GREMLIN Database
DPO3 - DNA polymerase III PolC-type
UniProt: P13267 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 1437 (1401)
Sequences: 878 (609)
Seq/√Len: 16.3

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
358_Q741_N7.9571.00
790_K794_V6.9871.00
460_N482_D6.7071.00
844_E848_A6.6661.00
1241_E1258_K6.6641.00
917_H944_L6.4841.00
1124_K1131_S6.4021.00
692_V792_I6.1091.00
1245_K1251_D5.7551.00
365_E798_Q5.3531.00
375_V631_V5.3151.00
725_E788_K5.3121.00
1242_E1246_N5.3041.00
934_D946_K5.1811.00
681_E726_K5.1811.00
824_E828_E5.1421.00
616_L657_L5.1231.00
847_E851_E5.0731.00
837_I911_V4.8541.00
1105_Q1112_P4.6941.00
1121_E1285_H4.3771.00
335_V798_Q4.3591.00
850_I897_L4.1191.00
1392_K1395_E4.1121.00
398_A614_A4.0051.00
244_V294_V3.8771.00
465_L480_L3.8651.00
828_E832_Q3.8041.00
228_L240_V3.7741.00
914_E942_T3.7291.00
1182_D1261_K3.7061.00
547_N552_T3.6731.00
684_A727_L3.6291.00
1318_M1336_L3.5941.00
1321_I1328_A3.5651.00
626_N656_G3.4840.99
1243_E1246_N3.4510.99
458_F483_A3.4340.99
396_M631_V3.4090.99
413_H594_D3.3700.99
462_H485_D3.3620.99
332_E790_K3.3340.99
896_T905_P3.2930.99
1393_A1396_E3.2750.99
454_K572_E3.2740.99
1222_L1243_E3.2720.99
393_I617_L3.2690.99
1324_K1332_E3.2530.99
420_T447_K3.2230.99
1288_L1350_Y3.2210.99
337_L800_V3.2110.99
554_C577_L3.2020.99
779_E782_S3.1830.99
616_L659_I3.1640.99
695_P714_K3.1500.99
1050_V1087_L3.1310.99
875_R879_D3.1250.99
946_K1118_D3.1090.99
337_L732_V3.0850.99
1111_D1114_T3.0680.99
297_R315_D3.0530.99
913_P942_T3.0190.98
252_L258_L3.0000.98
1050_V1056_I2.9720.98
826_I898_T2.9680.98
794_V797_T2.9580.98
732_V800_V2.9580.98
1402_K1420_D2.9550.98
936_T943_P2.9070.98
1241_E1245_K2.8890.98
1351_S1371_S2.8660.98
617_L804_V2.8190.98
272_I313_A2.8030.97
617_L689_Y2.7990.97
457_A484_P2.7500.97
538_G548_H2.7280.97
221_D239_T2.7210.97
613_H663_C2.7210.97
821_G824_E2.7170.97
724_G731_V2.6980.97
874_K878_D2.6880.97
1129_T1136_E2.6760.97
636_I1064_F2.6720.97
1056_I1087_L2.6650.97
690_L720_I2.6630.97
633_L649_Q2.6450.96
629_K1055_D2.6440.96
1229_F1235_G2.6210.96
447_K452_I2.6100.96
775_D779_E2.6060.96
835_R840_E2.5850.96
721_T788_K2.5610.96
1400_L1432_N2.5550.96
1251_D1255_D2.5430.95
1219_E1223_A2.5400.95
1238_P1241_E2.5400.95
717_I783_F2.5270.95
798_Q802_S2.5030.95
372_H663_C2.4890.95
1229_F1237_T2.4810.95
633_L637_H2.4570.94
413_H592_Y2.4350.94
911_V947_D2.3860.94
1102_R1105_Q2.3820.93
799_K803_L2.3570.93
1330_P1334_N2.3570.93
711_K714_K2.3520.93
385_A392_M2.3460.93
808_K812_D2.3350.93
1359_R1368_D2.3350.93
240_V263_I2.3320.93
