UVSE - BACSU - GREMLIN Contacts

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UVSE - UV DNA damage endonuclease

UniProt:	P45864	Sequences: MIFRFGFVSNAMSLWDASPAKTLTFARYSKLSKTERKEALLTVTKANLRNTMRTLHYIIGHGIPLYRFSSSIVPLATHPDVMWDFVTPFQKEFREIGELVKTHQLRTSFHPNQFTLFTSPKESVTKNAVTDMAYHYRMLEAMGIADRSVINIHIGGAYGNKDTATAQFHQNIKQLPQEIKERMTLENDDKTYTTEETLQVCEQEDVPFVFDFHHFYANPDDHADLNVALPRMIKTWERIGLQPKVHLSSPKSEQAIRSHADYVDANFLLPLLERFRQWGTNIDFMIEAKQKDKALLRLMDELSSIRGVKRIGGGALQWKS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	320 (300)
Sequences:	629 (454)
Seq/√Len:	26.2

BACSU - UVSE

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
202_E	231_R	7.994	1.00
100_V	107_T	5.367	1.00
7_F	58_I	5.247	1.00
26_A	30_K	4.731	1.00
133_A	176_P	4.389	1.00
151_N	184_T	3.931	1.00
201_C	208_F	3.622	1.00
119_S	125_T	3.188	1.00
115_T	128_A	3.006	1.00
68_F	100_V	2.949	1.00
55_L	99_L	2.837	1.00
121_K	124_V	2.807	1.00
288_A	294_A	2.656	0.99
275_F	282_I	2.597	0.99
157_A	191_T	2.585	0.99
26_A	29_S	2.564	0.99
23_L	43_V	2.432	0.99
94_R	98_E	2.355	0.98
93_F	138_M	2.348	0.98
169_H	203_Q	2.255	0.98
160_N	163_T	2.243	0.98
59_I	99_L	2.237	0.98
165_T	200_V	2.233	0.98
52_M	99_L	2.183	0.97
56_H	99_L	2.171	0.97
21_K	46_A	2.088	0.97
59_I	103_H	2.067	0.96
98_E	102_T	2.044	0.96
140_E	182_R	2.018	0.96
99_L	103_H	1.994	0.95
191_T	196_E	1.958	0.95
176_P	179_I	1.922	0.94
262_Y	290_Q	1.869	0.94
84_D	87_T	1.847	0.93
68_F	107_T	1.819	0.93
90_Q	94_R	1.812	0.92
45_K	92_E	1.788	0.92
193_T	218_N	1.778	0.92
115_T	131_D	1.763	0.91
41_L	88_P	1.754	0.91
77_T	134_Y	1.678	0.89
210_F	232_M	1.678	0.89
120_P	158_Y	1.652	0.88
154_I	200_V	1.647	0.88
52_M	95_E	1.616	0.87
97_G	100_V	1.614	0.87
65_L	108_S	1.584	0.86
51_T	66_Y	1.580	0.86
247_L	286_I	1.579	0.86
295_L	299_M	1.573	0.86
271_L	275_F	1.561	0.85
247_L	268_L	1.534	0.84
152_I	184_T	1.521	0.84
234_K	237_E	1.499	0.83
177_Q	181_E	1.487	0.82
51_T	68_F	1.479	0.82
97_G	144_I	1.467	0.82
244_K	285_M	1.451	0.81
136_Y	178_E	1.437	0.80
48_L	96_I	1.436	0.80
27_R	30_K	1.435	0.80
168_F	185_L	1.422	0.79
132_M	179_I	1.418	0.79
11_A	57_Y	1.417	0.79
28_Y	36_R	1.414	0.79
194_T	228_A	1.406	0.79
243_P	282_I	1.404	0.79
109_F	151_N	1.401	0.78
109_F	139_L	1.400	0.78
157_A	161_K	1.376	0.77
216_Y	267_F	1.371	0.77
112_N	128_A	1.371	0.77
