TOP6A - HALSA - GREMLIN Contacts

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TOP6A - Type 2 DNA topoisomerase 6 subunit A

UniProt:	Q9HR32	Sequences: MSETHTSDETEARDQLLAIAEQFYDQFADGDIPRMSLPTRSKSNIEYDEDADVWVYGDSQSTRSANSVRGARKLLKSVYTVDFLAQQLDEGRSSTLRELYYLSESWDEAEAQFNDQSESDKLVEDLEIVSGVKREDFHMRPEESGAKVMGPLRLREQTRRGDREIHCQEDVGQGGYQIPNNPDTIDFLDTDADFVLCVETGGMRDRLVENGFDDDYNAIVVHLGGQPARATRRLTKRLHDELDLPVTVFTDGDPWSYRIYGSVAYGSIKSAHLSEYLATPQAQFIGIRPQDIVDYDLPTDPLSDSDVNALESELEDPRFQSDFWTEQIGLQLDIDKKAEQQALASRGLDFVTDTYLPERLAEMGVL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	366 (341)
Sequences:	510 (342)
Seq/√Len:	18.5

HALSA - TOP6A
SULSO - Q97ZE9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
203_M	341_Q	6.008	1.00
148_V	234_L	3.946	1.00
310_L	332_L	3.697	1.00
246_V	282_A	3.651	1.00
237_R	241_E	3.574	1.00
254_P	302_L	3.493	1.00
223_L	263_V	3.347	1.00
151_P	191_D	3.292	1.00
290_Q	327_Q	3.085	0.99
222_H	228_A	2.893	0.99
222_H	263_V	2.855	0.99
356_L	360_L	2.842	0.99
206_R	210_N	2.719	0.98
197_C	282_A	2.686	0.98
302_L	335_D	2.645	0.98
195_V	246_V	2.525	0.97
26_Q	31_D	2.504	0.97
236_K	240_D	2.490	0.96
200_T	222_H	2.470	0.96
192_A	219_I	2.410	0.96
17_L	95_T	2.362	0.95
201_G	205_D	2.337	0.95
260_Y	284_F	2.315	0.95
96_L	120_D	2.219	0.93
258_R	309_A	2.163	0.92
116_Q	120_D	2.115	0.92
232_R	266_G	2.087	0.91
223_L	228_A	2.080	0.91
204_R	222_H	2.063	0.90
88_L	130_S	2.059	0.90
221_V	231_T	2.058	0.90
17_L	85_A	2.057	0.90
98_E	202_G	2.008	0.89
194_F	218_A	1.992	0.89
224_G	228_A	1.981	0.89
96_L	124_E	1.951	0.88
288_R	359_R	1.924	0.87
144_S	228_A	1.906	0.86
77_S	235_T	1.882	0.86
220_V	227_P	1.879	0.86
161_G	195_V	1.877	0.86
258_R	316_D	1.872	0.85
228_A	340_Q	1.861	0.85
84_L	139_M	1.809	0.83
228_A	231_T	1.805	0.83
142_E	201_G	1.787	0.83
253_D	259_I	1.783	0.82
308_N	312_S	1.772	0.82
249_F	340_Q	1.765	0.82
197_C	248_V	1.759	0.82
145_G	263_V	1.733	0.81
147_K	201_G	1.719	0.80
116_Q	253_D	1.718	0.80
331_Q	341_Q	1.690	0.79
291_D	359_R	1.664	0.78
144_S	200_T	1.658	0.77
198_V	220_V	1.647	0.77
190_T	242_L	1.643	0.77
206_R	324_W	1.613	0.75
340_Q	351_V	1.602	0.75
220_V	285_I	1.601	0.75
261_G	324_W	1.589	0.74
35_M	42_K	1.587	0.74
200_T	341_Q	1.558	0.73
137_F	218_A	1.557	0.73
178_I	244_L	1.545	0.72
327_Q	337_K	1.529	0.71
96_L	253_D	1.515	0.71
197_C	200_T	1.497	0.70
223_L	252_G	1.496	0.70
178_I	231_T	1.490	0.69
194_F	212_F	1.478	0.69
198_V	204_R	1.471	0.68
342_A	347_G	1.458	0.68
12_A	16_L	1.431	0.66
226_Q	258_R	1.416	0.65
147_K	228_A	1.408	0.65
203_M	356_L	1.403	0.65
215_D	221_V	1.400	0.64
226_Q	255_W	1.396	0.64
