GREMLIN Database
DNAA - Chromosomal replication initiator protein DnaA
UniProt: P05648 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 446 (437)
Sequences: 2877 (1876)
Seq/√Len: 89.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
391_M417_V4.1511.00
164_I244_V3.4771.00
167_Y170_D3.4261.00
168_V210_V3.3351.00
132_A269_L3.2841.00
33_A41_L3.1961.00
286_R298_N3.1321.00
356_I360_Q3.0461.00
428_L438_V3.0031.00
406_G411_G2.9701.00
172_N175_A2.9501.00
300_V338_A2.9311.00
206_R232_T2.9121.00
367_F437_H2.8811.00
396_E442_K2.7231.00
51_R55_E2.6591.00
428_L435_Q2.6221.00
421_H425_S2.5551.00
197_K200_D2.5201.00
415_T418_I2.5121.00
237_H267_W2.4741.00
435_Q439_K2.4601.00
356_I394_S2.4421.00
406_G410_G2.3831.00
360_Q375_K2.3161.00
124_S127_R2.2961.00
53_W57_R2.2861.00
136_V147_L2.2841.00
188_E205_Y2.2721.00
25_E29_K2.2691.00
390_A409_F2.2641.00
31_T43_I2.2341.00
178_V208_V2.1831.00
229_F245_I2.1461.00
406_G412_R2.1341.00
14_Q68_E2.1291.00
252_K266_E2.1231.00
367_F389_I2.1221.00
263_S311_N2.1211.00
122_I130_H2.1181.00
183_E206_R2.1171.00
424_I434_L2.1011.00
188_E204_R2.1001.00
288_K316_E2.0791.00
65_T69_L2.0761.00
278_L282_I2.0651.00
360_Q409_F2.0521.00
130_H134_L2.0461.00
189_F224_Q2.0371.00
364_G371_L2.0291.00
285_L319_L2.0041.00
167_Y171_H1.9851.00
21_K25_E1.9841.00
356_I408_E1.9731.00
186_T225_T1.9601.00
36_L41_L1.9581.00
18_K61_L1.9261.00
41_L66_I1.9181.00
428_L434_L1.9181.00
320_I327_S1.9171.00
370_K373_D1.9061.00
212_L244_V1.9061.00
427_L431_D1.9061.00
303_Y346_I1.9051.00
132_A147_L1.9041.00
366_Q437_H1.8671.00
427_L434_L1.8371.00
183_E218_F1.8241.00
282_I301_M1.8191.00
193_I198_A1.8171.00
396_E425_S1.8101.00
35_S42_T1.7741.00
336_D339_A1.7671.00
34_H44_T1.7661.00
189_F201_F1.7631.00
212_L246_S1.7611.00
282_I302_L1.7581.00
40_T77_K1.7441.00
63_A73_E1.7361.00
202_R228_E1.7151.00
388_Q391_M1.6891.00
426_K430_D1.6861.00
54_L78_F1.6771.00
183_E232_T1.6651.00
289_A301_M1.6551.00
31_T45_A1.6531.00
206_R228_E1.6491.00
409_F420_A1.6301.00
137_A167_Y1.6261.00
297_P300_V1.6221.00
402_L421_H1.6141.00
360_Q371_L1.6011.00
216_I245_I1.6011.00
393_L442_K1.5931.00
361_R365_Q1.5821.00
111_L165_G1.5701.00
388_Q419_H1.5631.00
228_E232_T1.5551.00
356_I400_S1.5481.00
180_L205_Y1.5481.00
39_D72_E1.5351.00
70_T74_L1.5331.00
67_Y73_E1.5211.00
357_K408_E1.5131.00
279_E283_A1.5041.00
366_Q440_E1.4991.00
44_T81_P1.4951.00
300_V335_A1.4911.00
230_F260_R1.4911.00
371_L375_K1.4791.00
285_L315_L1.4721.00
13_A16_E1.4650.99
121_V287_K1.4600.99
269_L324_A1.4520.99
373_D378_K1.4500.99
311_N314_E1.4430.99
391_M420_A1.4400.99
234_N238_E1.4390.99
392_Y438_V1.4390.99
117_F163_A1.4380.99
153_V263_S1.4320.99
128_F324_A1.4260.99
24_F28_M1.4120.99
16_E21_K1.4040.99
404_K407_E1.3970.99
59_L78_F1.3950.99
