T0905_1_353 - CASP12 - GREMLIN Contacts

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T0905_1_353 - T0905 1-353

ID:	56	Sequences: MKKTVASKALMMASAVALVAGCSKGTGSYSLLNDAEDYKQQAVFIPKQIDILWVIDNSGSMKTSQDNLAANFQSFISRFQQYNYDFHMAVTTTEAWEKQFNSASEKARIKDGAVLQTNPKIETHSGVFIMDKNTANLGDVFSTNAKQGTLGNGDERAFSSFKEALLEPQNAGFRRSEAFLAVIIVSDEEDFSSSSAAFNESYNNANLHTVQSYVDFLDGYVGSRNYSVSTITVPDDACKTSLSTDGFARKISTRLPELATLTAGVKGSLCSNFGSTLELISDSIIQLSSVFKLNREPQEDTIVITVNGVSVPNDAVNGWTYDASNLTITFHGSSVPAADANITIDFYPKSIKL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	353 (302)
Sequences:	235 (205)
Seq/√Len:	11.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
233_V	273_F	3.418	0.98
53_W	183_I	3.164	0.97
238_C	270_C	3.086	0.96
48_Q	177_E	2.986	0.95
230_T	259_A	2.855	0.94
184_I	228_V	2.735	0.92
50_D	178_A	2.580	0.90
159_S	213_Y	2.559	0.90
65_Q	94_E	2.555	0.90
231_I	280_I	2.445	0.87
56_D	60_S	2.424	0.87
65_Q	93_T	2.391	0.86
52_L	180_L	2.387	0.86
320_T	331_H	2.311	0.84
321_Y	328_I	2.311	0.84
59_G	153_G	2.308	0.84
50_D	180_L	2.304	0.84
276_T	280_I	2.236	0.82
30_S	33_N	2.209	0.81
50_D	175_R	2.208	0.81
211_Q	215_D	2.191	0.81
50_D	57_N	2.128	0.79
72_F	88_M	2.099	0.78
93_T	277_L	2.091	0.77
89_A	182_V	2.086	0.77
65_Q	151_G	2.064	0.76
157_A	255_L	2.058	0.76
61_M	187_D	2.028	0.75
306_V	330_F	1.960	0.72
182_V	280_I	1.948	0.72
28_S	34_D	1.932	0.71
72_F	76_I	1.904	0.70
79_F	91_T	1.898	0.70
341_N	344_I	1.884	0.69
181_A	226_Y	1.841	0.67
211_Q	344_I	1.785	0.65
185_V	214_V	1.775	0.64
257_E	261_L	1.766	0.64
85_D	175_R	1.763	0.64
330_F	336_P	1.761	0.64
72_F	75_F	1.742	0.63
328_I	344_I	1.741	0.63
259_A	279_L	1.739	0.63
57_N	93_T	1.738	0.63
158_F	254_R	1.730	0.62
65_Q	92_T	1.730	0.62
60_S	187_D	1.726	0.62
52_L	254_R	1.685	0.60
90_V	188_E	1.683	0.60
55_I	231_I	1.683	0.60
186_S	230_T	1.676	0.60
190_D	254_R	1.668	0.59
185_V	320_T	1.659	0.59
175_R	178_A	1.651	0.59
252_S	255_L	1.644	0.58
54_V	306_V	1.634	0.58
78_R	81_Q	1.620	0.57
88_M	175_R	1.591	0.56
211_Q	214_V	1.571	0.55
61_M	304_I	1.565	0.54
64_S	184_I	1.540	0.53
148_G	151_G	1.537	0.53
29_Y	32_L	1.535	0.53
55_I	68_L	1.523	0.52
164_A	182_V	1.509	0.52
217_L	302_I	1.480	0.50
53_W	297_P	1.473	0.50
92_T	330_F	1.471	0.50
156_R	188_E	1.460	0.49
143_T	327_T	1.454	0.49
54_V	57_N	1.452	0.49
