KU - BACSU - GREMLIN Contacts

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KU - Non-homologous end joining protein Ku

UniProt:	O34859	Sequences: MNRTPSLHTKEKKGFIDMHTMWKGSISFGLVNIPIKLYAATEDKDIKLRSLHKEDHAPIKYEKVCTNCEKTLSPDEIVKGYEYVKGKYVVLTDEDLKSLKQEHEEKAVEIVDFVQLQEIDPIYFNRSYFVGPGDNGTKAYTLLREALRSTGKIGIANMTIRSKQQLAILRVYENCIVMESIHYPDEVRSAAQVPGVPDQSNVNDKELQTAITLIDELTAKFEPEKYEDTYRQALLQRVNDKLENKETAVTPDKAPPREDVIDLVSALQASIDRTRRPNRETPAAAPAQAAEPKGAGDKKQKTTRKKASGTS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	311 (274)
Sequences:	1606 (993)
Seq/√Len:	60.0

BACSU - KU

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
146_A	214_I	4.687	1.00
262_D	265_S	4.144	1.00
49_R	58_P	3.809	1.00
145_E	148_R	3.537	1.00
52_H	65_C	3.292	1.00
62_E	71_T	2.914	1.00
65_C	68_C	2.880	1.00
118_E	220_K	2.772	1.00
145_E	149_S	2.727	1.00
35_I	130_V	2.657	1.00
149_S	211_I	2.656	1.00
63_K	74_P	2.651	1.00
290_A	293_K	2.643	1.00
37_L	130_V	2.619	1.00
52_H	68_C	2.496	1.00
285_A	288_Q	2.443	1.00
73_S	76_E	2.376	1.00
53_K	76_E	2.334	1.00
227_E	232_Q	2.283	1.00
289_A	292_P	2.204	1.00
222_E	225_K	2.190	1.00
61_Y	77_I	2.166	1.00
82_E	85_K	2.155	1.00
287_A	290_A	2.150	1.00
204_D	208_Q	2.138	1.00
115_Q	152_K	2.068	1.00
244_N	247_T	2.066	1.00
234_L	238_V	2.023	1.00
288_Q	291_E	2.016	1.00
82_E	86_G	2.011	1.00
111_V	157_N	2.008	1.00
48_L	234_L	1.985	1.00
119_I	168_I	1.982	1.00
286_P	289_A	1.973	1.00
169_L	176_I	1.961	1.00
42_E	188_R	1.942	1.00
281_T	284_A	1.927	1.00
150_T	211_I	1.923	1.00
265_S	269_A	1.913	1.00
53_K	92_T	1.912	1.00
282_P	285_A	1.892	1.00
49_R	88_Y	1.824	1.00
287_A	292_P	1.807	1.00
41_T	126_R	1.777	0.99
46_I	235_L	1.776	0.99
284_A	287_A	1.751	0.99
280_E	283_A	1.728	0.99
57_A	67_N	1.721	0.99
52_H	57_A	1.702	0.99
268_Q	272_D	1.682	0.99
277_P	280_E	1.663	0.99
148_R	174_N	1.653	0.99
261_I	264_V	1.652	0.99
38_Y	131_G	1.650	0.99
57_A	65_C	1.636	0.99
153_I	168_I	1.587	0.99
285_A	290_A	1.572	0.99
278_N	281_T	1.570	0.99
144_R	174_N	1.560	0.99
283_A	286_P	1.552	0.98
52_H	55_D	1.541	0.98
25_S	32_N	1.531	0.98
51_L	90_V	1.522	0.98
155_I	168_I	1.513	0.98
59_I	72_L	1.508	0.98
60_K	66_T	1.502	0.98
112_D	225_K	1.498	0.98
26_I	169_L	1.494	0.98
238_V	242_L	1.484	0.98
51_L	78_V	1.482	0.98
231_R	235_L	1.468	0.98
34_P	136_G	1.458	0.98
112_D	219_A	1.450	0.98
117_Q	151_G	1.410	0.97
64_V	68_C	1.393	0.97
57_A	66_T	1.383	0.97
63_K	77_I	1.378	0.97
208_Q	211_I	1.368	0.97
20_T	23_K	1.334	0.96
46_I	187_V	1.332	0.96
114_V	119_I	1.320	0.96
116_L	153_I	1.319	0.96
50_S	59_I	1.316	0.96
239_N	242_L	1.314	0.96
131_G	193_V	1.275	0.95
158_M	178_M	1.272	0.95
265_S	268_Q	1.272	0.95
91_L	99_L	1.257	0.95