423_K427_L1.3930.99
129_A160_L1.3910.99
286_R301_M1.3880.99
61_L65_T1.3770.99
285_L301_M1.3700.99
16_E29_K1.3620.99
206_R231_H1.3530.99
11_A66_I1.3530.99
423_K426_K1.3520.99
254_I257_L1.3500.99
63_A75_S1.3430.99
296_I301_M1.3410.99
168_V175_A1.3380.99
15_I28_M1.3300.99
365_Q444_Q1.3170.99
304_I322_V1.3090.99
16_E24_F1.2910.99
440_E444_Q1.2830.99
434_L437_H1.2780.99
28_M54_L1.2780.99
335_A339_A1.2770.99
189_F193_I1.2770.99
321_R344_D1.2700.99
36_L74_L1.2690.99
303_Y335_A1.2600.98
12_L28_M1.2590.98
178_V204_R1.2520.98
133_S164_I1.2490.98
146_P242_Q1.2470.98
45_A78_F1.2430.98
308_I318_A1.2370.98
131_A283_A1.2340.98
213_I216_I1.2200.98
32_K44_T1.2020.98
333_I337_L1.1950.98
47_N50_A1.1930.98
219_L254_I1.1820.98
361_R371_L1.1760.98
169_I177_V1.1730.98
182_S219_L1.1710.98
161_M212_L1.1680.97
227_E231_H1.1670.97
28_M31_T1.1630.97
326_S337_L1.1600.97
12_L24_F1.1550.97
385_F427_L1.1510.97
231_H234_N1.1450.97
140_P242_Q1.1370.97
360_Q374_F1.1320.97
261_L265_F1.1310.97
377_K412_R1.1310.97
136_V242_Q1.1300.97
403_P415_T1.1260.97
281_R308_I1.1190.97
152_G155_L1.1170.97
394_S409_F1.1160.97
248_D260_R1.1100.97
186_T190_I1.0940.96
155_L280_T1.0930.96
233_F243_I1.0910.96
32_K81_P1.0910.96
10_Q69_L1.0870.96
203_N207_N1.0850.96
111_L161_M1.0840.96
40_T75_S1.0830.96
14_Q18_K1.0830.96
298_N302_L1.0710.96
322_V338_A1.0670.96
243_I257_L1.0640.96
441_I445_L1.0640.96
151_G273_I1.0620.96
134_L167_Y1.0560.95
259_D262_R1.0520.95
388_Q416_T1.0420.95
46_P50_A1.0390.95
439_K442_K1.0370.95
425_S429_A1.0370.95
432_E435_Q1.0330.95
400_S404_K1.0310.95
141_A242_Q1.0310.95
18_K64_D1.0280.95
395_R422_E1.0250.95
357_K360_Q1.0220.95
52_D55_E1.0220.95
7_L70_T1.0210.94
369_I374_F1.0150.94
14_Q69_L1.0140.94
15_I61_L1.0130.94
51_R78_F1.0130.94
9_N13_A1.0080.94
138_E171_H1.0060.94
111_L166_H1.0010.94
48_E52_D1.0000.94
218_F231_H0.9990.94
394_S398_T0.9980.94
230_F233_F0.9950.94
189_F198_A0.9940.94
326_S333_I0.9920.94
22_P26_T0.9900.94
30_S50_A0.9810.93
59_L63_A0.9800.93
366_Q444_Q0.9780.93
337_L341_A0.9720.93
23_S58_Y0.9700.93
49_F53_W0.9700.93
292_E320_I0.9670.93
223_E256_T0.9660.93
288_K319_L0.9660.93
196_N224_Q0.9650.93
52_D56_S0.9610.93
278_L302_L0.9590.92
5_L32_K0.9560.92
235_T238_E0.9560.92
14_Q17_K0.9500.92
97_K100_K0.9480.92
367_F386_P0.9440.92
418_I422_E0.9400.92
362_V444_Q0.9370.92
360_Q408_E0.9340.91
213_I245_I0.9330.91
434_L438_V0.9300.91
45_A80_I0.9280.91
362_V445_L0.9240.91
235_T239_E0.9240.91
183_E187_N0.9190.91
249_R259_D0.9150.91
191_N195_D0.9100.90
209_D241_K0.9090.90
53_W58_Y0.9060.90
148_F270_I0.9030.90
374_F390_A0.9000.90
6_D9_N0.9000.90
168_V171_H0.8970.90
321_R325_Y0.8960.90
417_V420_A0.8870.89
338_A399_D0.8870.89
402_L417_V0.8850.89
266_E270_I0.8850.89
125_G280_T0.8840.89
43_I78_F0.8800.89