211_Q	261_L	1.452	0.49
54_V	85_D	1.449	0.49
186_S	255_L	1.431	0.48
342_I	346_F	1.427	0.48
290_V	306_V	1.427	0.48
92_T	148_G	1.425	0.47
89_A	166_L	1.424	0.47
290_V	327_T	1.424	0.47
293_L	297_P	1.421	0.47
233_V	262_T	1.406	0.47
184_I	230_T	1.389	0.46
56_D	186_S	1.387	0.46
46_P	328_I	1.380	0.45
57_N	180_L	1.373	0.45
256_P	259_A	1.372	0.45
208_H	231_I	1.361	0.44
189_E	222_G	1.354	0.44
280_I	298_Q	1.351	0.44
103_A	106_K	1.350	0.44
51_I	317_N	1.341	0.43
65_Q	188_E	1.338	0.43
165_L	319_W	1.332	0.43
50_D	93_T	1.325	0.43
151_G	155_E	1.312	0.42
64_S	230_T	1.303	0.41
137_L	183_I	1.293	0.41
89_A	307_N	1.288	0.41
157_A	188_E	1.283	0.41
260_T	296_E	1.273	0.40
228_V	232_T	1.239	0.38
330_F	346_F	1.234	0.38
161_F	182_V	1.232	0.38
104_S	107_A	1.226	0.38
30_S	35_A	1.220	0.38
54_V	92_T	1.219	0.37
28_S	31_L	1.217	0.37
65_Q	269_L	1.216	0.37
89_A	92_T	1.213	0.37
51_I	175_R	1.210	0.37
58_S	75_F	1.205	0.37
28_S	33_N	1.199	0.37
71_N	273_F	1.198	0.36
87_H	185_V	1.197	0.36
53_W	77_S	1.187	0.36
54_V	178_A	1.187	0.36
33_N	37_D	1.186	0.36
164_A	170_N	1.182	0.36
77_S	260_T	1.181	0.36
47_K	160_S	1.177	0.36
64_S	176_S	1.176	0.35
165_L	216_F	1.170	0.35
165_L	259_A	1.169	0.35
52_L	175_R	1.167	0.35
31_L	34_D	1.161	0.35
93_T	188_E	1.161	0.35
297_P	344_I	1.151	0.34
192_S	277_L	1.145	0.34
155_E	188_E	1.142	0.34
89_A	220_Y	1.142	0.34
208_H	344_I	1.132	0.34
78_R	274_G	1.130	0.33
158_F	339_D	1.129	0.33
28_S	32_L	1.124	0.33
306_V	328_I	1.123	0.33
232_T	319_W	1.121	0.33
55_I	233_V	1.120	0.33
188_E	330_F	1.116	0.33
94_E	190_D	1.114	0.33
139_D	143_T	1.102	0.32
307_N	328_I	1.087	0.32
48_Q	348_P	1.084	0.31
220_Y	258_L	1.073	0.31
195_S	317_N	1.072	0.31
68_L	178_A	1.069	0.31
187_D	277_L	1.065	0.31
89_A	185_V	1.061	0.30
82_Y	229_S	1.055	0.30
156_R	289_S	1.047	0.30
87_H	270_C	1.043	0.30
291_F	336_P	1.039	0.30
179_F	328_I	1.035	0.29
185_V	230_T	1.034	0.29
56_D	318_G	1.033	0.29
215_D	219_G	1.029	0.29
57_N	65_Q	1.028	0.29
186_S	342_I	1.024	0.29
185_V	251_I	1.024	0.29
135_A	139_D	1.014	0.28
89_A	333_S	1.009	0.28
66_D	185_V	1.006	0.28
88_M	293_L	1.000	0.28
230_T	255_L	0.994	0.28
218_D	258_L	0.987	0.27
237_A	249_R	0.983	0.27
148_G	158_F	0.976	0.27
152_N	252_S	0.975	0.27
177_E	218_D	0.974	0.27
28_S	37_D	0.973	0.27
111_D	335_V	0.971	0.27