228_A	232_M	1.358	0.76
217_A	256_I	1.349	0.76
92_E	96_I	1.332	0.75
25_F	80_D	1.323	0.74
69_S	112_N	1.322	0.74
24_T	27_R	1.312	0.74
23_L	28_Y	1.301	0.73
71_S	112_N	1.291	0.72
144_I	148_S	1.290	0.72
69_S	135_H	1.289	0.72
124_V	194_T	1.287	0.72
149_V	184_T	1.274	0.71
166_A	170_Q	1.272	0.71
57_Y	292_D	1.264	0.71
123_S	127_N	1.261	0.71
8_V	112_N	1.253	0.70
215_F	225_L	1.245	0.70
127_N	130_T	1.243	0.69
13_S	293_K	1.229	0.69
189_D	193_T	1.209	0.67
12_M	293_K	1.208	0.67
194_T	208_F	1.207	0.67
109_F	138_M	1.204	0.67
249_S	292_D	1.203	0.67
245_V	284_F	1.202	0.67
5_F	268_L	1.201	0.67
120_P	160_N	1.196	0.66
10_N	20_A	1.194	0.66
177_Q	180_K	1.193	0.66
112_N	131_D	1.193	0.66
108_S	131_D	1.192	0.66
52_M	56_H	1.187	0.66
25_F	29_S	1.184	0.66
168_F	286_I	1.177	0.65
233_I	243_P	1.168	0.65
69_S	96_I	1.167	0.64
158_Y	164_A	1.146	0.63
5_F	295_L	1.136	0.62
21_K	258_S	1.128	0.62
250_P	257_R	1.118	0.61
25_F	28_Y	1.114	0.61
25_F	77_T	1.106	0.60
154_I	292_D	1.103	0.60
52_M	96_I	1.097	0.60
44_T	89_F	1.091	0.59
194_T	232_M	1.083	0.59
292_D	295_L	1.071	0.58
172_I	180_K	1.067	0.57
213_H	250_P	1.063	0.57
205_D	238_R	1.062	0.57
126_K	174_Q	1.060	0.57
195_E	223_A	1.057	0.57
65_L	285_M	1.055	0.57
75_L	217_A	1.048	0.56
11_A	293_K	1.045	0.56
70_S	291_K	1.044	0.56
213_H	257_R	1.040	0.55
166_A	203_Q	1.035	0.55
116_L	125_T	1.035	0.55
151_N	244_K	1.035	0.55
151_N	197_T	1.034	0.55
294_A	298_L	1.033	0.55
195_E	206_V	1.027	0.54
180_K	206_V	1.026	0.54
297_R	301_E	1.024	0.54
94_R	101_K	1.017	0.54
140_E	178_E	1.015	0.54
196_E	218_N	1.012	0.53
9_S	71_S	1.011	0.53
44_T	73_V	1.010	0.53
8_V	11_A	1.008	0.53
44_T	48_L	0.999	0.52
290_Q	293_K	0.995	0.52
97_G	101_K	0.994	0.52
49_R	92_E	0.993	0.52
224_D	227_V	0.985	0.51
91_K	102_T	0.984	0.51
286_I	295_L	0.982	0.51
271_L	284_F	0.981	0.51
70_S	111_P	0.973	0.50
195_E	221_D	0.962	0.50
9_S	20_A	0.962	0.50
55_L	177_Q	0.962	0.50
172_I	204_E	0.961	0.50
77_T	131_D	0.955	0.49
108_S	115_T	0.954	0.49
296_L	300_D	0.947	0.49
23_L	75_L	0.944	0.48
122_E	154_I	0.943	0.48
158_Y	161_K	0.942	0.48
144_I	182_R	0.942	0.48
59_I	105_L	0.938	0.48
75_L	78_H	0.937	0.48
49_R	91_K	0.934	0.48
147_R	175_L	0.934	0.48
90_Q	101_K	0.933	0.47
213_H	288_A	0.926	0.47
72_I	138_M	0.924	0.47
14_L	73_V	0.922	0.47
246_H	288_A	0.919	0.46
23_L	36_R	0.918	0.46
