LPB 4 PNLIPRP2 P54317 2OXE 4 64.0 79.5 1676.0 0.94537 1.37
PNLIPRP1 P54315 2PPL 4 PNLIPRP3 Q17RR3 ND 4 48.4 64.3 1158.0 ND ND
PNLIPRP1 P54315 2PPL 4 LIPG Q9Y5X9 ND 4 28.5 42.5 543.5 ND ND
PNLIPRP1 P54315 2PPL 4 PNLIPRP2 P54317 2OXE 4 62.7 77.0 1655.0 0.92898 1.81
PNLIPRP3 Q17RR3 ND 4 LIPG Q9Y5X9 ND 4 29.3 44.2 519.0 ND ND
PNLIPRP3 Q17RR3 ND 4 PNLIPRP2 P54317 2OXE 4 47.8 62.2 1156.5 ND ND
LIPG Q9Y5X9 ND 4 PNLIPRP2 P54317 2OXE 4 28.6 44.9 536.5 ND ND
LIPC P11150 ND 4 LIPF P07098 1HLG 9 15.9 28.2 41.0 ND ND
PNLIP P16233 1LPB 4 LIPF P07098 1HLG 9 17.2 26.2 65.5 0.39307 4.45
PNLIPRP1 P54315 2PPL 4 LIPF P07098 1HLG 9 16.8 29.2 37.0 0.38582 5.08
PNLIPRP3 Q17RR3 ND 4 LIPF P07098 1HLG 9 16.5 25.8 41.5 ND ND
LIPG Q9Y5X9 ND 4 LIPF P07098 1HLG 9 12.3 22.0 26.0 ND ND
PNLIPRP2 P54317 2OXE 4 LIPF P07098 1HLG 9 6.1 9.8 26.0 0.40059 5.14
LIPC P11150 ND 4 PNPLA3 Q9NST1 ND 10 6.9 11.9 48.5 ND ND
PNLIP P16233 1LPB 4 PNPLA3 Q9NST1 ND 10 11.6 18.8 31.0 ND ND
PNLIPRP1 P54315 2PPL 4 PNPLA3 Q9NST1 ND 10 14.3 21.2 54.0 ND ND
PNLIPRP3 Q17RR3 ND 4 PNPLA3 Q9NST1 ND 10 9.2 16.5 34.0 ND ND
LIPG Q9Y5X9 ND 4 PNPLA3 Q9NST1 ND 10 7.9 12.3 30.0 ND ND
PNLIPRP2 P54317 2OXE 4 PNPLA3 Q9NST1 ND 10 13.1 20.8 38.5 ND ND
LIPF P07098 1HLG 9 PNPLA3 Q9NST1 ND 10 2.5 3.5 7.0 ND ND
3.1.1.29 PTRH2 Q9Y3E5 1Q7S 1 PTRH1 Q86Y79 ND 2 17.6 27.5 28.0 ND ND
PTRH2 Q9Y3E5 1Q7S 1 ICT1 Q14197 ND 3 10.2 14.9 18.0 ND ND
PTRH1 Q86Y79 ND 2 ICT1 Q14197 ND 3 13.3 21.8 15.5 ND ND
3.1.2.2 ACOT2 P49753 3HLK 1 BAAT Q14032 ND 1 38.0 51.0 873.5 ND ND
ACOT2 P49753 3HLK 1 ACOT1 Q86TX2 ND 1 86.1 86.5 2217.0 ND ND
ACOT2 P49753 3HLK 1 ACOT4 Q8N9L9 3K2I 1 61.1 70.6 1601.0 0.95168 1.20
BAAT Q14032 ND 1 ACOT1 Q86TX2 ND 1 42.9 56.9 868.5 ND ND
BAAT Q14032 ND 1 ACOT4 Q8N9L9 3K2I 1 43.1 56.7 841.0 ND ND
ACOT1 Q86TX2 ND 1 ACOT4 Q8N9L9 3K2I 1 70.3 81.0 1603.0 ND ND
ACOT2 P49753 3HLK 1 ACOT7 O00154 2QQ2 2 2.8 4.6 27.5 0.19192 4.25
BAAT Q14032 ND 1 ACOT7 O00154 2QQ2 2 0.4 0.8 9.0 ND ND
ACOT1 Q86TX2 ND 1 ACOT7 O00154 2QQ2 2 13.4 21.5 18.5 ND ND
ACOT4 Q8N9L9 3K2I 1 ACOT7 O00154 2QQ2 2 2.0 2.5 13.5 0.23303 5.39
3.1.3.2 ACP5 P13686 1WAR 1 ACP2 P11117 ND 2 4.2 7.9 23.0 ND ND
ACP5 P13686 1WAR 1 ACPP P15309 1CVI 2 16.6 28.3 22.5 0.38800 5.44