200_T	204_R	1.395	0.64
40_R	206_R	1.395	0.64
86_Q	90_E	1.392	0.64
99_L	175_G	1.383	0.63
14_D	18_A	1.371	0.63
310_L	328_I	1.350	0.61
15_Q	18_A	1.344	0.61
197_C	210_N	1.339	0.61
220_V	294_D	1.339	0.61
197_C	235_T	1.339	0.61
260_Y	264_A	1.323	0.60
84_L	257_Y	1.321	0.60
154_L	302_L	1.319	0.60
248_V	260_Y	1.317	0.60
161_G	232_R	1.301	0.59
11_E	14_D	1.300	0.58
279_T	282_A	1.298	0.58
79_Y	103_S	1.288	0.58
207_L	220_V	1.286	0.58
200_T	340_Q	1.283	0.57
228_A	263_V	1.276	0.57
204_R	228_A	1.266	0.56
224_G	231_T	1.264	0.56
219_I	238_L	1.255	0.56
112_Q	257_Y	1.254	0.56
144_S	231_T	1.251	0.55
221_V	235_T	1.251	0.55
352_T	356_L	1.249	0.55
113_F	134_R	1.244	0.55
149_M	208_V	1.228	0.54
341_Q	344_A	1.219	0.54
162_D	198_V	1.216	0.53
229_R	346_R	1.211	0.53
190_T	234_L	1.207	0.53
188_L	238_L	1.204	0.53
234_L	347_G	1.203	0.53
307_V	335_D	1.197	0.52
284_F	288_R	1.191	0.52
138_H	210_N	1.166	0.50
9_E	12_A	1.164	0.50
156_E	206_R	1.163	0.50
81_V	204_R	1.154	0.49
192_A	244_L	1.153	0.49
219_I	285_I	1.142	0.49
289_P	331_Q	1.132	0.48
256_S	263_V	1.130	0.48
249_F	341_Q	1.128	0.48
206_R	209_E	1.123	0.48
307_V	332_L	1.123	0.48
137_F	267_S	1.123	0.48
175_G	292_I	1.118	0.47
200_T	337_K	1.117	0.47
192_A	342_A	1.116	0.47
73_K	236_K	1.116	0.47
10_T	23_F	1.114	0.47
95_T	341_Q	1.110	0.47
227_P	254_P	1.109	0.47
21_E	25_D	1.109	0.47
39_T	51_A	1.102	0.46
11_E	15_Q	1.101	0.46
252_G	335_D	1.100	0.46
288_R	327_Q	1.099	0.46
179_P	182_P	1.098	0.46
141_P	310_L	1.097	0.46
15_Q	29_D	1.093	0.46
352_T	357_P	1.075	0.45
145_G	228_A	1.075	0.45
180_N	253_D	1.066	0.44
126_L	332_L	1.064	0.44
252_G	277_L	1.062	0.44
15_Q	130_S	1.062	0.44
306_D	337_K	1.056	0.43
303_S	306_D	1.049	0.43
144_S	201_G	1.049	0.43
145_G	223_L	1.049	0.43
129_V	194_F	1.049	0.43
231_T	328_I	1.044	0.43
129_V	218_A	1.042	0.43
12_A	27_F	1.037	0.42
249_F	351_V	1.037	0.42
79_Y	224_G	1.036	0.42
207_L	217_N	1.036	0.42
57_G	118_E	1.034	0.42
310_L	316_D	1.033	0.42
27_F	325_T	1.032	0.42
96_L	103_S	1.030	0.42
87_Q	210_N	1.025	0.42
202_G	338_A	1.024	0.41
49_E	285_I	1.018	0.41
81_V	189_D	1.018	0.41
222_H	256_S	1.015	0.41
22_Q	29_D	1.005	0.40
224_G	338_A	1.002	0.40
167_C	192_A	1.000	0.40
31_D	36_S	0.997	0.40
141_P	144_S	0.996	0.40
139_M	244_L	0.988	0.39
91_G	238_L	0.983	0.39
22_Q	26_Q	0.983	0.39
330_L	333_D	0.977	0.39
126_L	300_D	0.972	0.38
97_R	101_Y	0.971	0.38
329_G	354_T	0.969	0.38
88_L	288_R	0.968	0.38
95_T	230_A	0.968	0.38
200_T	256_S	0.964	0.38
154_L	281_Q	0.963	0.38
144_S	263_V	0.962	0.38
18_A	41_S	0.958	0.38
10_T	25_D	0.956	0.37
127_E	284_F	0.956	0.37
286_G	341_Q	0.956	0.37
212_F	216_Y	0.954	0.37