156_G	192_Y	0.917	0.46
165_T	199_Q	0.909	0.46
168_F	206_V	0.904	0.45
32_S	35_E	0.897	0.45
21_K	25_F	0.890	0.44
31_L	77_T	0.886	0.44
22_T	27_R	0.886	0.44
185_L	200_V	0.884	0.44
98_E	101_K	0.878	0.43
265_A	301_E	0.878	0.43
35_E	38_E	0.873	0.43
197_T	208_F	0.869	0.43
205_D	300_D	0.863	0.42
152_I	197_T	0.863	0.42
76_A	134_Y	0.859	0.42
260_A	302_L	0.855	0.42
215_F	221_D	0.855	0.42
55_L	96_I	0.847	0.41
10_N	36_R	0.846	0.41
44_T	83_W	0.845	0.41
117_F	132_M	0.844	0.41
117_F	125_T	0.842	0.41
73_V	124_V	0.838	0.41
141_A	175_L	0.837	0.40
24_T	28_Y	0.834	0.40
160_N	164_A	0.830	0.40
208_F	229_L	0.819	0.39
33_K	37_K	0.819	0.39
22_T	26_A	0.812	0.39
215_F	220_D	0.811	0.39
161_K	218_N	0.811	0.39
224_D	270_P	0.809	0.39
259_H	263_V	0.808	0.38
48_L	73_V	0.806	0.38
157_A	196_E	0.803	0.38
118_T	200_V	0.797	0.38
290_Q	297_R	0.797	0.38
157_A	192_Y	0.797	0.38
19_P	142_M	0.795	0.38
7_F	283_D	0.793	0.37
199_Q	203_Q	0.793	0.37
133_A	179_I	0.792	0.37
136_Y	179_I	0.792	0.37
83_W	213_H	0.791	0.37
16_D	42_T	0.789	0.37
7_F	285_M	0.788	0.37
91_K	177_Q	0.786	0.37
6_G	9_S	0.785	0.37
233_I	282_I	0.784	0.37
213_H	294_A	0.784	0.37
149_V	239_I	0.783	0.37
251_K	258_S	0.780	0.36
191_T	218_N	0.778	0.36
151_N	246_H	0.778	0.36
272_L	275_F	0.777	0.36
102_T	173_K	0.773	0.36
78_H	83_W	0.770	0.36
111_P	291_K	0.769	0.36
172_I	239_I	0.769	0.36
55_L	139_L	0.769	0.36
220_D	224_D	0.767	0.36
69_S	161_K	0.766	0.36
120_P	269_L	0.764	0.35
195_E	220_D	0.762	0.35
11_A	14_L	0.761	0.35
109_F	150_I	0.761	0.35
10_N	128_A	0.761	0.35
149_V	247_L	0.759	0.35
129_V	183_M	0.755	0.35
41_L	150_I	0.754	0.35
184_T	209_V	0.752	0.35
33_K	36_R	0.752	0.35
4_R	78_H	0.751	0.35
142_M	192_Y	0.750	0.34
31_L	36_R	0.749	0.34
9_S	112_N	0.748	0.34
154_I	197_T	0.748	0.34
13_S	57_Y	0.745	0.34
132_M	183_M	0.744	0.34
70_S	135_H	0.742	0.34
109_F	184_T	0.742	0.34
154_I	196_E	0.741	0.34
23_L	26_A	0.740	0.34
113_Q	119_S	0.736	0.34
202_E	234_K	0.736	0.34
92_E	98_E	0.735	0.33
104_Q	282_I	0.733	0.33
97_G	258_S	0.733	0.33
45_K	49_R	0.732	0.33
164_A	249_S	0.726	0.33
54_T	58_I	0.726	0.33
151_N	209_V	0.724	0.33
55_L	59_I	0.721	0.33
119_S	124_V	0.720	0.32
163_T	166_A	0.720	0.32
98_E	173_K	0.719	0.32
151_N	185_L	0.715	0.32
38_E	262_Y	0.711	0.32
163_T	167_Q	0.710	0.32
38_E	41_L	0.708	0.32