ACP5 P13686 1WAR 1 ACPT Q9BZG2 ND 2 17.4 24.4 43.0 ND ND
ACP5 P13686 1WAR 1 ACP6 Q9NPH0 4JOB 2 15.5 24.3 19.5 0.36502 5.59
ACP5 P13686 1WAR 1 ACP1 P24666 5PNT 5 10.1 17.0 24.5 0.34702 5.16
ACP2 P11117 ND 2 ACPP P15309 1CVI 2 43.6 58.4 976.5 ND ND
ACP2 P11117 ND 2 ACPT Q9BZG2 ND 2 43.0 57.2 842.5 ND ND
ACP2 P11117 ND 2 ACP6 Q9NPH0 4JOB 2 21.3 33.9 269.5 ND ND
ACPP P15309 1CVI 2 ACPT Q9BZG2 ND 2 36.8 50.2 770.0 ND ND
ACPP P15309 1CVI 2 ACP6 Q9NPH0 4JOB 2 26.1 41.5 319.5 0.80111 2.77
ACPT Q9BZG2 ND 2 ACP6 Q9NPH0 4JOB 2 24.4 35.3 289.5 ND ND
ACP2 P11117 ND 2 ACP1 P24666 5PNT 5 8.5 13.9 28.5 ND ND
ACPP P15309 1CVI 2 ACP1 P24666 5PNT 5 10.1 18.9 19.0 0.26430 5.89
ACPT Q9BZG2 ND 2 ACP1 P24666 5PNT 5 6.0 12.9 13.0 ND ND
ACP6 Q9NPH0 4JOB 2 ACP1 P24666 5PNT 5 2.2 4.1 16.5 0.24707 4.77
3.1.3.5 NT5C1B Q96P26 ND 2 NT5C1A Q9BXI3 ND 2 35.4 43.0 1145.0 ND ND
NT5C1B Q96P26 ND 2 NT5E P21589 4H2G 3 8.5 13.3 26.0 ND ND
NT5C1A Q9BXI3 ND 2 NT5E P21589 4H2G 3 10.8 20.1 32.5 ND ND
NT5C1B Q96P26 ND 2 NT5C Q8TCD5 4L57 5 7.3 13.2 29.5 ND ND
NT5C1B Q96P26 ND 2 NT5M Q9NPB1 4MUM 5 6.0 9.3 48.0 ND ND
NT5C1A Q9BXI3 ND 2 NT5C Q8TCD5 4L57 5 9.7 15.1 29.0 ND ND
NT5C1A Q9BXI3 ND 2 NT5M Q9NPB1 4MUM 5 8.5 14.0 26.5 ND ND
NT5C1B Q96P26 ND 2 NT5C3A Q9H0P0 2CN1 7 8.6 16.6 35.5 ND ND
NT5C1A Q9BXI3 ND 2 NT5C3A Q9H0P0 2CN1 7 9.1 17.1 23.5 ND ND
NT5C1B Q96P26 ND 2 NT5C2 P49902 2XCW 9 8.6 13.9 42.5 ND ND
NT5C1A Q9BXI3 ND 2 NT5C2 P49902 2XCW 9 8.2 14.5 20.0 ND ND
NT5E P21589 4H2G 3 NT5C Q8TCD5 4L57 5 7.7 13.4 7.0 0.26104 5.86
NT5E P21589 4H2G 3 NT5M Q9NPB1 4MUM 5 2.0 3.2 12.0 0.26951 5.69
NT5E P21589 4H2G 3 NT5C3A Q9H0P0 2CN1 7 8.9 15.9 30.5 0.26314 5.72
NT5E P21589 4H2G 3 NT5C2 P49902 2XCW 9 15.4 26.8 36.0 0.27774 7.25
NT5C Q8TCD5 4L57 5 NT5M Q9NPB1 4MUM 5 51.3 64.7 660.0 0.96844 0.70
NT5C Q8TCD5 4L57 5 NT5C3A Q9H0P0 2CN1 7 6.7 9.9 27.5 0.50279 4.85
NT5M Q9NPB1 4MUM 5 NT5C3A Q9H0P0 2CN1 7 14.1 26.9 40.0 0.50929 4.86
NT5C Q8TCD5 4L57 5 NT5C2 P49902 2XCW 9 7.5 11.8 26.0 0.44003 3.79
NT5M Q9NPB1 4MUM 5 NT5C2 P49902 2XCW 9 4.6 9.1 23.5 0.44594 3.87
NT5C3A Q9H0P0 2CN1 7 NT5C2 P49902 2XCW 9 8.5 14.7 46.0 0.45164 4.71
3.1.4.12 SMPD2 O60906 ND 1 SMPD3 Q9NY59 ND 1 10.4 15.2 87.5 ND ND
