GREMLIN Database
DPOL1 - DNA polymerase 1
UniProt: P26811 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 882 (778)
Sequences: 1674 (1031)
Seq/√Len: 36.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
677_K680_F8.6541.00
673_I677_K8.5571.00
673_I680_F7.7041.00
677_K681_N7.6761.00
255_I299_F6.9821.00
673_I681_N6.1931.00
676_V680_F5.9801.00
503_P650_T5.7851.00
673_I676_V5.4471.00
252_I322_I5.1551.00
729_K774_E4.8011.00
119_K467_N4.7991.00
389_T419_Q4.6101.00
672_I680_F4.5521.00
764_K769_G4.4521.00
89_Y165_D4.2571.00
670_E680_F4.2191.00
560_P568_G4.0791.00
672_I677_K3.9981.00
671_N675_W3.9821.00
760_G764_K3.7821.00
672_I676_V3.7441.00
670_E673_I3.6781.00
232_I255_I3.5781.00
118_S127_K3.5151.00
670_E677_K3.4671.00
765_L775_L3.3121.00
670_E676_V3.2181.00
730_V761_S3.1901.00
135_V144_L3.1391.00
672_I681_N3.1291.00
230_I299_F2.9781.00
291_T294_E2.9071.00
298_R301_D2.8141.00
674_K678_T2.7711.00
303_L309_V2.7501.00
585_P591_Q2.5221.00
397_L400_F2.5141.00
289_F298_R2.5111.00
641_V645_R2.4641.00
313_N318_D2.4581.00
256_A414_A2.4291.00
732_N736_E2.4221.00
115_E132_K2.4191.00
440_R461_W2.4141.00
676_V681_N2.3951.00
818_V837_I2.3831.00
675_W681_N2.3721.00
462_E465_K2.3561.00
819_K841_K2.3541.00
118_S129_K2.3361.00
158_Y165_D2.3321.00
318_D413_D2.3201.00
337_P341_A2.2820.99
466_R565_V2.2520.99
65_A71_D2.2500.99
690_Y712_D2.2420.99
120_I127_K2.2340.99
83_N162_Y2.2190.99
733_E737_L2.2170.99
828_P831_L2.2160.99
675_W679_T2.2040.99
672_I675_W2.1890.99
581_K595_Y2.1630.99
68_K71_D2.1470.99
384_K390_S2.1440.99
670_E681_N2.1310.99
672_I679_T2.1240.99
553_H628_S2.1100.99
67_C71_D2.1040.99
122_P125_W2.1010.99
151_A154_A2.0510.99
225_I308_I2.0490.99
456_K619_P2.0350.99
717_L852_Q2.0310.99
80_L197_K2.0180.99
383_A416_I2.0150.99
462_E569_L2.0110.99
673_I679_T1.9920.98
860_S863_E1.9510.98
827_K831_L1.9420.98
167_G465_K1.9180.98
67_C162_Y1.9060.98
335_E339_D1.9060.98
231_D409_Y1.9010.98
580_K583_K1.8740.98
676_V679_T1.8540.98
389_T412_R1.8300.97
563_T613_F1.7940.97
766_K840_E1.7890.97
561_G564_A1.7690.97
293_Y297_G1.7670.97
114_I131_T1.7620.97
233_E413_D1.7580.97
138_P158_Y1.7490.97
65_A68_K1.7400.96
289_F295_L1.7310.96
88_P153_E1.7200.96
737_L753_K1.7200.96
335_E338_I1.7180.96
826_V831_L1.7160.96
132_K165_D1.7120.96
157_K160_N1.7090.96
670_E675_W1.7080.96
670_E674_K1.7030.96
292_E325_R1.7030.96
568_G572_D1.6960.96
119_K122_P1.6910.96
585_P588_S1.6620.95
626_A633_G1.6450.95
496_G499_V1.6450.95
165_D467_N1.6450.95
779_V817_Y1.6440.95
828_P832_A1.6280.95
736_E740_S1.6010.94