365_E802_S2.3240.93
1218_L1247_N2.3220.93
1162_D1189_Q2.3200.93
269_S1028_R2.3200.93
324_R328_A2.3110.92
962_D1221_S2.3110.92
549_R552_T2.2980.92
1405_L1425_L2.2910.92
1190_E1194_N2.2880.92
460_N483_A2.2880.92
833_R836_S2.2830.92
466_S469_I2.2750.92
893_L897_L2.2660.92
960_K1221_S2.2460.91
1303_D1317_V2.2440.91
542_Y557_F2.2430.91
928_S949_H2.2340.91
745_K749_K2.2300.91
1317_V1320_D2.2170.91
638_Y646_P2.1910.90
595_E598_E2.1870.90
788_K791_E2.1820.90
437_T520_K2.1800.90
561_L573_A2.1750.90
1368_D1373_I2.1710.90
417_E586_A2.1680.90
696_E780_A2.1500.89
495_E498_G2.1470.89
372_H613_H2.1410.89
1361_S1391_V2.1340.89
651_E686_F2.1340.89
1080_F1084_H2.1320.89
649_Q652_K2.1320.89
1225_K1237_T2.1060.88
446_V579_L2.0870.88
1320_D1324_K2.0750.87
1237_T1241_E2.0710.87
1236_L1258_K2.0700.87
436_D463_R2.0610.87
851_E855_K2.0590.87
977_P994_R2.0580.87
241_Q295_K2.0560.87
835_R841_E2.0550.87
542_Y584_D2.0460.87
403_D648_S2.0380.86
457_A492_D2.0320.86
551_N564_H2.0310.86
511_M527_A2.0280.86
332_E795_T2.0250.86
669_F716_I2.0190.86
1236_L1241_E2.0150.86
1235_G1258_K2.0110.86
830_S850_I2.0100.86
504_A507_A1.9860.85
939_H942_T1.9800.85
745_K768_K1.9790.85
690_L724_G1.9780.85
1080_F1085_D1.9730.85
466_S480_L1.9700.85
335_V801_A1.9680.84
1124_K1128_G1.9650.84
1391_V1394_R1.9620.84
516_V520_K1.9540.84
1122_V1285_H1.9530.84
790_K795_T1.9440.84
1108_S1289_L1.9440.84
1235_G1241_E1.9380.84
973_G1096_D1.9370.83
1402_K1430_D1.9180.83
228_L270_I1.9160.83
827_R862_F1.9150.83
1238_P1242_E1.9100.83
1121_E1124_K1.9060.82
625_K1058_D1.9040.82
911_V945_K1.9000.82
682_D685_S1.8990.82
1158_Q1162_D1.8970.82
328_A794_V1.8910.82
714_K718_A1.8910.82
862_F894_V1.8900.82
339_L355_L1.8870.82
542_Y581_M1.8870.82
398_A616_L1.8840.82
353_G380_D1.8810.82
1324_K1328_A1.8800.82
488_D492_D1.8780.81
919_E935_K1.8770.81
263_I296_A1.8770.81
831_Y851_E1.8760.81
400_L612_Y1.8720.81
368_A617_L1.8610.81
358_Q361_K1.8500.80
735_G772_R1.8470.80
341_S352_I1.8440.80
484_P492_D1.8420.80
1281_Y1286_H1.8240.80
826_I867_L1.8150.79
914_E939_H1.8140.79
791_E795_T1.8100.79
1361_S1366_I1.8060.79
1124_K1130_E1.8030.79
692_V717_I1.7950.78
1138_Q1347_E1.7750.78
372_H738_H1.7700.77
645_I650_L1.7690.77
468_T471_E1.7680.77
604_N607_Q1.7660.77
625_K629_K1.7620.77
426_V514_L1.7610.77
292_M318_E1.7610.77
269_S1025_E1.7580.77
296_A311_M1.7540.77
1358_Y1398_E1.7540.77
273_K303_D1.7490.76
252_L255_G1.7470.76
351_G380_D1.7460.76
554_C573_A1.7430.76
268_N1022_R1.7400.76
1048_I1086_N1.7400.76
1360_S1375_P1.7340.76
921_F925_S1.7330.76
855_K859_G1.7300.76