178_M	213_L	1.254	0.94
157_N	229_T	1.254	0.94
243_E	246_E	1.250	0.94
127_S	182_H	1.244	0.94
91_L	96_L	1.230	0.94
28_F	143_L	1.226	0.94
279_R	282_P	1.222	0.94
29_G	143_L	1.214	0.93
140_Y	175_C	1.208	0.93
138_K	206_E	1.186	0.93
100_K	233_A	1.186	0.93
84_V	87_K	1.185	0.93
284_A	293_K	1.182	0.92
240_D	244_N	1.181	0.92
125_N	182_H	1.161	0.92
44_K	231_R	1.159	0.92
168_I	181_I	1.132	0.91
50_S	77_I	1.130	0.91
282_P	290_A	1.123	0.90
258_E	261_I	1.104	0.90
279_R	284_A	1.101	0.90
205_K	208_Q	1.099	0.89
125_N	180_S	1.096	0.89
49_R	82_E	1.092	0.89
96_L	234_L	1.090	0.89
272_D	275_R	1.084	0.89
236_Q	240_D	1.077	0.88
167_A	180_S	1.076	0.88
55_D	68_C	1.073	0.88
43_D	125_N	1.067	0.88
28_F	31_V	1.064	0.88
51_L	88_Y	1.064	0.88
119_I	153_I	1.061	0.88
95_D	241_K	1.049	0.87
50_S	61_Y	1.044	0.87
115_Q	118_E	1.040	0.87
21_M	161_R	1.031	0.86
157_N	164_Q	1.029	0.86
120_D	170_R	1.027	0.86
26_I	143_L	1.027	0.86
154_G	200_S	1.026	0.86
214_I	268_Q	1.024	0.86
51_L	56_H	1.021	0.86
54_E	70_K	1.019	0.86
163_K	228_D	1.015	0.85
286_P	291_E	1.010	0.85
202_V	207_L	1.010	0.85
151_G	215_D	1.010	0.85
280_E	293_K	1.008	0.85
110_I	147_L	1.003	0.85
50_S	63_K	0.996	0.84
94_E	97_K	0.996	0.84
28_F	110_I	0.995	0.84
91_L	237_R	0.987	0.84
101_Q	104_E	0.984	0.83
281_T	285_A	0.982	0.83
284_A	289_A	0.981	0.83
283_A	288_Q	0.979	0.83
91_L	95_D	0.972	0.83
110_I	156_A	0.971	0.83
147_L	152_K	0.966	0.82
36_K	133_G	0.965	0.82
147_L	183_Y	0.964	0.82
55_D	66_T	0.961	0.82
107_A	147_L	0.961	0.82
288_Q	293_K	0.959	0.82
141_T	144_R	0.951	0.81
70_K	76_E	0.949	0.81
31_V	185_D	0.947	0.81
28_F	142_L	0.946	0.81
55_D	65_C	0.944	0.81
276_R	279_R	0.941	0.81
282_P	287_A	0.941	0.81
54_E	65_C	0.935	0.80
167_A	178_M	0.926	0.80
101_Q	159_T	0.925	0.79
158_M	167_A	0.921	0.79
59_I	160_I	0.919	0.79
55_D	95_D	0.917	0.79
235_L	239_N	0.910	0.78
284_A	288_Q	0.905	0.78
264_V	271_I	0.902	0.78
39_A	79_K	0.898	0.77
25_S	33_I	0.869	0.75
29_G	142_L	0.866	0.75
83_Y	242_L	0.863	0.75
233_A	236_Q	0.859	0.74
280_E	285_A	0.858	0.74
163_K	170_R	0.849	0.73
78_V	90_V	0.842	0.73
160_I	180_S	0.838	0.72
154_G	252_D	0.835	0.72
282_P	286_P	0.833	0.72
155_I	220_K	0.833	0.72
64_V	69_E	0.831	0.72
53_K	78_V	0.826	0.71
287_A	291_E	0.824	0.71
141_T	145_E	0.818	0.71
285_A	289_A	0.811	0.70
32_N	139_A	0.807	0.70
112_D	226_Y	0.805	0.69
57_A	68_C	0.804	0.69
80_G	83_Y	0.801	0.69
122_I	187_V	0.800	0.69
21_M	39_A	0.798	0.69
59_I	63_K	0.795	0.68
84_V	242_L	0.789	0.68
48_L	91_L	0.785	0.67
50_S	96_L	0.780	0.67
44_K	185_D	0.780	0.67
279_R	292_P	0.773	0.66
219_A	225_K	0.772	0.66
289_A	293_K	0.769	0.66
272_D	282_P	0.769	0.66
278_N	286_P	0.765	0.65
124_F	168_I	0.762	0.65