287_E298_R1.5920.94
458_L605_F1.5800.94
89_Y132_K1.5730.94
756_D760_G1.5610.93
526_W636_V1.5550.93
231_D413_D1.5540.93
829_V832_A1.5510.93
121_D125_W1.5500.93
336_I339_D1.5480.93
228_V257_L1.5440.93
795_H798_A1.5420.93
496_G630_T1.5380.93
516_A685_E1.5370.93
233_E318_D1.5300.93
703_F716_M1.5280.93
92_V133_I1.5210.93
755_V859_V1.5130.92
98_K101_K1.5110.92
254_S407_I1.5050.92
56_V67_C1.5010.92
688_K712_D1.4990.92
757_V761_S1.4990.92
703_F739_I1.4920.92
665_P669_L1.4770.91
197_K202_D1.4700.91
435_F601_A1.4690.91
589_E592_K1.4670.91
338_I341_A1.4660.91
463_H562_I1.4660.91
313_N317_F1.4630.91
231_D318_D1.4560.91
184_V204_D1.4550.91
413_D630_T1.4480.91
671_N679_T1.4470.91
391_K413_D1.4450.90
51_Y55_Q1.4370.90
313_N365_V1.4360.90
654_G658_S1.4340.90
104_K108_D1.4310.90
229_A417_T1.4270.90
393_K413_D1.4220.90
84_T204_D1.4120.89
87_K113_H1.4080.89
840_E844_E1.4010.89
645_R650_T1.4000.89
527_N532_T1.4000.89
584_N853_I1.3990.89
233_E313_N1.3990.89
311_T314_G1.3980.89
688_K704_G1.3890.89
55_Q58_Y1.3860.89
675_W680_F1.3860.89
499_V699_K1.3830.88
141_V146_N1.3790.88
517_S604_V1.3780.88
667_N678_T1.3770.88
639_S642_K1.3760.88
515_F521_S1.3740.88
801_Q830_Q1.3720.88
527_N561_G1.3720.88
512_V660_F1.3680.88
781_L796_V1.3670.88
229_A414_A1.3670.88
50_I175_V1.3640.88
232_I252_I1.3610.88
576_K580_K1.3580.88
256_A410_N1.3560.87
67_C70_F1.3550.87
512_V704_G1.3530.87
246_Q324_F1.3530.87
442_G445_E1.3470.87
727_V849_T1.3390.87
98_K105_I1.3390.87
580_K584_N1.3380.87
512_V688_K1.3260.86
300_F304_L1.3260.86
790_K793_P1.3250.86
65_A88_P1.3140.86
339_D347_K1.3120.86
650_T662_L1.3060.85
394_V397_L1.3020.85
612_V618_F1.2950.85
730_V757_V1.2950.85
638_T642_K1.2870.84
592_K596_D1.2840.84
98_K102_I1.2830.84
227_R308_I1.2810.84
171_G724_P1.2760.84
335_E340_V1.2730.84
102_I106_V1.2710.84
308_I429_M1.2710.84
360_F443_I1.2690.84
571_R606_I1.2680.84
640_T659_L1.2620.83
276_E279_V1.2610.83
112_D136_R1.2610.83
171_G433_V1.2590.83
391_K416_I1.2580.83
132_K467_N1.2560.83
138_P141_V1.2560.83
504_A698_L1.2550.83
456_K612_V1.2550.83
313_N413_D1.2540.83
821_R836_E1.2500.83
93_D152_Y1.2450.82
582_A596_D1.2440.82
340_V343_K1.2420.82
140_A146_N1.2410.82
69_L83_N1.2370.82
413_D496_G1.2340.82
671_N680_F1.2300.82
65_A138_P1.2290.82
360_F460_Y1.2200.81
838_D849_T1.2180.81
233_E409_Y1.2160.81
501_D524_R1.2160.81
672_I678_T1.2130.81
228_V303_L1.2100.81
318_D391_K1.2000.80
272_N275_N1.1960.80
733_E736_E1.1910.80
81_Y174_Y1.1890.79
309_V356_L1.1850.79
713_I716_M1.1840.79
259_G306_Y1.1840.79
168_L729_K1.1820.79
