PRIL - HALSA - GREMLIN Contacts

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PRIL - DNA primase large subunit PriL

UniProt:	Q9HN47	Sequences: MNARHARYPFLGDARDAVEEAGVDLARVVTEDDAVVERARERVVSALTDGTIGEPAATVSTRVEVLSYPVARVLVSIVDESVLVRKYATAEADAAYDRFTADESTDTDLKSVSDTTRVSRDTLLSEFDLRAHVHATPDAHTVDVPTYLLLASSLRDDDWRLVNRALDDGRVPVTDAELDTLIREAIRERVADGLPLSVPDQIADALDEPVAAIQDALADLDLTREIDTVVPELFPPCMKHLLDQVQRGDHLPHHARFAITSFLSNVGLSTDEIVDIYEVNPGFGEEMTRYQTDHIQGDSSPTEYTAPSCATMKAYGNCVNPDDLCDAINHPLSYYEVKLDDGDDDDLADWRDREDDDSPD	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

HALSA - PRIL
SULSO - PRIL

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_C	321_P	7.917	1.00
318_C	322_D	6.563	1.00
242_L	259_I	5.525	1.00
265_N	306_A	4.068	1.00
294_H	304_Y	4.006	1.00
319_V	322_D	3.928	1.00
293_D	298_D	3.598	1.00
227_D	246_Q	3.430	1.00
317_N	321_P	3.385	1.00
316_G	321_P	3.208	1.00
253_H	304_Y	3.199	1.00
264_S	296_Q	3.139	1.00
315_Y	318_C	2.986	0.99
294_H	297_G	2.954	0.99
271_D	292_T	2.939	0.99
317_N	320_N	2.832	0.99
290_Y	294_H	2.818	0.99
316_G	319_V	2.713	0.99
316_G	320_N	2.679	0.99
258_A	312_M	2.602	0.98
257_F	295_I	2.530	0.98
227_D	242_L	2.512	0.98
316_G	322_D	2.484	0.98
79_D	85_R	2.440	0.97
290_Y	297_G	2.427	0.97
253_H	294_H	2.383	0.97
143_D	170_R	2.339	0.97
260_T	295_I	2.311	0.96
307_P	311_T	2.261	0.96
241_L	255_A	2.197	0.95
298_D	301_P	2.180	0.95
265_N	332_L	2.127	0.94
164_R	171_V	2.065	0.93
256_R	290_Y	2.006	0.92
83_L	194_L	1.960	0.91
253_H	290_Y	1.920	0.90
317_N	322_D	1.879	0.89
238_M	259_I	1.846	0.88
237_C	309_C	1.825	0.88
72_R	150_L	1.784	0.87
147_Y	181_L	1.760	0.86
76_S	88_A	1.743	0.85
43_V	47_L	1.705	0.84
79_D	84_V	1.700	0.84
256_R	297_G	1.658	0.82
229_V	259_I	1.649	0.82
315_Y	321_P	1.549	0.78
62_R	66_L	1.548	0.77
256_R	283_F	1.521	0.76
85_R	253_H	1.520	0.76
88_A	191_A	1.509	0.76
241_L	251_L	1.508	0.76
42_R	91_E	1.483	0.74
266_V	335_Y	1.481	0.74
256_R	294_H	1.475	0.74
250_H	282_G	1.473	0.74
233_L	338_K	1.461	0.73
107_T	111_S	1.421	0.71
253_H	288_T	1.411	0.70
253_H	256_R	1.409	0.70
277_Y	290_Y	1.400	0.70
142_V	238_M	1.398	0.70
251_L	263_L	1.376	0.68
242_L	246_Q	1.366	0.68
223_T	247_R	1.363	0.68
84_V	194_L	1.360	0.68
254_H	257_F	1.357	0.67
94_A	98_R	1.335	0.66
234_F	262_F	1.334	0.66
194_L	306_A	1.326	0.66
41_E	173_V	1.305	0.64
147_Y	171_V	1.291	0.63
253_H	297_G	1.279	0.63
227_D	230_V	1.279	0.63
256_R	277_Y	1.267	0.62
86_K	289_R	1.257	0.61
79_D	271_D	1.244	0.60
257_F	307_P	1.243	0.60
78_V	207_D	1.230	0.60
253_H	291_Q	1.217	0.59
68_Y	293_D	1.215	0.59
285_E	289_R	1.214	0.59
221_D	270_T	1.212	0.58
72_R	193_G	1.212	0.58
122_T	274_V	1.207	0.58
327_A	333_S	1.202	0.58
86_K	187_R	1.201	0.58
260_T	277_Y	1.199	0.58
41_E	45_S	1.192	0.57
286_E	299_S	1.185	0.57