292_I	334_I	0.954	0.37
207_L	344_A	0.953	0.37
175_G	278_A	0.951	0.37
152_L	167_C	0.949	0.37
100_Y	278_A	0.942	0.37
102_L	230_A	0.941	0.37
144_S	223_L	0.939	0.36
200_T	223_L	0.936	0.36
144_S	147_K	0.936	0.36
195_V	235_T	0.933	0.36
228_A	328_I	0.932	0.36
100_Y	336_K	0.927	0.36
11_E	29_D	0.927	0.36
155_R	198_V	0.925	0.36
99_L	271_A	0.916	0.35
97_R	199_E	0.915	0.35
23_F	31_D	0.910	0.35
58_D	220_V	0.909	0.35
9_E	91_G	0.908	0.35
200_T	203_M	0.898	0.34
96_L	127_E	0.893	0.34
49_E	62_T	0.893	0.34
103_S	253_D	0.892	0.34
264_A	309_A	0.890	0.34
206_R	343_L	0.890	0.34
18_A	21_E	0.878	0.33
138_H	265_Y	0.877	0.33
221_V	313_E	0.876	0.33
63_R	77_S	0.875	0.33
355_Y	359_R	0.872	0.33
223_L	235_T	0.870	0.33
84_L	87_Q	0.870	0.33
230_A	269_K	0.870	0.33
18_A	25_D	0.866	0.32
114_N	309_A	0.856	0.32
200_T	228_A	0.852	0.32
255_W	308_N	0.850	0.31
141_P	221_V	0.849	0.31
154_L	218_A	0.843	0.31
285_I	303_S	0.842	0.31
274_S	278_A	0.840	0.31
195_V	201_G	0.838	0.31
98_E	324_W	0.837	0.31
351_V	360_L	0.835	0.31
144_S	306_D	0.834	0.31
327_Q	343_L	0.834	0.31
137_F	256_S	0.832	0.30
39_T	55_V	0.832	0.30
13_R	89_D	0.830	0.30
122_L	129_V	0.830	0.30
100_Y	220_V	0.827	0.30
72_R	76_K	0.825	0.30
98_E	349_D	0.825	0.30
23_F	35_M	0.824	0.30
119_S	265_Y	0.822	0.30
144_S	224_G	0.817	0.30
197_C	222_H	0.816	0.30
47_Y	123_V	0.812	0.29
262_S	267_S	0.810	0.29
155_R	164_E	0.807	0.29
190_T	219_I	0.805	0.29
35_M	74_L	0.805	0.29
120_D	124_E	0.803	0.29
152_L	244_L	0.800	0.29
96_L	228_A	0.795	0.29
179_P	277_L	0.795	0.29
125_D	207_L	0.792	0.28
120_D	196_L	0.790	0.28
250_T	303_S	0.790	0.28
225_G	251_D	0.787	0.28
228_A	256_S	0.787	0.28
28_A	36_S	0.785	0.28
314_L	325_T	0.784	0.28
144_S	337_K	0.782	0.28
84_L	126_L	0.780	0.28
219_I	248_V	0.778	0.28
195_V	252_G	0.777	0.28
95_T	202_G	0.775	0.28
21_E	130_S	0.772	0.27
79_Y	96_L	0.771	0.27
252_G	289_P	0.770	0.27
201_G	253_D	0.769	0.27
78_V	126_L	0.768	0.27
98_E	313_E	0.766	0.27
288_R	323_F	0.765	0.27
99_L	139_M	0.765	0.27
100_Y	214_D	0.762	0.27
98_E	203_M	0.760	0.27
12_A	84_L	0.759	0.27
133_K	220_V	0.755	0.27
40_R	44_N	0.748	0.26
180_N	343_L	0.747	0.26
84_L	235_T	0.745	0.26
62_T	325_T	0.745	0.26
26_Q	33_P	0.744	0.26
68_V	173_Q	0.744	0.26
254_P	306_D	0.741	0.26
14_D	29_D	0.739	0.26
66_N	120_D	0.737	0.26
40_R	125_D	0.736	0.26
143_E	340_Q	0.734	0.26
46_E	238_L	0.732	0.25
74_L	236_K	0.732	0.25
29_D	52_D	0.731	0.25
70_G	234_L	0.726	0.25
134_R	232_R	0.725	0.25
124_E	341_Q	0.724	0.25
60_Q	343_L	0.723	0.25
191_D	236_K	0.723	0.25
47_Y	67_S	0.723	0.25
226_Q	312_S	0.722	0.25
227_P	343_L	0.722	0.25
354_T	358_E	0.721	0.25
138_H	194_F	0.721	0.25