478_D481_Q1.7290.76
663_C738_H1.7240.75
1229_F1240_W1.7210.75
797_T801_A1.7210.75
721_T725_E1.7060.75
834_A842_L1.6980.74
1175_S1178_S1.6930.74
474_G563_Q1.6890.74
721_T785_G1.6700.73
182_L186_Q1.6660.73
870_H874_K1.6590.73
622_T655_E1.6590.73
730_P799_K1.6530.72
756_G759_N1.6490.72
1350_Y1372_L1.6480.72
1237_T1240_W1.6310.71
685_S727_L1.6290.71
352_I380_D1.6230.71
1156_V1175_S1.6190.71
1351_S1370_N1.6180.71
272_I296_A1.6130.70
629_K653_Y1.6110.70
240_V311_M1.6050.70
814_L964_V1.6020.70
1305_D1421_R1.5890.69
721_T792_I1.5870.69
327_S775_D1.5800.69
671_G683_I1.5740.68
1122_V1277_V1.5710.68
1125_I1131_S1.5640.68
1212_Y1216_Q1.5640.68
1225_K1229_F1.5620.68
705_E1128_G1.5610.68
1360_S1373_I1.5610.68
1255_D1259_K1.5610.68
338_H738_H1.5590.68
337_L617_L1.5570.68
1314_I1346_C1.5530.67
1105_Q1111_D1.5490.67
1377_N1384_T1.5440.67
1304_I1378_S1.5370.66
1125_I1148_I1.5360.66
1229_F1236_L1.5360.66
1353_Q1371_S1.5340.66
786_E790_K1.5200.66
795_T799_K1.5190.66
354_K740_L1.5180.65
981_N984_K1.5160.65
419_E501_I1.5150.65
636_I1074_K1.5110.65
1049_V1090_L1.5080.65
1405_L1409_G1.5050.65
1353_Q1373_I1.4990.64
1048_I1084_H1.4980.64
1157_R1340_E1.4930.64
360_K388_H1.4920.64
350_T355_L1.4890.64
352_I355_L1.4880.64
1190_E1193_H1.4880.64
1064_F1074_K1.4870.64
1054_M1058_D1.4860.64
695_P783_F1.4820.64
859_G862_F1.4800.63
852_K1211_V1.4780.63
422_V500_D1.4740.63
753_S1017_N1.4740.63
724_G727_L1.4730.63
1117_T1274_L1.4730.63
490_I517_A1.4710.63
1173_Q1204_G1.4710.63
620_N805_D1.4690.63
1142_K1161_E1.4680.63
457_A489_V1.4630.63
339_L350_T1.4620.62
787_E794_V1.4600.62
495_E499_D1.4550.62
1012_G1016_D1.4530.62
1048_I1085_D1.4520.62
1229_F1234_K1.4520.62
982_Y986_L1.4510.62
487_V521_L1.4490.62
637_H649_Q1.4480.62
634_S1057_Y1.4460.62
352_I392_M1.4460.62
264_T269_S1.4460.62
1353_Q1368_D1.4450.62
697_V769_V1.4450.62
618_A807_I1.4400.61
684_A724_G1.4390.61
617_L800_V1.4380.61
739_Y768_K1.4350.61
677_P719_N1.4320.61
463_R469_I1.4320.61
1237_T1258_K1.4290.61
1166_T1170_E1.4280.61
245_F269_S1.4270.61
350_T354_K1.4240.60
1103_M1107_L1.4210.60
1189_Q1193_H1.4210.60
1379_I1419_L1.4200.60
426_V438_I1.4130.60
877_L899_E1.4110.60
739_Y766_L1.4090.59
487_V491_R1.4090.59
1134_V1139_I1.4070.59
338_H372_H1.4060.59
499_D529_N1.4050.59
934_D1118_D1.4050.59
649_Q653_Y1.4040.59
262_K1027_D1.4010.59
1170_E1199_L1.4010.59
1122_V1125_I1.3990.59
715_E718_A1.3970.59
457_A483_A1.3950.59
1167_T1170_E1.3940.59
431_L468_T1.3930.59
1290_Y1341_L1.3920.59
1301_D1334_N1.3890.58
832_Q836_S1.3880.58
1361_S1364_E1.3880.58
1110_I1282_F1.3870.58