209_V	215_F	0.707	0.32
159_G	243_P	0.706	0.32
247_L	288_A	0.702	0.31
149_V	182_R	0.699	0.31
241_L	294_A	0.699	0.31
121_K	154_I	0.699	0.31
20_A	28_Y	0.699	0.31
122_E	126_K	0.694	0.31
288_A	298_L	0.691	0.31
96_I	141_A	0.690	0.31
71_S	125_T	0.684	0.30
98_E	237_E	0.683	0.30
100_V	168_F	0.681	0.30
68_F	142_M	0.678	0.30
128_A	131_D	0.678	0.30
40_L	90_Q	0.672	0.29
247_L	262_Y	0.672	0.29
261_D	298_L	0.667	0.29
112_N	115_T	0.666	0.29
54_T	285_M	0.665	0.29
65_L	162_D	0.664	0.29
102_T	304_S	0.664	0.29
9_S	113_Q	0.662	0.29
195_E	224_D	0.661	0.29
118_T	268_L	0.658	0.29
114_F	135_H	0.657	0.28
123_S	162_D	0.654	0.28
82_M	183_M	0.653	0.28
191_T	197_T	0.651	0.28
117_F	183_M	0.649	0.28
61_H	96_I	0.648	0.28
69_S	109_F	0.647	0.28
174_Q	178_E	0.646	0.28
155_G	158_Y	0.644	0.28
69_S	192_Y	0.644	0.28
71_S	113_Q	0.644	0.28
55_L	105_L	0.644	0.28
58_I	65_L	0.642	0.28
148_S	278_W	0.640	0.27
121_K	191_T	0.640	0.27
261_D	290_Q	0.639	0.27
60_G	205_D	0.636	0.27
90_Q	141_A	0.636	0.27
159_G	164_A	0.635	0.27
157_A	218_N	0.633	0.27
53_R	60_G	0.632	0.27
36_R	39_A	0.631	0.27
151_N	191_T	0.631	0.27
118_T	132_M	0.628	0.27
45_K	124_V	0.627	0.27
77_T	80_D	0.626	0.27
30_K	34_T	0.626	0.27
262_Y	297_R	0.624	0.27
171_N	174_Q	0.619	0.26
29_S	237_E	0.619	0.26
109_F	250_P	0.618	0.26
224_D	297_R	0.612	0.26
269_L	302_L	0.611	0.26
139_L	144_I	0.611	0.26
174_Q	274_R	0.610	0.26
104_Q	130_T	0.607	0.26
68_F	96_I	0.607	0.26
150_I	153_H	0.606	0.26
101_K	178_E	0.605	0.25
45_K	203_Q	0.603	0.25
164_A	192_Y	0.600	0.25
123_S	164_A	0.599	0.25
251_K	255_A	0.595	0.25
66_Y	69_S	0.595	0.25
118_T	169_H	0.595	0.25
95_E	98_E	0.594	0.25
52_M	105_L	0.593	0.25
213_H	298_L	0.592	0.25
169_H	204_E	0.588	0.25
8_V	71_S	0.586	0.24
95_E	167_Q	0.585	0.24
197_T	254_Q	0.585	0.24
10_N	204_E	0.583	0.24
19_P	50_N	0.582	0.24
109_F	208_F	0.581	0.24
112_N	118_T	0.578	0.24
118_T	184_T	0.575	0.24
78_H	244_K	0.574	0.24
154_I	208_F	0.574	0.24
242_Q	281_N	0.574	0.24
217_A	267_F	0.574	0.24
20_A	286_I	0.573	0.24
96_I	100_V	0.573	0.24
91_K	130_T	0.570	0.24
142_M	210_F	0.570	0.24
162_D	302_L	0.569	0.23
128_A	164_A	0.569	0.23
58_I	285_M	0.568	0.23
55_L	103_H	0.568	0.23
34_T	38_E	0.566	0.23
163_T	303_S	0.566	0.23
152_I	160_N	0.565	0.23
49_R	230_P	0.565	0.23
58_I	161_K	0.565	0.23
91_K	234_K	0.560	0.23