153_E165_D1.1820.79
561_G565_V1.1790.79
81_Y203_S1.1740.79
103_P107_R1.1710.78
432_I443_I1.1680.78
119_K464_R1.1670.78
127_K467_N1.1660.78
577_I602_M1.1660.78
668_S671_N1.1650.78
674_K680_F1.1630.78
763_E767_N1.1540.77
121_D124_T1.1520.77
574_R599_Q1.1510.77
509_N662_L1.1450.77
252_I296_L1.1430.77
124_T535_I1.1410.77
113_H134_V1.1360.76
397_L401_L1.1340.76
596_D599_Q1.1310.76
99_V103_P1.1310.76
585_P595_Y1.1280.76
141_V145_R1.1260.76
706_Y710_K1.1230.75
258_A418_L1.1210.75
545_K632_L1.1190.75
90_F736_E1.1110.75
675_W678_T1.1110.75
100_G103_P1.1080.74
317_F365_V1.1070.74
375_N728_K1.1060.74
64_K68_K1.1030.74
826_V830_Q1.1010.74
586_N589_E1.1000.74
719_K722_N1.0990.74
122_P468_W1.0980.74
376_E381_A1.0950.73
396_T401_L1.0940.73
56_V159_F1.0930.73
719_K795_H1.0920.73
156_I460_Y1.0920.73
90_F144_L1.0910.73
460_Y470_I1.0910.73
582_A592_K1.0890.73
695_F714_K1.0860.73
412_R415_E1.0860.73
538_C541_P1.0850.73
796_V799_A1.0850.73
143_R146_N1.0840.73
793_P796_V1.0840.73
636_V682_L1.0840.73
295_L501_D1.0820.73
233_E317_F1.0820.73
359_F440_R1.0820.73
670_E679_T1.0810.72
809_V814_I1.0780.72
778_K814_I1.0780.72
117_V122_P1.0770.72
379_L601_A1.0750.72
666_K691_K1.0720.72
526_W682_L1.0670.72
65_A70_F1.0640.71
317_F413_D1.0630.71
619_P852_Q1.0580.71
452_S621_Y1.0570.71
655_D700_K1.0570.71
610_Y626_A1.0550.71
89_Y161_N1.0550.71
324_F327_L1.0530.70
387_L416_I1.0530.70
510_I662_L1.0490.70
342_G348_Y1.0480.70
334_E339_D1.0410.70
90_F141_V1.0400.70
166_I207_T1.0360.69
252_I807_V1.0350.69
606_I721_R1.0340.69
57_D68_K1.0320.69
846_L850_F1.0300.69
66_V69_L1.0280.69
439_S693_V1.0270.69
133_I138_P1.0230.68
637_I690_Y1.0220.68
380_D390_S1.0220.68
543_E557_M1.0220.68
784_P787_A1.0190.68
570_L602_M1.0190.68
603_K611_G1.0170.68
88_P154_A1.0130.67
202_D205_E1.0100.67
52_F57_D1.0090.67
409_Y413_D1.0070.67
827_K832_A1.0060.67
81_Y205_E1.0060.67
434_L598_V1.0050.67
250_F321_Y1.0020.67
636_V640_T1.0020.67
130_L469_L1.0020.67
363_K608_A1.0020.67
367_N371_E1.0010.67
153_E156_I0.9980.66
516_A564_A0.9980.66
138_P154_A0.9980.66
717_L720_K0.9970.66
116_T119_K0.9970.66
83_N205_E0.9910.66
716_M731_F0.9880.66
81_Y176_V0.9870.65
266_V269_L0.9850.65
546_D552_L0.9840.65
199_A202_D0.9820.65
570_L799_A0.9820.65
462_E566_I0.9810.65
409_Y416_I0.9810.65
198_K203_S0.9800.65
666_K677_K0.9780.65
394_V401_L0.9700.64
68_K82_D0.9670.64
270_N274_V0.9650.64
666_K669_L0.9640.64
137_D140_A0.9610.63
722_N779_V0.9610.63
785_L800_L0.9600.63
379_L496_G0.9570.63
471_P505_G0.9560.63
784_P811_P0.9550.63
90_F596_D0.9550.63
