GREMLIN Database
PRIL - DNA primase large subunit PriL
UniProt: Q9HN47 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 360 (290)
Sequences: 485 (359)
Seq/√Len: 21.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
318_C321_P7.9171.00
318_C322_D6.5631.00
242_L259_I5.5251.00
265_N306_A4.0681.00
294_H304_Y4.0061.00
319_V322_D3.9281.00
293_D298_D3.5981.00
227_D246_Q3.4301.00
317_N321_P3.3851.00
316_G321_P3.2081.00
253_H304_Y3.1991.00
264_S296_Q3.1391.00
315_Y318_C2.9860.99
294_H297_G2.9540.99
271_D292_T2.9390.99
317_N320_N2.8320.99
290_Y294_H2.8180.99
316_G319_V2.7130.99
316_G320_N2.6790.99
258_A312_M2.6020.98
257_F295_I2.5300.98
227_D242_L2.5120.98
316_G322_D2.4840.98
79_D85_R2.4400.97
290_Y297_G2.4270.97
253_H294_H2.3830.97
143_D170_R2.3390.97
260_T295_I2.3110.96
307_P311_T2.2610.96
241_L255_A2.1970.95
298_D301_P2.1800.95
265_N332_L2.1270.94
164_R171_V2.0650.93
256_R290_Y2.0060.92
83_L194_L1.9600.91
253_H290_Y1.9200.90
317_N322_D1.8790.89
238_M259_I1.8460.88
237_C309_C1.8250.88
72_R150_L1.7840.87
147_Y181_L1.7600.86
76_S88_A1.7430.85
43_V47_L1.7050.84
79_D84_V1.7000.84
256_R297_G1.6580.82
229_V259_I1.6490.82
315_Y321_P1.5490.78
62_R66_L1.5480.77
256_R283_F1.5210.76
85_R253_H1.5200.76
88_A191_A1.5090.76
241_L251_L1.5080.76
42_R91_E1.4830.74
266_V335_Y1.4810.74
256_R294_H1.4750.74
250_H282_G1.4730.74
233_L338_K1.4610.73
107_T111_S1.4210.71
253_H288_T1.4110.70
253_H256_R1.4090.70
277_Y290_Y1.4000.70
142_V238_M1.3980.70
251_L263_L1.3760.68
242_L246_Q1.3660.68
223_T247_R1.3630.68
84_V194_L1.3600.68
254_H257_F1.3570.67
94_A98_R1.3350.66
234_F262_F1.3340.66
194_L306_A1.3260.66
41_E173_V1.3050.64
147_Y171_V1.2910.63
253_H297_G1.2790.63
227_D230_V1.2790.63
256_R277_Y1.2670.62
86_K289_R1.2570.61
79_D271_D1.2440.60
257_F307_P1.2430.60
78_V207_D1.2300.60
253_H291_Q1.2170.59
68_Y293_D1.2150.59
285_E289_R1.2140.59
221_D270_T1.2120.58
72_R193_G1.2120.58
122_T274_V1.2070.58
327_A333_S1.2020.58
86_K187_R1.2010.58
260_T277_Y1.1990.58
41_E45_S1.1920.57
286_E299_S1.1850.57
72_R76_S1.1810.56
149_L213_I1.1730.56
208_E214_Q1.1690.56
68_Y72_R1.1650.55
253_H257_F1.1510.54
147_Y164_R1.1500.54
63_V236_P1.1360.53
331_P334_Y1.1190.52
149_L180_T1.1190.52
50_G54_E1.1160.52
222_L336_E1.1120.52
72_R194_L1.1100.52
328_I334_Y1.1050.51
67_S91_E1.0970.51
66_L113_S1.0820.50
86_K90_A1.0720.49
64_E95_A1.0630.49
262_F292_T1.0580.48
250_H256_R1.0510.48
56_A329_N1.0370.47
80_E342_G1.0340.47
335_Y340_D1.0300.46
264_S273_I1.0290.46
273_I296_Q1.0260.46
256_R288_T1.0260.46
121_D141_T1.0200.46
52_I292_T1.0120.45
39_A43_V1.0090.45
39_A42_R1.0070.45
70_V182_I1.0060.45
84_V190_V1.0050.45
200_D207_D0.9960.44
85_R260_T0.9860.43
219_D311_T0.9860.43
271_D289_R0.9820.43
68_Y194_L0.9740.43
121_D168_D0.9720.43
332_L338_K0.9710.42
103_E126_E0.9690.42
175_D179_D0.9690.42
86_K278_E0.9610.42
59_V192_D0.9560.42
283_F290_Y0.9540.41
110_K114_D0.9510.41
252_P255_A0.9480.41
164_R186_I0.9460.41
102_D216_A0.9400.40
147_Y162_V0.9380.40
200_D319_V0.9300.40
263_L334_Y0.9300.40
49_D53_G0.9270.40
163_N248_G0.9260.40
86_K116_T0.9200.39
39_A46_A0.9190.39
283_F297_G0.9180.39
166_L330_H0.9150.39