136_Y	176_P	0.558	0.23
128_A	223_A	0.557	0.23
30_K	200_V	0.556	0.23
32_S	36_R	0.555	0.23
172_I	284_F	0.554	0.23
113_Q	125_T	0.554	0.23
15_W	99_L	0.553	0.23
23_L	31_L	0.552	0.23
169_H	200_V	0.552	0.23
51_T	115_T	0.549	0.22
26_A	39_A	0.547	0.22
135_H	139_L	0.547	0.22
250_P	256_I	0.544	0.22
75_L	85_F	0.544	0.22
67_R	110_H	0.544	0.22
114_F	175_L	0.544	0.22
17_A	124_V	0.543	0.22
115_T	156_G	0.543	0.22
251_K	257_R	0.542	0.22
19_P	51_T	0.541	0.22
168_F	172_I	0.539	0.22
4_R	208_F	0.539	0.22
113_Q	159_G	0.538	0.22
139_L	285_M	0.537	0.22
51_T	136_Y	0.536	0.22
127_N	152_I	0.536	0.22
184_T	191_T	0.536	0.22
215_F	219_P	0.535	0.22
169_H	205_D	0.535	0.22
292_D	301_E	0.535	0.22
208_F	232_M	0.532	0.22
176_P	263_V	0.531	0.22
67_R	186_E	0.531	0.22
224_D	235_T	0.529	0.21
98_E	126_K	0.528	0.21
11_A	40_L	0.528	0.21
96_I	151_N	0.527	0.21
52_M	142_M	0.526	0.21
213_H	262_Y	0.525	0.21
268_L	272_L	0.525	0.21
123_S	126_K	0.525	0.21
20_A	24_T	0.524	0.21
194_T	260_A	0.524	0.21
200_V	204_E	0.523	0.21
9_S	279_G	0.523	0.21
152_I	157_A	0.521	0.21
182_R	239_I	0.520	0.21
48_L	259_H	0.520	0.21
57_Y	89_F	0.518	0.21
199_Q	208_F	0.518	0.21
252_S	255_A	0.518	0.21
164_A	167_Q	0.517	0.21
136_Y	221_D	0.517	0.21
50_N	57_Y	0.517	0.21
8_V	285_M	0.517	0.21
98_E	229_L	0.515	0.21
31_L	73_V	0.514	0.21
38_E	205_D	0.513	0.21
54_T	63_I	0.512	0.21
246_H	298_L	0.512	0.21
47_N	187_N	0.512	0.21
106_R	283_D	0.512	0.21
27_R	39_A	0.511	0.21
149_V	209_V	0.510	0.20
97_G	143_G	0.509	0.20
124_V	292_D	0.507	0.20
97_G	142_M	0.505	0.20
101_K	143_G	0.505	0.20
93_F	148_S	0.504	0.20
157_A	164_A	0.504	0.20
120_P	131_D	0.503	0.20
188_D	215_F	0.502	0.20
115_T	201_C	0.502	0.20
68_F	144_I	0.502	0.20
116_L	256_I	0.501	0.20
181_E	274_R	0.500	0.20
95_E	216_Y	0.500	0.20

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
3tc3A	1	0.9062	100	0.536	Contact Map
2j6vA	1	0.8688	100	0.582	Contact Map
3kwsA	2	0.7625	99.6	0.863	Contact Map
4hnoA	1	0.825	99.5	0.87	Contact Map
3p14A	2	0.8969	99.5	0.872	Contact Map
1qtwA	1	0.8063	99.5	0.872	Contact Map
3aamA	1	0.7719	99.5	0.874	Contact Map
3wqoA	2	0.7875	99.5	0.875	Contact Map
3aalA	1	0.8375	99.4	0.878	Contact Map
3ayvA	2	0.7188	99.4	0.878	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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