115_D	287_I	0.718	0.25
165_I	234_L	0.716	0.25
302_L	307_V	0.716	0.25
198_V	289_P	0.716	0.25
55_V	220_V	0.715	0.25
131_G	360_L	0.713	0.25
124_E	141_P	0.713	0.25
227_P	263_V	0.710	0.24
154_L	178_I	0.705	0.24
71_A	125_D	0.705	0.24
273_L	276_Y	0.704	0.24
249_F	284_F	0.703	0.24
11_E	21_E	0.702	0.24
257_Y	331_Q	0.702	0.24
179_P	183_D	0.698	0.24
86_Q	269_K	0.697	0.24
20_A	34_R	0.696	0.24
219_I	308_N	0.693	0.24
13_R	37_L	0.689	0.23
51_A	59_S	0.689	0.23
253_D	277_L	0.689	0.23
199_E	251_D	0.688	0.23
149_M	288_R	0.688	0.23
20_A	28_A	0.685	0.23
11_E	17_L	0.683	0.23
87_Q	149_M	0.683	0.23
198_V	287_I	0.683	0.23
124_E	255_W	0.672	0.23
85_A	249_F	0.672	0.23
83_F	99_L	0.671	0.23
237_R	248_V	0.669	0.23
151_P	275_E	0.668	0.23
19_I	216_Y	0.664	0.22
254_P	286_G	0.661	0.22
42_K	49_E	0.660	0.22
235_T	288_R	0.659	0.22
25_D	29_D	0.657	0.22
80_T	341_Q	0.657	0.22
148_V	207_L	0.655	0.22
75_L	112_Q	0.654	0.22
96_L	112_Q	0.653	0.22
35_M	47_Y	0.652	0.22
10_T	22_Q	0.651	0.22
9_E	24_Y	0.650	0.22
152_L	164_E	0.648	0.22
84_L	268_I	0.647	0.22
101_Y	251_D	0.646	0.22
16_L	20_A	0.646	0.22
223_L	341_Q	0.645	0.22
111_A	202_G	0.643	0.21
150_G	341_Q	0.643	0.21
202_G	261_G	0.643	0.21
49_E	89_D	0.643	0.21
15_Q	27_F	0.643	0.21
97_R	251_D	0.642	0.21
84_L	123_V	0.640	0.21
311_E	332_L	0.639	0.21
263_V	340_Q	0.639	0.21
195_V	234_L	0.639	0.21
82_D	85_A	0.638	0.21
36_S	49_E	0.636	0.21
10_T	36_S	0.635	0.21
97_R	256_S	0.635	0.21
201_G	263_V	0.635	0.21
98_E	344_A	0.634	0.21
14_D	22_Q	0.632	0.21
96_L	277_L	0.630	0.21
22_Q	50_D	0.629	0.21
21_E	38_P	0.628	0.21
221_V	311_E	0.626	0.21
68_V	186_D	0.624	0.21
127_E	217_N	0.624	0.21
95_T	228_A	0.622	0.21
81_V	338_A	0.622	0.21
338_A	341_Q	0.620	0.21
200_T	249_F	0.617	0.20
32_I	95_T	0.616	0.20
16_L	232_R	0.613	0.20
309_A	316_D	0.611	0.20
130_S	256_S	0.611	0.20
351_V	357_P	0.611	0.20
10_T	14_D	0.609	0.20
194_F	216_Y	0.607	0.20
13_R	50_D	0.606	0.20
97_R	116_Q	0.606	0.20
99_L	322_D	0.605	0.20
43_S	49_E	0.605	0.20
264_A	279_T	0.604	0.20
102_L	206_R	0.602	0.20
21_E	28_A	0.601	0.20
47_Y	52_D	0.598	0.20
100_Y	292_I	0.598	0.20
10_T	34_R	0.596	0.20
125_D	343_L	0.595	0.20
200_T	263_V	0.594	0.19
207_L	223_L	0.591	0.19
272_H	277_L	0.588	0.19
103_S	114_N	0.587	0.19
302_L	310_L	0.583	0.19
15_Q	28_A	0.581	0.19
231_T	347_G	0.581	0.19
23_F	78_V	0.580	0.19
14_D	39_T	0.580	0.19
134_R	324_W	0.578	0.19
74_L	196_L	0.577	0.19
135_E	229_R	0.576	0.19
132_V	204_R	0.574	0.19
117_S	120_D	0.574	0.19
10_T	325_T	0.574	0.19
326_E	334_I	0.574	0.19
71_A	134_R	0.573	0.19
112_Q	258_R	0.573	0.19
310_L	349_D	0.571	0.19
112_Q	253_D	0.567	0.18