114_V	155_I	0.762	0.65
154_G	205_K	0.760	0.65
79_K	93_D	0.760	0.65
52_H	66_T	0.759	0.65
283_A	289_A	0.758	0.65
283_A	292_P	0.748	0.64
240_D	247_T	0.748	0.64
68_C	127_S	0.746	0.63
258_E	264_V	0.745	0.63
41_T	169_L	0.744	0.63
42_E	171_V	0.743	0.63
286_P	292_P	0.739	0.63
75_D	87_K	0.738	0.63
127_S	181_I	0.738	0.63
239_N	243_E	0.737	0.62
234_L	237_R	0.737	0.62
281_T	293_K	0.735	0.62
211_I	215_D	0.735	0.62
205_K	216_E	0.734	0.62
64_V	71_T	0.733	0.62
212_T	271_I	0.732	0.62
286_P	290_A	0.731	0.62
59_I	79_K	0.728	0.62
276_R	280_E	0.727	0.61
169_L	254_A	0.725	0.61
104_E	158_M	0.724	0.61
130_V	178_M	0.723	0.61
285_A	291_E	0.722	0.61
27_S	138_K	0.721	0.61
102_E	139_A	0.714	0.60
278_N	283_A	0.711	0.60
285_A	293_K	0.711	0.60
21_M	140_Y	0.707	0.59
182_H	209_T	0.706	0.59
104_E	157_N	0.704	0.59
94_E	284_A	0.703	0.59
122_I	177_V	0.698	0.58
206_E	213_L	0.695	0.58
282_P	288_Q	0.688	0.57
121_P	124_F	0.687	0.57
279_R	288_Q	0.685	0.57
57_A	156_A	0.685	0.57
88_Y	139_A	0.684	0.57
69_E	79_K	0.683	0.57
37_L	160_I	0.680	0.56
23_K	36_K	0.680	0.56
26_I	179_E	0.677	0.56
83_Y	87_K	0.677	0.56
108_V	169_L	0.676	0.56
165_Q	181_I	0.675	0.56
236_Q	288_Q	0.675	0.56
112_D	156_A	0.672	0.55
273_R	276_R	0.671	0.55
34_P	236_Q	0.670	0.55
230_Y	233_A	0.668	0.55
216_E	238_V	0.666	0.55
95_D	233_A	0.663	0.54
81_Y	96_L	0.663	0.54
95_D	237_R	0.658	0.54
288_Q	292_P	0.657	0.54
165_Q	234_L	0.657	0.54
27_S	142_L	0.657	0.54
102_E	106_K	0.656	0.54
210_A	244_N	0.653	0.53
117_Q	173_E	0.653	0.53
33_I	61_Y	0.642	0.52
170_R	187_V	0.640	0.52
223_P	226_Y	0.639	0.52
140_Y	176_I	0.634	0.51
95_D	234_L	0.634	0.51
276_R	282_P	0.633	0.51
105_E	176_I	0.633	0.51
20_T	264_V	0.629	0.51
68_C	159_T	0.629	0.51
240_D	248_A	0.627	0.50
21_M	37_L	0.625	0.50
274_T	278_N	0.623	0.50
50_S	74_P	0.623	0.50
52_H	159_T	0.621	0.50
23_K	180_S	0.621	0.50
138_K	142_L	0.621	0.50
121_P	179_E	0.619	0.49
37_L	86_G	0.618	0.49
75_D	259_D	0.618	0.49
105_E	110_I	0.617	0.49
32_N	95_D	0.617	0.49
122_I	172_Y	0.616	0.49
110_I	154_G	0.615	0.49
286_P	293_K	0.613	0.49
191_A	283_A	0.610	0.48
192_Q	195_G	0.609	0.48
65_C	221_F	0.606	0.48
279_R	286_P	0.605	0.48
21_M	28_F	0.605	0.48
161_R	165_Q	0.603	0.48
181_I	194_P	0.602	0.48
127_S	177_V	0.595	0.47
21_M	193_V	0.595	0.47
281_T	286_P	0.595	0.47
221_F	226_Y	0.594	0.47
152_K	215_D	0.594	0.47
216_E	221_F	0.592	0.46
23_K	158_M	0.591	0.46
126_R	180_S	0.591	0.46
118_E	292_P	0.590	0.46
285_A	292_P	0.589	0.46
140_Y	177_V	0.588	0.46
158_M	162_S	0.588	0.46
72_L	97_K	0.588	0.46
35_I	256_P	0.588	0.46
280_E	286_P	0.587	0.46
287_A	293_K	0.585	0.46
158_M	180_S	0.583	0.45
75_D	224_E	0.580	0.45
48_L	96_L	0.576	0.45