1413_K1417_E1.3740.58
464_P477_D1.3730.57
1025_E1028_R1.3720.57
465_L477_D1.3690.57
414_R530_P1.3670.57
661_S690_L1.3650.57
498_G529_N1.3640.57
677_P726_K1.3640.57
326_D329_P1.3620.57
979_A1092_I1.3620.57
323_T361_K1.3560.56
1296_T1364_E1.3510.56
423_V503_V1.3500.56
375_V396_M1.3450.56
613_H738_H1.3410.56
465_L470_I1.3250.55
1222_L1240_W1.3230.55
227_T230_S1.3180.54
1128_G1131_S1.3170.54
1198_E1201_E1.3160.54
580_K583_K1.3160.54
339_L352_I1.3100.54
1191_L1259_K1.3060.54
338_H663_C1.3040.53
1147_G1341_L1.3040.53
615_T689_Y1.3040.53
494_R518_Y1.3040.53
1420_D1430_D1.3030.53
360_K389_G1.3000.53
437_T462_H1.2990.53
397_E613_H1.2970.53
629_K1057_Y1.2970.53
581_M584_D1.2960.53
592_Y595_E1.2960.53
366_A801_A1.2940.53
698_Y717_I1.2920.53
983_T992_V1.2900.53
539_R548_H1.2880.53
795_T798_Q1.2860.52
785_G792_I1.2860.52
1244_M1249_V1.2850.52
1097_D1100_V1.2850.52
1184_W1279_I1.2840.52
1318_M1321_I1.2830.52
1405_L1411_V1.2830.52
484_P488_D1.2820.52
692_V785_G1.2810.52
542_Y548_H1.2810.52
874_K899_E1.2760.52
244_V288_L1.2740.52
467_A471_E1.2740.52
372_H397_E1.2700.51
670_E674_Q1.2700.51
699_R703_E1.2620.51
437_T463_R1.2590.51
983_T1090_L1.2580.51
685_S729_K1.2570.51
1135_T1138_Q1.2560.51
818_K1053_Y1.2550.51
184_E188_R1.2510.50
814_L1086_N1.2470.50
1047_I1092_I1.2420.50
304_T307_R1.2380.50
740_L744_D1.2360.49
664_D700_H1.2360.49
456_E568_I1.2360.49
335_V791_E1.2350.49
374_V635_H1.2340.49
1290_Y1298_R1.2320.49
381_A392_M1.2320.49
393_I618_A1.2290.49
1218_L1244_M1.2250.49
917_H935_K1.2250.49
492_D495_E1.2220.49
300_I309_L1.2220.49
1406_Q1413_K1.2210.49
338_H613_H1.2200.49
860_H863_A1.2140.48
845_I922_N1.2140.48
1214_I1220_P1.2140.48
411_A594_D1.2110.48
672_M716_I1.2110.48
249_T257_T1.2100.48
1107_L1367_I1.2090.48
346_M756_G1.2070.48
563_Q569_Y1.2040.48
611_P644_R1.2040.48
1057_Y1062_I1.2030.48
1134_V1138_Q1.2020.48
790_K797_T1.2010.47
1158_Q1185_L1.2000.47
814_L865_I1.2000.47
1216_Q1249_V1.1970.47
727_L730_P1.1960.47
754_S1001_V1.1940.47
846_V906_L1.1910.47
259_C276_A1.1890.47
127_K164_D1.1880.47
628_F1087_L1.1860.47
397_E663_C1.1860.47
619_V658_L1.1850.47
433_A512_G1.1830.46
1125_I1284_V1.1820.46
709_D712_A1.1790.46
380_D1079_D1.1760.46
684_A690_L1.1750.46
1235_G1240_W1.1740.46
181_K184_E1.1740.46
538_G584_D1.1710.46
1027_D1030_V1.1680.46
181_K185_D1.1630.45
811_K1054_M1.1620.45
383_S1084_H1.1620.45
1411_V1416_L1.1620.45
397_E738_H1.1590.45
373_A399_N1.1580.45
972_S1099_T1.1540.45
1172_V1270_A1.1530.45
785_G788_K1.1530.45
548_H608_R1.1520.45
917_H939_H1.1500.44
228_L239_T1.1500.44