72_R	76_S	1.181	0.56
149_L	213_I	1.173	0.56
208_E	214_Q	1.169	0.56
68_Y	72_R	1.165	0.55
253_H	257_F	1.151	0.54
147_Y	164_R	1.150	0.54
63_V	236_P	1.136	0.53
331_P	334_Y	1.119	0.52
149_L	180_T	1.119	0.52
50_G	54_E	1.116	0.52
222_L	336_E	1.112	0.52
72_R	194_L	1.110	0.52
328_I	334_Y	1.105	0.51
67_S	91_E	1.097	0.51
66_L	113_S	1.082	0.50
86_K	90_A	1.072	0.49
64_E	95_A	1.063	0.49
262_F	292_T	1.058	0.48
250_H	256_R	1.051	0.48
56_A	329_N	1.037	0.47
80_E	342_G	1.034	0.47
335_Y	340_D	1.030	0.46
264_S	273_I	1.029	0.46
273_I	296_Q	1.026	0.46
256_R	288_T	1.026	0.46
121_D	141_T	1.020	0.46
52_I	292_T	1.012	0.45
39_A	43_V	1.009	0.45
39_A	42_R	1.007	0.45
70_V	182_I	1.006	0.45
84_V	190_V	1.005	0.45
200_D	207_D	0.996	0.44
85_R	260_T	0.986	0.43
219_D	311_T	0.986	0.43
271_D	289_R	0.982	0.43
68_Y	194_L	0.974	0.43
121_D	168_D	0.972	0.43
332_L	338_K	0.971	0.42
103_E	126_E	0.969	0.42
175_D	179_D	0.969	0.42
86_K	278_E	0.961	0.42
59_V	192_D	0.956	0.42
283_F	290_Y	0.954	0.41
110_K	114_D	0.951	0.41
252_P	255_A	0.948	0.41
164_R	186_I	0.946	0.41
102_D	216_A	0.940	0.40
147_Y	162_V	0.938	0.40
200_D	319_V	0.930	0.40
263_L	334_Y	0.930	0.40
49_D	53_G	0.927	0.40
163_N	248_G	0.926	0.40
86_K	116_T	0.920	0.39
39_A	46_A	0.919	0.39
283_F	297_G	0.918	0.39
166_L	330_H	0.915	0.39
182_I	271_D	0.913	0.39
39_A	45_S	0.905	0.38
250_H	290_Y	0.902	0.38
145_P	278_E	0.900	0.38
202_I	207_D	0.898	0.38
202_I	208_E	0.897	0.38
170_R	271_D	0.895	0.38
39_A	49_D	0.893	0.37
242_L	248_G	0.891	0.37
95_A	186_I	0.891	0.37
74_L	182_I	0.878	0.37
238_M	245_V	0.874	0.36
49_D	272_E	0.871	0.36
201_Q	266_V	0.870	0.36
70_V	152_S	0.865	0.36
163_N	317_N	0.865	0.36
67_S	72_R	0.861	0.36
79_D	194_L	0.856	0.35
264_S	303_E	0.854	0.35
47_L	52_I	0.848	0.35
257_F	294_H	0.846	0.35
46_A	52_I	0.844	0.34
315_Y	322_D	0.843	0.34
293_D	301_P	0.841	0.34
260_T	291_Q	0.837	0.34
323_D	328_I	0.832	0.34
69_P	182_I	0.831	0.34
283_F	294_H	0.830	0.34
255_A	317_N	0.829	0.34
57_A	60_S	0.825	0.33
228_T	323_D	0.822	0.33
212_A	329_N	0.821	0.33
75_V	217_L	0.820	0.33
250_H	283_F	0.819	0.33
188_E	246_Q	0.817	0.33
278_E	324_L	0.817	0.33
119_S	168_D	0.816	0.33
328_I	333_S	0.812	0.33
250_H	288_T	0.808	0.32
113_S	232_E	0.808	0.32
239_K	243_D	0.807	0.32
47_L	193_G	0.807	0.32
140_H	182_I	0.806	0.32
250_H	277_Y	0.804	0.32
291_Q	295_I	0.803	0.32
63_V	174_T	0.802	0.32
270_T	299_S	0.801	0.32
250_H	261_S	0.800	0.32
45_S	51_T	0.795	0.32
256_R	304_Y	0.792	0.31
238_M	278_E	0.791	0.31
142_V	151_A	0.790	0.31
47_L	50_G	0.786	0.31
55_P	59_V	0.782	0.31
68_Y	75_V	0.782	0.31
277_Y	294_H	0.780	0.31
61_T	341_D	0.778	0.31
233_L	342_G	0.771	0.30
261_S	277_Y	0.770	0.30
211_A	333_S	0.770	0.30
64_E	94_A	0.759	0.30
260_T	292_T	0.756	0.29
236_P	282_G	0.756	0.29