236_L241_K0.8800.89
206_R218_F0.8770.89
379_R419_H0.8730.88
114_K240_S0.8720.88
230_F248_D0.8720.88
257_L261_L0.8710.88
27_W53_W0.8670.88
395_R402_L0.8660.88
331_K340_E0.8650.88
364_G369_I0.8600.88
331_K337_L0.8580.88
429_A435_Q0.8570.87
363_V367_F0.8550.87
389_I438_V0.8520.87
394_S397_M0.8490.87
389_I393_L0.8480.87
402_L418_I0.8470.87
145_N242_Q0.8470.87
33_A36_L0.8400.86
331_K334_N0.8370.86
390_A394_S0.8360.86
111_L162_H0.8350.86
45_A54_L0.8330.86
137_A168_V0.8310.86
192_S198_A0.8290.86
12_L29_K0.8280.86
250_P254_I0.8220.85
233_F242_Q0.8210.85
123_G277_D0.8200.85
24_F29_K0.8200.85
220_A254_I0.8200.85
166_H270_I0.8190.85
322_V333_I0.8190.85
19_L28_M0.8180.85
359_I398_T0.8160.85
37_Q40_T0.8140.85
213_I229_F0.8130.85
97_K101_E0.8130.85
395_R418_I0.8090.84
318_A342_L0.8030.84
18_K65_T0.8020.84
433_Q439_K0.8010.84
42_T79_V0.8000.84
246_S256_T0.8000.84
200_D203_N0.7980.83
302_L306_N0.7960.83
165_G177_V0.7950.83
180_L310_S0.7950.83
218_F222_K0.7950.83
217_Q245_I0.7940.83
31_T54_L0.7920.83
230_F234_N0.7920.83
123_G155_L0.7910.83
219_L271_T0.7900.83
378_K383_V0.7890.83
24_F58_Y0.7890.83
58_Y61_L0.7870.83
66_I76_I0.7860.83
193_I202_R0.7860.83
136_V145_N0.7850.82
340_E343_K0.7800.82
384_A419_H0.7790.82
99_V102_D0.7780.82
360_Q390_A0.7750.82
180_L188_E0.7740.82
398_T401_S0.7740.82
398_T403_P0.7730.81
217_Q248_D0.7710.81
44_T79_V0.7680.81
145_N233_F0.7680.81
161_M244_V0.7660.81
354_I445_L0.7590.80
135_A283_A0.7570.80
186_T222_K0.7550.80
262_R266_E0.7540.80
385_F412_R0.7520.80
55_E59_L0.7490.79
183_E228_E0.7480.79
116_T166_H0.7410.79
233_F237_H0.7400.79
206_R236_L0.7390.78
395_R421_H0.7390.78
319_L342_L0.7340.78
352_K386_P0.7330.78
427_L430_D0.7320.78
169_I173_P0.7320.78
255_P320_I0.7310.78
418_I421_H0.7310.78
287_K290_K0.7280.77
158_T248_D0.7280.77
118_D167_Y0.7270.77
42_T77_K0.7260.77
391_M409_F0.7260.77
45_A50_A0.7250.77
300_V333_I0.7220.77
385_F437_H0.7220.77
322_V341_A0.7210.77
14_Q65_T0.7210.77
181_S184_K0.7190.77
7_L33_A0.7180.76
303_Y384_A0.7180.76
269_L321_R0.7160.76
27_W30_S0.7150.76
381_K385_F0.7150.76
397_M441_I0.7130.76
120_F160_L0.7130.76
226_Q288_K0.7110.76
249_R256_T0.7110.76
63_A67_Y0.7100.76
275_P344_D0.7100.76
96_K101_E0.7090.76
125_G277_D0.7090.76
95_V98_A0.7080.75
47_N80_I0.7070.75
287_K365_Q0.7060.75
133_S136_V0.7060.75
191_N194_R0.7050.75
437_H441_I0.7040.75
436_Q440_E0.7030.75
214_D248_D0.7030.75
187_N206_R0.7020.75
403_P409_F0.6980.74
23_S26_T0.6940.74
16_E58_Y0.6920.74
167_Y336_D0.6900.74
148_F265_F0.6890.73
186_T189_F0.6890.73
257_L262_R0.6870.73
12_L16_E0.6870.73
146_P233_F0.6860.73
128_F269_L0.6840.73
216_I265_F0.6830.73
359_I393_L0.6820.73
7_L66_I0.6820.73
182_S217_Q0.6810.73
44_T78_F0.6800.72
407_E411_G0.6800.72
11_A31_T0.6790.72
325_Y337_L0.6780.72