354_K357_E1.1450.44
374_V829_M1.1440.44
335_V795_T1.1440.44
993_Y1074_K1.1430.44
725_E728_N1.1420.44
930_F955_T1.1390.44
711_K718_A1.1390.44
921_F924_G1.1390.44
879_D975_Y1.1380.44
1001_V1030_V1.1370.44
1305_D1422_H1.1340.44
826_I830_S1.1330.44
438_I490_I1.1330.44
465_L469_I1.1300.43
1097_D1298_R1.1260.43
328_A331_G1.1250.43
698_Y783_F1.1250.43
538_G542_Y1.1250.43
689_Y797_T1.1250.43
991_N1053_Y1.1250.43
882_L1275_M1.1210.43
785_G789_A1.1200.43
1234_K1237_T1.1190.43
634_S1007_Y1.1180.43
1325_G1328_A1.1160.43
1014_A1021_M1.1160.43
420_T500_D1.1130.42
360_K387_K1.1100.42
459_A486_V1.1100.42
984_K1073_W1.1090.42
591_Q595_E1.1090.42
1097_D1275_M1.1080.42
398_A630_L1.1070.42
1048_I1080_F1.1060.42
917_H938_P1.1050.42
352_I369_L1.1040.42
982_Y1090_L1.1020.42
1314_I1339_L1.1000.42
830_S898_T1.0970.41
911_V916_Q1.0930.41
827_R851_E1.0890.41
1382_L1390_I1.0850.41
1100_V1298_R1.0850.41
493_F564_H1.0820.41
442_A571_T1.0810.41
414_R419_E1.0790.40
1388_L1392_K1.0780.40
934_D943_P1.0750.40
615_T658_L1.0740.40
757_G760_P1.0730.40
710_E714_K1.0730.40
1330_P1333_K1.0710.40
261_F272_I1.0700.40
260_I306_V1.0660.40
1240_W1258_K1.0650.40
752_I767_P1.0650.40
572_E576_Y1.0610.39
926_V932_L1.0590.39
943_P946_K1.0590.39
387_K1113_K1.0590.39
240_V296_A1.0570.39
1239_E1242_E1.0570.39
288_L1239_E1.0550.39
517_A520_K1.0540.39
326_D331_G1.0530.39
1389_N1409_G1.0480.39
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640_Y644_R0.5030.15
911_V1141_C0.5030.15
638_Y788_K0.5030.15
355_L751_L0.5030.15
248_E631_V0.5030.15
856_S1082_S0.5030.15
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994_R1340_E0.5020.15
182_L914_E0.5020.15
1170_E1284_V0.5020.15
1084_H1307_M0.5020.15
994_R1391_V0.5020.15
1226_I1240_W0.5020.15
897_L918_S0.5020.15
288_L651_E0.5020.15
747_Y1049_V0.5020.15
493_F514_L0.5020.15
489_V1286_H0.5010.15
1296_T1350_Y0.5010.15
984_K1204_G0.5010.15
716_I1199_L0.5010.15
1198_E1355_V0.5010.15
1391_V1399_F0.5010.15
647_R651_E0.5000.15
1009_Y1193_H0.5000.15
256_R301_Q0.5000.15
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
3f2bA 1 0.6917 100 0.477 Contact Map
2hnhA 1 0.5484 100 0.703 Contact Map
2hpiA 2 0.5435 100 0.713 Contact Map
4rg8A 1 0.2603 100 0.926 Contact Map
4gx8A 1 0.2004 100 0.926 Contact Map
3cg7A 2 0.1775 100 0.93 Contact Map
4wbqA 2 0.1086 100 0.934 Contact Map
4gmjB 1 0.1496 100 0.935 Contact Map
4qozB 1 0.1781 100 0.936 Contact Map
2p1jA 2 0.119 100 0.936 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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