598_V606_I0.9540.63
841_K852_Q0.9530.63
335_E341_A0.9520.63
364_A417_T0.9520.63
510_I802_L0.9500.62
701_N717_L0.9500.62
264_K268_V0.9490.62
374_Y382_V0.9490.62
182_E204_D0.9480.62
434_L437_R0.9480.62
85_G113_H0.9430.62
130_L516_A0.9400.62
458_L497_A0.9350.61
374_Y377_Y0.9340.61
765_L843_L0.9330.61
143_R147_D0.9320.61
337_P340_V0.9280.61
170_P440_R0.9280.61
270_N273_D0.9270.61
745_N755_V0.9260.60
208_R211_A0.9260.60
120_I125_W0.9260.60
466_R562_I0.9250.60
507_F529_S0.9240.60
510_I813_D0.9230.60
528_L547_E0.9230.60
549_G553_H0.9220.60
663_N672_I0.9210.60
161_N165_D0.9210.60
696_S793_P0.9210.60
268_V272_N0.9210.60
91_L197_K0.9190.60
152_Y469_L0.9180.60
705_V708_D0.9160.60
359_F852_Q0.9160.60
510_I652_L0.9160.60
233_E391_K0.9150.59
614_G658_S0.9140.59
241_R244_D0.9130.59
717_L731_F0.9100.59
231_D313_N0.9090.59
286_V373_K0.9090.59
706_Y775_L0.9090.59
516_A604_V0.9070.59
101_K105_I0.9060.59
577_I581_K0.9060.59
730_V734_V0.9060.59
338_I343_K0.9040.59
464_R467_N0.9030.58
149_P168_L0.9000.58
838_D842_Y0.8980.58
764_K770_Y0.8980.58
318_D409_Y0.8950.58
504_A631_A0.8950.58
140_A143_R0.8930.58
516_A683_D0.8930.58
588_S591_Q0.8920.58
265_K268_V0.8910.57
89_Y158_Y0.8900.57
379_L499_V0.8890.57
306_Y423_F0.8890.57
500_I719_K0.8870.57
349_L860_S0.8870.57
293_Y329_L0.8870.57
522_I682_L0.8800.56
273_D278_S0.8800.56
701_N775_L0.8790.56
237_P247_K0.8790.56
379_L413_D0.8760.56
312_F420_L0.8760.56
301_D304_L0.8760.56
334_E337_P0.8750.56
532_T561_G0.8730.56
54_L81_Y0.8730.56
817_Y842_Y0.8720.56
411_F684_L0.8700.56
522_I529_S0.8700.56
93_D128_F0.8700.56
336_I340_V0.8700.56
494_Y626_A0.8680.55
799_A838_D0.8680.55
81_Y85_G0.8670.55
268_V275_N0.8670.55
105_I109_P0.8670.55
391_K409_Y0.8660.55
54_L57_D0.8650.55
703_F726_F0.8630.55
639_S643_K0.8630.55
120_I468_W0.8620.55
801_Q826_V0.8620.55
850_F854_L0.8610.55
284_I411_F0.8600.55
369_A780_M0.8590.55
723_T727_V0.8590.55
359_F651_V0.8580.55
364_A421_T0.8580.55
313_N391_K0.8560.54
99_V105_I0.8560.54
790_K844_E0.8510.54
450_E701_N0.8510.54
612_V626_A0.8510.54
61_K64_K0.8490.54
435_F439_S0.8490.54
515_F651_V0.8480.54
120_I559_R0.8470.54
833_K836_E0.8450.53
109_P291_T0.8440.53
97_D101_K0.8430.53
511_T661_L0.8390.53
145_R154_A0.8380.53
114_I291_T0.8370.53
119_K469_L0.8370.53
312_F382_V0.8370.53
135_V141_V0.8360.53
526_W637_I0.8360.53
254_S410_N0.8360.53
232_I313_N0.8340.52
94_L131_T0.8340.52
121_D126_N0.8330.52
570_L838_D0.8330.52
797_K800_L0.8310.52
272_N278_S0.8310.52
550_E553_H0.8310.52
423_F523_I0.8300.52
275_N278_S0.8300.52
725_E772_L0.8300.52