299_S	338_K	0.754	0.29
241_L	277_Y	0.753	0.29
58_T	275_D	0.752	0.29
244_Q	272_E	0.749	0.29
168_D	247_R	0.748	0.29
43_V	51_T	0.748	0.29
277_Y	283_F	0.747	0.29
64_E	67_S	0.747	0.29
64_E	264_S	0.747	0.29
177_E	314_A	0.743	0.29
184_E	248_G	0.737	0.28
306_A	329_N	0.736	0.28
189_R	212_A	0.735	0.28
108_D	187_R	0.734	0.28
266_V	302_T	0.730	0.28
250_H	291_Q	0.724	0.28
150_L	194_L	0.724	0.28
232_E	342_G	0.722	0.28
326_D	337_V	0.722	0.28
269_S	272_E	0.720	0.27
69_P	144_V	0.720	0.27
315_Y	320_N	0.717	0.27
66_L	70_V	0.714	0.27
102_D	108_D	0.709	0.27
244_Q	248_G	0.709	0.27
174_T	200_D	0.707	0.27
148_L	178_L	0.703	0.27
288_T	293_D	0.702	0.27
301_P	315_Y	0.702	0.27
74_L	257_F	0.697	0.26
288_T	294_H	0.696	0.26
153_S	269_S	0.693	0.26
250_H	253_H	0.691	0.26
127_F	141_T	0.688	0.26
206_L	300_S	0.687	0.26
55_P	58_T	0.687	0.26
230_V	233_L	0.685	0.26
181_L	328_I	0.684	0.26
213_I	230_V	0.684	0.26
290_Y	304_Y	0.684	0.26
118_V	215_D	0.684	0.26
204_D	236_P	0.683	0.26
235_P	309_C	0.681	0.25
43_V	49_D	0.677	0.25
70_V	321_P	0.677	0.25
247_R	270_T	0.675	0.25
255_A	258_A	0.675	0.25
45_S	48_T	0.672	0.25
97_D	181_L	0.667	0.25
271_D	319_V	0.666	0.25
60_S	176_A	0.665	0.25
68_Y	94_A	0.665	0.25
243_D	324_L	0.664	0.25
337_V	340_D	0.664	0.25
76_S	286_E	0.664	0.25
211_A	225_E	0.663	0.25
330_H	335_Y	0.663	0.25
270_T	296_Q	0.661	0.24
113_S	116_T	0.660	0.24
71_A	94_A	0.660	0.24
245_V	251_L	0.660	0.24
61_T	65_V	0.660	0.24
135_A	182_I	0.657	0.24
76_S	124_L	0.657	0.24
327_A	338_K	0.657	0.24
41_E	51_T	0.656	0.24
98_R	205_A	0.655	0.24
184_E	282_G	0.651	0.24
270_T	292_T	0.651	0.24
63_V	277_Y	0.650	0.24
94_A	298_D	0.650	0.24
147_Y	318_C	0.647	0.24
306_A	330_H	0.645	0.24
204_D	209_P	0.644	0.24
107_T	168_D	0.644	0.24
63_V	216_A	0.644	0.24
252_P	257_F	0.642	0.24
260_T	273_I	0.641	0.23
315_Y	319_V	0.641	0.23
250_H	296_Q	0.640	0.23
55_P	166_L	0.639	0.23
306_A	335_Y	0.637	0.23
213_I	221_D	0.637	0.23
117_R	146_T	0.636	0.23
40_R	44_V	0.636	0.23
111_S	271_D	0.636	0.23
70_V	213_I	0.631	0.23
76_S	260_T	0.626	0.23
173_V	220_L	0.625	0.23
277_Y	291_Q	0.625	0.23
181_L	218_A	0.624	0.23
68_Y	87_Y	0.623	0.23
126_E	134_H	0.622	0.23
88_A	298_D	0.622	0.23
309_C	331_P	0.620	0.22
235_P	304_Y	0.619	0.22
69_P	87_Y	0.619	0.22
233_L	330_H	0.617	0.22
273_I	288_T	0.617	0.22
205_A	298_D	0.616	0.22
44_V	48_T	0.616	0.22
162_V	261_S	0.615	0.22
103_E	107_T	0.613	0.22
250_H	297_G	0.613	0.22
151_A	205_A	0.613	0.22
307_P	315_Y	0.613	0.22
293_D	299_S	0.611	0.22
267_G	330_H	0.611	0.22
39_A	54_E	0.610	0.22
261_S	286_E	0.609	0.22
104_S	175_D	0.608	0.22
273_I	336_E	0.608	0.22
48_T	51_T	0.608	0.22
278_E	286_E	0.606	0.22
69_P	189_R	0.606	0.22
98_R	298_D	0.606	0.22
126_E	241_L	0.605	0.22
240_H	272_E	0.605	0.22
236_P	335_Y	0.603	0.22