182_I271_D0.9130.39
39_A45_S0.9050.38
250_H290_Y0.9020.38
145_P278_E0.9000.38
202_I207_D0.8980.38
202_I208_E0.8970.38
170_R271_D0.8950.38
39_A49_D0.8930.37
242_L248_G0.8910.37
95_A186_I0.8910.37
74_L182_I0.8780.37
238_M245_V0.8740.36
49_D272_E0.8710.36
201_Q266_V0.8700.36
70_V152_S0.8650.36
163_N317_N0.8650.36
67_S72_R0.8610.36
79_D194_L0.8560.35
264_S303_E0.8540.35
47_L52_I0.8480.35
257_F294_H0.8460.35
46_A52_I0.8440.34
315_Y322_D0.8430.34
293_D301_P0.8410.34
260_T291_Q0.8370.34
323_D328_I0.8320.34
69_P182_I0.8310.34
283_F294_H0.8300.34
255_A317_N0.8290.34
57_A60_S0.8250.33
228_T323_D0.8220.33
212_A329_N0.8210.33
75_V217_L0.8200.33
250_H283_F0.8190.33
188_E246_Q0.8170.33
278_E324_L0.8170.33
119_S168_D0.8160.33
328_I333_S0.8120.33
250_H288_T0.8080.32
113_S232_E0.8080.32
239_K243_D0.8070.32
47_L193_G0.8070.32
140_H182_I0.8060.32
250_H277_Y0.8040.32
291_Q295_I0.8030.32
63_V174_T0.8020.32
270_T299_S0.8010.32
250_H261_S0.8000.32
45_S51_T0.7950.32
256_R304_Y0.7920.31
238_M278_E0.7910.31
142_V151_A0.7900.31
47_L50_G0.7860.31
55_P59_V0.7820.31
68_Y75_V0.7820.31
277_Y294_H0.7800.31
61_T341_D0.7780.31
233_L342_G0.7710.30
261_S277_Y0.7700.30
211_A333_S0.7700.30
64_E94_A0.7590.30
260_T292_T0.7560.29
236_P282_G0.7560.29
299_S338_K0.7540.29
241_L277_Y0.7530.29
58_T275_D0.7520.29
244_Q272_E0.7490.29
168_D247_R0.7480.29
43_V51_T0.7480.29
277_Y283_F0.7470.29
64_E67_S0.7470.29
64_E264_S0.7470.29
177_E314_A0.7430.29
184_E248_G0.7370.28
306_A329_N0.7360.28
189_R212_A0.7350.28
108_D187_R0.7340.28
266_V302_T0.7300.28
250_H291_Q0.7240.28
150_L194_L0.7240.28
232_E342_G0.7220.28
326_D337_V0.7220.28
269_S272_E0.7200.27
69_P144_V0.7200.27
315_Y320_N0.7170.27
66_L70_V0.7140.27
102_D108_D0.7090.27
244_Q248_G0.7090.27
174_T200_D0.7070.27
148_L178_L0.7030.27
288_T293_D0.7020.27
301_P315_Y0.7020.27
74_L257_F0.6970.26
288_T294_H0.6960.26
153_S269_S0.6930.26
250_H253_H0.6910.26
127_F141_T0.6880.26
206_L300_S0.6870.26
55_P58_T0.6870.26
230_V233_L0.6850.26
181_L328_I0.6840.26
213_I230_V0.6840.26
290_Y304_Y0.6840.26
118_V215_D0.6840.26
204_D236_P0.6830.26
235_P309_C0.6810.25
43_V49_D0.6770.25
70_V321_P0.6770.25
247_R270_T0.6750.25
255_A258_A0.6750.25
45_S48_T0.6720.25
97_D181_L0.6670.25
271_D319_V0.6660.25
60_S176_A0.6650.25
68_Y94_A0.6650.25
243_D324_L0.6640.25
337_V340_D0.6640.25
76_S286_E0.6640.25
211_A225_E0.6630.25
330_H335_Y0.6630.25
270_T296_Q0.6610.24
113_S116_T0.6600.24
71_A94_A0.6600.24
245_V251_L0.6600.24
61_T65_V0.6600.24
135_A182_I0.6570.24
76_S124_L0.6570.24
327_A338_K0.6570.24
41_E51_T0.6560.24
98_R205_A0.6550.24
184_E282_G0.6510.24
270_T292_T0.6510.24
63_V277_Y0.6500.24
94_A298_D0.6500.24
147_Y318_C0.6470.24
306_A330_H0.6450.24
204_D209_P0.6440.24
107_T168_D0.6440.24
63_V216_A0.6440.24
252_P257_F0.6420.24
260_T273_I0.6410.23
315_Y319_V0.6410.23
250_H296_Q0.6400.23
55_P166_L0.6390.23
306_A335_Y0.6370.23
213_I221_D0.6370.23
117_R146_T0.6360.23
40_R44_V0.6360.23
111_S271_D0.6360.23
70_V213_I0.6310.23
76_S260_T0.6260.23
173_V220_L0.6250.23
277_Y291_Q0.6250.23
181_L218_A0.6240.23
68_Y87_Y0.6230.23
126_E134_H0.6220.23
88_A298_D0.6220.23
309_C331_P0.6200.22