176_V205_E0.8280.52
551_V628_S0.8280.52
106_V109_P0.8280.52
615_A688_K0.8260.52
502_P637_I0.8260.52
262_G267_L0.8260.52
252_I270_N0.8240.52
720_K788_Y0.8240.52
462_E466_R0.8240.52
614_G626_A0.8230.51
231_D317_F0.8230.51
363_K496_G0.8220.51
660_F704_G0.8160.51
760_G769_G0.8150.51
263_L269_L0.8140.51
231_D391_K0.8130.51
74_T221_E0.8130.51
660_F777_F0.8120.51
619_P717_L0.8120.51
297_G301_D0.8100.50
550_E635_Y0.8100.50
738_M840_E0.8080.50
106_V173_P0.8060.50
321_Y325_R0.8060.50
413_D416_I0.8060.50
671_N677_K0.8050.50
777_F852_Q0.8040.50
612_V620_L0.8040.50
279_V283_G0.8040.50
296_L304_L0.8030.50
56_V69_L0.8030.50
435_F454_W0.8020.50
130_L160_N0.8020.50
800_L803_R0.7990.49
110_S136_R0.7980.49
653_Y658_S0.7960.49
718_V849_T0.7950.49
497_A630_T0.7950.49
99_V104_K0.7940.49
266_V272_N0.7940.49
322_I331_Y0.7930.49
391_K496_G0.7920.49
62_K329_L0.7920.49
798_A815_I0.7900.49
574_R634_R0.7890.48
138_P142_R0.7890.48
275_N642_K0.7880.48
573_F576_K0.7880.48
234_V321_Y0.7880.48
756_D759_K0.7880.48
608_A630_T0.7870.48
318_D365_V0.7870.48
233_E496_G0.7860.48
93_D150_K0.7850.48
99_V107_R0.7840.48
267_L596_D0.7820.48
611_G656_T0.7820.48
204_D210_M0.7810.48
379_L409_Y0.7780.48
102_I105_I0.7780.48
243_P321_Y0.7770.47
334_E338_I0.7770.47
117_V120_I0.7760.47
340_V347_K0.7750.47
820_V854_L0.7750.47
138_P165_D0.7740.47
772_L821_R0.7740.47
494_Y614_G0.7740.47
548_T553_H0.7730.47
415_E419_Q0.7720.47
671_N681_N0.7720.47
496_G614_G0.7720.47
133_I148_V0.7710.47
218_F756_D0.7690.47
646_E689_T0.7690.47
733_E757_V0.7690.47
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496_G700_K0.5040.26
197_K200_F0.5040.26
576_K818_V0.5030.26
329_L342_G0.5030.26
609_T622_A0.5030.26
285_S305_E0.5030.26
103_P666_K0.5030.26
123_Y126_N0.5020.26
785_L788_Y0.5020.26
458_L659_L0.5010.25
582_A595_Y0.5010.25
303_L725_E0.5010.25
361_F445_E0.5010.25
157_K164_Y0.5010.25
736_E822_S0.5010.25
151_A172_M0.5010.25
100_G108_D0.5000.25
99_V108_D0.5000.25
311_T318_D0.5000.25
525_T530_Y0.5000.25
696_S716_M0.5000.25
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  
3iayA 1 0.8957 100 0.24 Contact Map
1s5jA 1 0.8005 100 0.248 Contact Map
4qclA 1 0.8776 100 0.249 Contact Map
4fvmA 1 0.8379 100 0.259 Contact Map
2gv9A 1 0.9501 100 0.276 Contact Map
1qhtA 1 0.7721 100 0.302 Contact Map
4m8oA 1 0.8934 100 0.326 Contact Map
3k59A 1 0.8231 100 0.326 Contact Map
3qexA 1 0.8141 100 0.388 Contact Map
2py5A 2 0.5068 100 0.71 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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