41_E	245_V	0.603	0.22
83_L	306_A	0.602	0.22
296_Q	299_S	0.601	0.22
122_T	133_V	0.597	0.21
323_D	327_A	0.595	0.21
221_D	249_D	0.595	0.21
218_A	323_D	0.594	0.21
182_I	201_Q	0.593	0.21
226_I	274_V	0.593	0.21
196_L	199_P	0.591	0.21
126_E	204_D	0.591	0.21
253_H	305_T	0.590	0.21
52_I	323_D	0.590	0.21
142_V	338_K	0.590	0.21
217_L	222_L	0.589	0.21
163_N	212_A	0.589	0.21
239_K	252_P	0.586	0.21
337_V	341_D	0.586	0.21
54_E	135_A	0.585	0.21
197_S	202_I	0.585	0.21
283_F	288_T	0.585	0.21
114_D	117_R	0.585	0.21
310_A	313_K	0.584	0.21
87_Y	127_F	0.583	0.21
244_Q	255_A	0.583	0.21
163_N	173_V	0.582	0.21
55_P	271_D	0.582	0.21
121_D	125_S	0.581	0.21
201_Q	289_R	0.580	0.21
67_S	143_D	0.579	0.21
124_L	127_F	0.579	0.21
218_A	279_V	0.577	0.21
265_N	335_Y	0.577	0.21
283_F	295_I	0.576	0.20
288_T	297_G	0.576	0.20
76_S	196_L	0.572	0.20
183_R	263_L	0.570	0.20
83_L	118_V	0.569	0.20
254_H	311_T	0.569	0.20
76_S	276_I	0.568	0.20
75_V	219_D	0.567	0.20
86_K	307_P	0.566	0.20
58_T	168_D	0.566	0.20
64_E	162_V	0.563	0.20
89_T	180_T	0.562	0.20
48_T	269_S	0.560	0.20
73_V	198_V	0.559	0.20
95_A	98_R	0.558	0.20
93_D	152_S	0.556	0.20
274_V	289_R	0.556	0.20
41_E	52_I	0.555	0.20
298_D	303_E	0.554	0.20
64_E	91_E	0.551	0.19
108_D	182_I	0.550	0.19
145_P	314_A	0.550	0.19
176_A	222_L	0.548	0.19
331_P	335_Y	0.548	0.19
68_Y	95_A	0.547	0.19
237_C	331_P	0.547	0.19
101_A	104_S	0.546	0.19
292_T	298_D	0.546	0.19
242_L	257_F	0.546	0.19
230_V	339_L	0.542	0.19
152_S	271_D	0.542	0.19
67_S	262_F	0.541	0.19
308_S	314_A	0.540	0.19
339_L	343_D	0.539	0.19
223_T	239_K	0.539	0.19
222_L	301_P	0.538	0.19
102_D	202_I	0.538	0.19
299_S	332_L	0.537	0.19
275_D	328_I	0.536	0.19
58_T	125_S	0.534	0.19
90_A	251_L	0.534	0.19
289_R	293_D	0.534	0.19
240_H	328_I	0.533	0.19
53_G	59_V	0.533	0.19
60_S	201_Q	0.532	0.19
77_I	207_D	0.531	0.19
39_A	50_G	0.531	0.19
44_V	135_A	0.527	0.18
207_D	211_A	0.526	0.18
43_V	74_L	0.525	0.18
72_R	98_R	0.524	0.18
140_H	253_H	0.520	0.18
164_R	174_T	0.518	0.18
107_T	132_H	0.518	0.18
163_N	270_T	0.518	0.18
142_V	207_D	0.516	0.18
68_Y	205_A	0.514	0.18
39_A	44_V	0.514	0.18
162_V	276_I	0.514	0.18
287_M	291_Q	0.514	0.18
254_H	315_Y	0.512	0.18
261_S	264_S	0.512	0.18
150_L	164_R	0.507	0.18
253_H	285_E	0.506	0.18
60_S	198_V	0.505	0.18
43_V	48_T	0.505	0.18
134_H	168_D	0.504	0.18
230_V	238_M	0.503	0.18
109_L	215_D	0.503	0.18
260_T	287_M	0.503	0.18
186_I	190_V	0.503	0.18
307_P	328_I	0.503	0.18
116_T	337_V	0.501	0.17
191_A	211_A	0.500	0.17

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

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling
Upload PDB model overlay contacts on the model

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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