240_S245_I0.6760.72
324_A328_L0.6760.72
199_V203_N0.6750.72
155_L312_I0.6730.72
358_E445_L0.6730.72
98_A103_T0.6720.72
284_I312_I0.6720.72
202_R232_T0.6720.72
371_L374_F0.6700.71
112_N162_H0.6690.71
141_A401_S0.6680.71
161_M214_D0.6680.71
125_G273_I0.6670.71
397_M442_K0.6640.71
185_F232_T0.6630.71
277_D280_T0.6620.70
149_I271_T0.6620.70
115_Y180_L0.6620.70
61_L64_D0.6620.70
187_N232_T0.6600.70
155_L311_N0.6590.70
234_N264_R0.6570.70
226_Q257_L0.6550.70
7_L11_A0.6540.70
134_L138_E0.6500.69
360_Q400_S0.6500.69
232_T236_L0.6500.69
258_E262_R0.6480.69
138_E167_Y0.6480.69
38_G101_E0.6470.69
243_I341_A0.6460.69
188_E342_L0.6460.69
204_R216_I0.6450.68
218_F227_E0.6450.68
435_Q442_K0.6430.68
379_R413_D0.6430.68
128_F270_I0.6400.68
27_W267_W0.6400.68
287_K291_A0.6390.68
232_T235_T0.6390.68
236_L243_I0.6380.68
224_Q227_E0.6360.67
10_Q13_A0.6350.67
402_L415_T0.6320.67
27_W388_Q0.6320.67
46_P80_I0.6320.67
122_I127_R0.6310.67
7_L10_Q0.6290.67
231_H324_A0.6290.67
360_Q394_S0.6280.66
136_V272_D0.6270.66
124_S271_T0.6270.66
385_F424_I0.6270.66
182_S383_V0.6250.66
98_A102_D0.6200.65
29_K133_S0.6190.65
216_I246_S0.6190.65
415_T419_H0.6190.65
268_G414_H0.6170.65
10_Q14_Q0.6160.65
189_F196_N0.6150.65
167_Y287_K0.6150.65
116_T119_T0.6140.65
60_H332_D0.6140.65
230_F265_F0.6140.65
381_K388_Q0.6140.65
185_F206_R0.6130.65
380_T384_A0.6120.64
438_V442_K0.6110.64
146_P234_N0.6100.64
362_V365_Q0.6100.64
59_L76_I0.6090.64
213_I270_I0.6090.64
362_V441_I0.6080.64
95_V99_V0.6080.64
281_R309_D0.6070.64
95_V101_E0.6070.64
389_I430_D0.6060.64
413_D423_K0.6050.64
81_P84_Q0.6050.64
258_E263_S0.6050.64
182_S213_I0.6050.64
398_T402_L0.6040.63
183_E231_H0.6020.63
226_Q258_E0.6010.63
87_E93_P0.6000.63
128_F271_T0.5990.63
83_N86_V0.5990.63
374_F384_A0.5970.63
217_Q260_R0.5960.62
218_F228_E0.5960.62
136_V146_P0.5950.62
100_K105_D0.5950.62
64_D68_E0.5940.62
419_H423_K0.5940.62
393_L397_M0.5940.62
165_G246_S0.5940.62
232_T280_T0.5940.62
297_P332_D0.5920.62
358_E361_R0.5920.62
389_I424_I0.5870.61
96_K103_T0.5860.61
100_K103_T0.5860.61
250_P270_I0.5860.61
388_Q423_K0.5840.61
41_L51_R0.5820.61
381_K418_I0.5800.60
93_P97_K0.5800.60
202_R240_S0.5790.60
125_G300_V0.5790.60
101_E105_D0.5790.60
440_E443_E0.5780.60
86_V103_T0.5780.60
386_P416_T0.5770.60
280_T283_A0.5770.60
135_A274_T0.5740.60
145_N311_N0.5740.60
155_L279_E0.5740.60
45_A49_F0.5740.60
198_A232_T0.5710.59
85_D174_S0.5710.59
254_I395_R0.5700.59
39_D75_S0.5690.59
43_I416_T0.5690.59
124_S302_L0.5690.59
373_D389_I0.5680.59
161_M378_K0.5680.59
43_I59_L0.5680.59
153_V321_R0.5680.59
256_T262_R0.5660.58
212_L224_Q0.5660.58
401_S417_V0.5650.58
381_K428_L0.5640.58
314_E342_L0.5640.58
385_F389_I0.5640.58
27_W226_Q0.5640.58
146_P317_G0.5640.58
397_M403_P0.5630.58
15_I65_T0.5620.58