91_L	122_I	0.575	0.45
281_T	289_A	0.573	0.44
43_D	122_I	0.573	0.44
19_H	38_Y	0.571	0.44
253_K	256_P	0.570	0.44
76_E	279_R	0.570	0.44
280_E	289_A	0.569	0.44
282_P	293_K	0.569	0.44
192_Q	256_P	0.568	0.44
109_E	242_L	0.568	0.44
54_E	67_N	0.567	0.44
140_Y	193_V	0.567	0.44
80_G	88_Y	0.566	0.44
43_D	126_R	0.565	0.43
224_E	283_A	0.564	0.43
26_I	263_L	0.562	0.43
121_P	170_R	0.562	0.43
199_Q	252_D	0.561	0.43
41_T	263_L	0.560	0.43
95_D	101_Q	0.560	0.43
122_I	178_M	0.559	0.43
279_R	290_A	0.559	0.43
189_S	224_E	0.558	0.43
279_R	287_A	0.555	0.42
280_E	284_A	0.554	0.42
43_D	86_G	0.554	0.42
284_A	291_E	0.554	0.42
174_N	225_K	0.553	0.42
185_D	231_R	0.551	0.42
28_F	206_E	0.550	0.42
36_K	99_L	0.549	0.42
80_G	146_A	0.549	0.42
121_P	127_S	0.548	0.42
58_P	88_Y	0.547	0.41
19_H	194_P	0.544	0.41
264_V	268_Q	0.544	0.41
220_K	232_Q	0.544	0.41
42_E	189_S	0.544	0.41
35_I	174_N	0.543	0.41
279_R	285_A	0.543	0.41
83_Y	145_E	0.542	0.41
207_L	213_L	0.542	0.41
136_G	225_K	0.541	0.41
116_L	225_K	0.541	0.41
48_L	154_G	0.541	0.41
230_Y	234_L	0.540	0.41
79_K	181_I	0.540	0.41
106_K	241_K	0.537	0.40
173_E	176_I	0.536	0.40
240_D	245_K	0.535	0.40
36_K	119_I	0.535	0.40
62_E	155_I	0.534	0.40
112_D	221_F	0.534	0.40
205_K	217_L	0.532	0.40
59_I	93_D	0.532	0.40
276_R	288_Q	0.530	0.40
281_T	287_A	0.529	0.40
28_F	138_K	0.528	0.39
119_I	135_N	0.528	0.39
209_T	219_A	0.526	0.39
31_V	41_T	0.526	0.39
177_V	252_D	0.524	0.39
168_I	179_E	0.523	0.39
246_E	249_V	0.523	0.39
23_K	134_D	0.522	0.39
76_E	120_D	0.520	0.39
129_F	169_L	0.520	0.39
96_L	230_Y	0.518	0.38
181_I	227_E	0.516	0.38
213_L	270_S	0.514	0.38
33_I	164_Q	0.513	0.38
284_A	290_A	0.513	0.38
67_N	80_G	0.512	0.38
277_P	291_E	0.512	0.38
85_K	108_V	0.511	0.38
275_R	287_A	0.510	0.38
54_E	57_A	0.510	0.38
58_P	179_E	0.510	0.38
178_M	211_I	0.509	0.37
51_L	183_Y	0.509	0.37
45_D	124_F	0.509	0.37
124_F	133_G	0.508	0.37
246_E	252_D	0.508	0.37
85_K	175_C	0.505	0.37
154_G	165_Q	0.505	0.37
75_D	189_S	0.504	0.37
47_K	61_Y	0.503	0.37
32_N	187_V	0.503	0.37
155_I	232_Q	0.502	0.37
144_R	222_E	0.502	0.37
277_P	281_T	0.500	0.36
263_L	267_L	0.500	0.36

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
1jeyA	1	0.8682	100	0.478	Contact Map
1jeyB	1	0.9196	100	0.503	Contact Map
3bvoA	1	0.5434	43.7	0.968	Contact Map
2f2eA	4	0.2637	39.7	0.969	Contact Map
3j7y0	1	0.2476	28.4	0.971	Contact Map
1dl6A	1	0.1672	23.3	0.972	Contact Map
4ce45	1	0.119	19.6	0.973	Contact Map
4gcvA	3	0.283	17.3	0.974	Contact Map
3ga8A	1	0.1897	16.6	0.974	Contact Map
3q87A	1	0.2765	16.5	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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