22_Q	25_D	0.564	0.18
133_K	234_L	0.563	0.18
225_G	259_I	0.562	0.18
67_S	265_Y	0.561	0.18
13_R	236_K	0.561	0.18
277_L	324_W	0.560	0.18
97_R	259_I	0.558	0.18
157_Q	162_D	0.558	0.18
11_E	18_A	0.557	0.18
151_P	166_H	0.556	0.18
125_D	271_A	0.556	0.18
15_Q	31_D	0.555	0.18
120_D	138_H	0.555	0.18
104_E	201_G	0.554	0.18
85_A	201_G	0.554	0.18
18_A	28_A	0.553	0.18
168_Q	267_S	0.553	0.18
302_L	306_D	0.553	0.18
66_N	77_S	0.553	0.18
14_D	34_R	0.552	0.18
15_Q	19_I	0.551	0.18
223_L	258_R	0.550	0.18
96_L	309_A	0.549	0.18
119_S	126_L	0.549	0.18
122_L	262_S	0.549	0.18
204_R	207_L	0.549	0.18
193_D	208_V	0.549	0.18
284_F	327_Q	0.548	0.18
288_R	343_L	0.548	0.18
142_E	224_G	0.547	0.18
234_L	273_L	0.547	0.18
103_S	144_S	0.547	0.18
202_G	222_H	0.547	0.18
201_G	222_H	0.547	0.18
183_D	195_V	0.546	0.18
277_L	355_Y	0.545	0.18
93_S	181_N	0.544	0.18
31_D	43_S	0.542	0.18
24_Y	39_T	0.541	0.17
30_G	43_S	0.540	0.17
10_T	86_Q	0.538	0.17
260_Y	343_L	0.538	0.17
115_D	343_L	0.538	0.17
68_V	71_A	0.538	0.17
135_E	309_A	0.538	0.17
100_Y	332_L	0.537	0.17
193_D	276_Y	0.536	0.17
49_E	269_K	0.536	0.17
76_K	104_E	0.535	0.17
9_E	15_Q	0.535	0.17
36_S	46_E	0.535	0.17
208_V	235_T	0.535	0.17
77_S	84_L	0.533	0.17
251_D	256_S	0.532	0.17
253_D	256_S	0.532	0.17
103_S	197_C	0.530	0.17
326_E	356_L	0.529	0.17
62_T	287_I	0.528	0.17
150_G	175_G	0.528	0.17
30_G	34_R	0.527	0.17
257_Y	285_I	0.527	0.17
66_N	70_G	0.526	0.17
14_D	48_D	0.526	0.17
195_V	217_N	0.525	0.17
22_Q	46_E	0.524	0.17
220_V	240_D	0.523	0.17
33_P	44_N	0.523	0.17
274_S	301_P	0.523	0.17
81_V	84_L	0.522	0.17
227_P	273_L	0.521	0.17
314_L	351_V	0.520	0.17
87_Q	129_V	0.519	0.17
248_V	282_A	0.515	0.17
9_E	42_K	0.515	0.17
95_T	223_L	0.515	0.17
98_E	112_Q	0.512	0.16
63_R	100_Y	0.512	0.16
127_E	226_Q	0.511	0.16
243_D	322_D	0.509	0.16
113_F	341_Q	0.507	0.16
137_F	249_F	0.507	0.16
123_V	296_D	0.506	0.16
263_V	303_S	0.506	0.16
145_G	231_T	0.505	0.16
19_I	28_A	0.504	0.16
14_D	50_D	0.504	0.16
95_T	101_Y	0.501	0.16
203_M	344_A	0.501	0.16
76_K	252_G	0.501	0.16
141_P	352_T	0.500	0.16
85_A	303_S	0.500	0.16

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
2zbkA	2	0.8962	100	0.15	Contact Map
2q2eA	2	0.8579	100	0.154	Contact Map
1d3yA	2	0.7814	100	0.242	Contact Map
3mm4A	1	0.3251	31.7	0.969	Contact Map
1t6t1	2	0.3005	29	0.97	Contact Map
2j48A	1	0.3169	19.3	0.972	Contact Map
4myrA	1	0.3251	18.6	0.972	Contact Map
3f6pA	1	0.3197	18	0.972	Contact Map
4nicA	2	0.3115	13.4	0.974	Contact Map
4hyeA	2	0.4262	13.4	0.974	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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