205_Y233_F0.5610.58
355_T358_E0.5610.58
373_D382_S0.5600.58
99_V104_S0.5600.58
139_A142_K0.5590.58
354_I398_T0.5590.58
34_H79_V0.5580.57
55_E63_A0.5580.57
237_H320_I0.5580.57
380_T386_P0.5580.57
395_R403_P0.5560.57
237_H245_I0.5550.57
95_V106_F0.5540.57
217_Q317_G0.5540.57
161_M246_S0.5540.57
303_Y307_Q0.5530.57
208_V289_A0.5530.57
190_I218_F0.5530.57
393_L441_I0.5520.57
399_D404_K0.5520.57
153_V184_K0.5510.56
118_D170_D0.5500.56
437_H440_E0.5500.56
187_N202_R0.5490.56
180_L353_V0.5470.56
5_L9_N0.5460.56
412_R424_I0.5460.56
214_D317_G0.5440.56
87_E100_K0.5440.56
155_L305_A0.5440.56
424_I427_L0.5430.55
20_S23_S0.5410.55
354_I383_V0.5410.55
266_E314_E0.5400.55
102_D106_F0.5400.55
369_I444_Q0.5400.55
17_K73_E0.5390.55
201_F261_L0.5390.55
66_I70_T0.5370.55
111_L285_L0.5360.54
162_H165_G0.5340.54
361_R404_K0.5340.54
135_A272_D0.5330.54
265_F284_I0.5320.54
179_Y246_S0.5320.54
119_T292_E0.5320.54
386_P391_M0.5320.54
183_E222_K0.5310.54
165_G319_L0.5300.54
124_S227_E0.5300.54
82_Q98_A0.5290.53
357_K361_R0.5290.53
15_I19_L0.5290.53
202_R206_R0.5290.53
304_I342_L0.5280.53
293_G371_L0.5280.53
85_D93_P0.5280.53
299_E335_A0.5280.53
386_P389_I0.5270.53
275_P311_N0.5270.53
189_F202_R0.5260.53
86_V93_P0.5260.53
391_M419_H0.5240.53
217_Q229_F0.5240.53
96_K99_V0.5240.53
144_Y231_H0.5230.53
102_D107_P0.5220.53
108_Q169_I0.5220.53
68_E103_T0.5210.52
98_A106_F0.5210.52
27_W416_T0.5200.52
98_A101_E0.5200.52
151_G261_L0.5200.52
402_L405_I0.5190.52
121_V155_L0.5190.52
246_S249_R0.5180.52
247_S265_F0.5180.52
152_G310_S0.5180.52
392_Y421_H0.5180.52
220_A249_R0.5180.52
362_V366_Q0.5170.52
324_A398_T0.5170.52
260_R279_E0.5160.52
132_A310_S0.5160.52
127_R134_L0.5150.52
193_I207_N0.5150.52
198_A412_R0.5140.51
57_R412_R0.5130.51
147_L269_L0.5130.51
31_T78_F0.5130.51
94_Q98_A0.5130.51
182_S246_S0.5120.51
325_Y346_I0.5120.51
88_D100_K0.5110.51
187_N276_P0.5090.51
24_F78_F0.5090.51
96_K102_D0.5090.51
94_Q101_E0.5080.51
184_K254_I0.5080.51
158_T260_R0.5070.50
113_P244_V0.5060.50
94_Q104_S0.5060.50
35_S87_E0.5060.50
88_D93_P0.5060.50
322_V418_I0.5050.50
334_N429_A0.5050.50
351_P354_I0.5050.50
281_R285_L0.5050.50
358_E362_V0.5040.50
186_T202_R0.5040.50
354_I359_I0.5030.50
369_I383_V0.5000.49
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  
2z4sA 1 0.5359 100 0.376 Contact Map
1l8qA 1 0.7085 100 0.573 Contact Map
3nbxX 1 0.7175 100 0.652 Contact Map
3bosA 2 0.5157 100 0.758 Contact Map
2qgzA 1 0.3857 100 0.777 Contact Map
1j1vA 1 0.2085 100 0.779 Contact Map
4w5wA 1 0.5291 100 0.781 Contact Map
3pvvA 1 0.2063 100 0.784 Contact Map
2r44A 1 0.5964 100 0.814 Contact Map
3u61B 3 0.6861 100 0.823 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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