235_P304_Y0.6190.22
69_P87_Y0.6190.22
233_L330_H0.6170.22
273_I288_T0.6170.22
205_A298_D0.6160.22
44_V48_T0.6160.22
162_V261_S0.6150.22
103_E107_T0.6130.22
250_H297_G0.6130.22
151_A205_A0.6130.22
307_P315_Y0.6130.22
293_D299_S0.6110.22
267_G330_H0.6110.22
39_A54_E0.6100.22
261_S286_E0.6090.22
104_S175_D0.6080.22
273_I336_E0.6080.22
48_T51_T0.6080.22
278_E286_E0.6060.22
69_P189_R0.6060.22
98_R298_D0.6060.22
126_E241_L0.6050.22
240_H272_E0.6050.22
236_P335_Y0.6030.22
41_E245_V0.6030.22
83_L306_A0.6020.22
296_Q299_S0.6010.22
122_T133_V0.5970.21
323_D327_A0.5950.21
221_D249_D0.5950.21
218_A323_D0.5940.21
182_I201_Q0.5930.21
226_I274_V0.5930.21
196_L199_P0.5910.21
126_E204_D0.5910.21
253_H305_T0.5900.21
52_I323_D0.5900.21
142_V338_K0.5900.21
217_L222_L0.5890.21
163_N212_A0.5890.21
239_K252_P0.5860.21
337_V341_D0.5860.21
54_E135_A0.5850.21
197_S202_I0.5850.21
283_F288_T0.5850.21
114_D117_R0.5850.21
310_A313_K0.5840.21
87_Y127_F0.5830.21
244_Q255_A0.5830.21
163_N173_V0.5820.21
55_P271_D0.5820.21
121_D125_S0.5810.21
201_Q289_R0.5800.21
67_S143_D0.5790.21
124_L127_F0.5790.21
218_A279_V0.5770.21
265_N335_Y0.5770.21
283_F295_I0.5760.20
288_T297_G0.5760.20
76_S196_L0.5720.20
183_R263_L0.5700.20
83_L118_V0.5690.20
254_H311_T0.5690.20
76_S276_I0.5680.20
75_V219_D0.5670.20
86_K307_P0.5660.20
58_T168_D0.5660.20
64_E162_V0.5630.20
89_T180_T0.5620.20
48_T269_S0.5600.20
73_V198_V0.5590.20
95_A98_R0.5580.20
93_D152_S0.5560.20
274_V289_R0.5560.20
41_E52_I0.5550.20
298_D303_E0.5540.20
64_E91_E0.5510.19
108_D182_I0.5500.19
145_P314_A0.5500.19
176_A222_L0.5480.19
331_P335_Y0.5480.19
68_Y95_A0.5470.19
237_C331_P0.5470.19
101_A104_S0.5460.19
292_T298_D0.5460.19
242_L257_F0.5460.19
230_V339_L0.5420.19
152_S271_D0.5420.19
67_S262_F0.5410.19
308_S314_A0.5400.19
339_L343_D0.5390.19
223_T239_K0.5390.19
222_L301_P0.5380.19
102_D202_I0.5380.19
299_S332_L0.5370.19
275_D328_I0.5360.19
58_T125_S0.5340.19
90_A251_L0.5340.19
289_R293_D0.5340.19
240_H328_I0.5330.19
53_G59_V0.5330.19
60_S201_Q0.5320.19
77_I207_D0.5310.19
39_A50_G0.5310.19
44_V135_A0.5270.18
207_D211_A0.5260.18
43_V74_L0.5250.18
72_R98_R0.5240.18
140_H253_H0.5200.18
164_R174_T0.5180.18
107_T132_H0.5180.18
163_N270_T0.5180.18
142_V207_D0.5160.18
68_Y205_A0.5140.18
39_A44_V0.5140.18
162_V276_I0.5140.18
287_M291_Q0.5140.18
254_H315_Y0.5120.18
261_S264_S0.5120.18
150_L164_R0.5070.18
253_H285_E0.5060.18
60_S198_V0.5050.18
43_V48_T0.5050.18
134_H168_D0.5040.18
230_V238_M0.5030.18
109_L215_D0.5030.18
260_T287_M0.5030.18
186_I190_V0.5030.18
307_P328_I0.5030.18
116_T337_V0.5010.17
191_A211_A0.5000.17
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  
4rr2B 1 0.8889 100 0.312 Contact Map
3l9qA 3 0.325 100 0.614 Contact Map
3lgbA 1 0.3944 100 0.634 Contact Map
1zt2B 2 0.5667 100 0.661 Contact Map
4bpxB 1 0.5167 100 0.718 Contact Map
2dlaA 2 0.5944 98.9 0.886 Contact Map
2gmgA 1 0.2694 29.9 0.968 Contact Map
1q08A 2 0.1944 22.6 0.97 Contact Map
1b0nB 1 0.0861 16.3 0.972 Contact Map
2elcA 4 0.325 14 0.972 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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