SMPD2 O60906 ND 1 SMPD1 P17405 5I81 2 5.5 10.0 35.5 ND ND
SMPD3 Q9NY59 ND 1 SMPD1 P17405 5I81 2 2.6 3.6 51.0 ND ND
SMPD2 O60906 ND 1 SMPD4 Q9NXE4 ND 3 8.2 13.6 62.0 ND ND
SMPD3 Q9NY59 ND 1 SMPD4 Q9NXE4 ND 3 12.7 20.2 51.5 ND ND
SMPD2 O60906 ND 1 ENPP7 Q6UWV6 5UDY 4 7.0 12.8 27.5 ND ND
SMPD3 Q9NY59 ND 1 ENPP7 Q6UWV6 5UDY 4 13.3 19.2 29.5 ND ND
SMPD1 P17405 5I81 2 SMPD4 Q9NXE4 ND 3 6.3 10.7 39.0 ND ND
SMPD1 P17405 5I81 2 ENPP7 Q6UWV6 5UDY 4 16.1 25.0 28.5 0.28698 6.61
SMPD4 Q9NXE4 ND 3 ENPP7 Q6UWV6 5UDY 4 5.6 8.7 49.5 ND ND
4.2.99.18 NTHL1 P78549 ND 1 OGG1 O15527 1KO9 1 19.0 28.4 85.5 ND ND
NTHL1 P78549 ND 1 NEIL2 Q969S2 1VZP 1 14.6 25.7 29.0 ND ND
NTHL1 P78549 ND 1 NEIL1 Q96FI4 1TDH 1 6.7 9.8 40.0 ND ND
OGG1 O15527 1KO9 1 NEIL2 Q969S2 1VZP 1 2.9 4.3 24.0 0.27899 4.84
OGG1 O15527 1KO9 1 NEIL1 Q96FI4 1TDH 1 14.3 20.2 42.5 0.28166 6.65
NTHL1 P78549 ND 1 APEX1 P27695 2O3H 1 15.6 23.0 41.0 ND ND
NTHL1 P78549 ND 1 APEX2 Q9UBZ4 ND 1 4.7 6.6 14.5 ND ND
OGG1 O15527 1KO9 1 APEX1 P27695 2O3H 1 16.5 26.7 23.5 0.27998 6.74
OGG1 O15527 1KO9 1 APEX2 Q9UBZ4 ND 1 9.4 14.6 42.5 ND ND
NTHL1 P78549 ND 1 APLF Q8IW19 2KUO 6 3.7 6.1 24.5 ND ND
OGG1 O15527 1KO9 1 APLF Q8IW19 2KUO 6 6.0 8.7 20.5 0.14656 6.94
NEIL2 Q969S2 1VZP 1 NEIL1 Q96FI4 1TDH 1 18.8 24.9 143.5 0.50213 2.44
NEIL2 Q969S2 1VZP 1 APEX1 P27695 2O3H 1 13.2 22.2 19.5 0.28098 4.80
NEIL2 Q969S2 1VZP 1 APEX2 Q9UBZ4 ND 1 6.6 10.5 42.0 ND ND
NEIL1 Q96FI4 1TDH 1 APEX1 P27695 2O3H 1 5.2 7.3 44.0 0.25323 6.80
NEIL1 Q96FI4 1TDH 1 APEX2 Q9UBZ4 ND 1 14.6 20.8 41.0 ND ND
NEIL2 Q969S2 1VZP 1 APLF Q8IW19 2KUO 6 3.9 7.9 24.5 0.09438 5.32
NEIL1 Q96FI4 1TDH 1 APLF Q8IW19 2KUO 6 10.7 18.3 46.5 0.15631 6.56
APEX1 P27695 2O3H 1 APEX2 Q9UBZ4 ND 1 14.9 22.0 264.0 ND ND
APEX1 P27695 2O3H 1 APLF Q8IW19 2KUO 6 6.7 12.8 47.5 0.16022 6.62
APEX2 Q9UBZ4 ND 1 APLF Q8IW19 2KUO 6 12.3 20.5 44.5 ND ND
5.3.99.2 PTGDS P41222 2WWP 1 HPGDS O60760 1IYI 2 13.7 21.4 9.5 0.28983 5.76
5.3.99.3 PTGES2 Q9H7Z7 ND 1 PTGES O14684 4AL0 2 0.6 0.6 18.0 ND ND
a

The 3D model of the human dehydrogenase (UniProt Q9UQ10) was obtained using the crystal structure of a Macaca fascicularis dehydrogenase (PDB 2O48) by comparative modeling.