39_K	177_E	0.966	0.27
229_S	233_V	0.965	0.27
157_A	346_F	0.962	0.26
251_I	268_S	0.957	0.26
65_Q	68_L	0.956	0.26
141_F	276_T	0.953	0.26
84_Y	162_K	0.952	0.26
330_F	339_D	0.941	0.26
93_T	297_P	0.939	0.26
289_S	348_P	0.937	0.25
290_V	332_G	0.935	0.25
56_D	187_D	0.935	0.25
82_Y	230_T	0.933	0.25
59_G	271_S	0.931	0.25
158_F	190_D	0.928	0.25
88_M	113_A	0.928	0.25
54_V	190_D	0.928	0.25
58_S	187_D	0.920	0.25
155_E	190_D	0.916	0.25
88_M	183_I	0.913	0.25
136_N	226_Y	0.911	0.24
160_S	225_N	0.911	0.24
339_D	346_F	0.908	0.24
56_D	155_E	0.907	0.24
209_T	344_I	0.907	0.24
61_M	65_Q	0.906	0.24
230_T	261_L	0.906	0.24
223_S	271_S	0.904	0.24
74_S	223_S	0.904	0.24
259_A	262_T	0.902	0.24
157_A	231_I	0.891	0.24
159_S	284_I	0.891	0.24
210_V	254_R	0.889	0.24
40_Q	142_S	0.889	0.24
58_S	73_Q	0.886	0.24
157_A	178_A	0.886	0.24
40_Q	284_I	0.885	0.24
182_V	212_S	0.884	0.24
79_F	151_G	0.878	0.23
314_D	333_S	0.874	0.23
29_Y	34_D	0.872	0.23
149_T	276_T	0.872	0.23
335_V	347_Y	0.870	0.23
52_L	182_V	0.869	0.23
136_N	296_E	0.862	0.23
157_A	289_S	0.861	0.23
49_I	178_A	0.857	0.23
162_K	216_F	0.854	0.22
82_Y	289_S	0.852	0.22
50_D	85_D	0.849	0.22
188_E	192_S	0.848	0.22
65_Q	190_D	0.847	0.22
160_S	303_V	0.846	0.22
183_I	237_A	0.845	0.22
65_Q	90_V	0.845	0.22
112_G	166_L	0.839	0.22
322_D	326_L	0.835	0.22
274_G	327_T	0.835	0.22
159_S	191_F	0.834	0.22
112_G	115_L	0.834	0.22
42_A	250_K	0.827	0.22
60_S	318_G	0.826	0.21
228_V	233_V	0.823	0.21
65_Q	228_V	0.820	0.21
64_S	71_N	0.820	0.21
89_A	171_A	0.817	0.21
62_K	66_D	0.817	0.21
29_Y	33_N	0.815	0.21
165_L	321_Y	0.813	0.21
172_G	292_K	0.811	0.21
56_D	75_F	0.811	0.21
60_S	304_I	0.811	0.21
55_I	160_S	0.809	0.21
91_T	330_F	0.808	0.21
54_V	93_T	0.805	0.21
184_I	348_P	0.804	0.21
90_V	94_E	0.801	0.21
106_K	109_I	0.800	0.21
269_L	346_F	0.799	0.21
186_S	214_V	0.794	0.20
116_Q	136_N	0.794	0.20
112_G	150_L	0.793	0.20
83_N	184_I	0.788	0.20
74_S	230_T	0.787	0.20
58_S	280_I	0.784	0.20
233_V	348_P	0.782	0.20
235_D	274_G	0.767	0.20
55_I	263_A	0.762	0.19
54_V	79_F	0.760	0.19
177_E	302_I	0.759	0.19
41_Q	345_D	0.759	0.19
106_K	315_A	0.759	0.19
342_I	345_D	0.758	0.19
143_T	177_E	0.756	0.19
180_L	254_R	0.752	0.19
301_T	313_N	0.751	0.19
155_E	335_V	0.738	0.19
219_G	272_N	0.736	0.19
51_I	72_F	0.735	0.19
85_D	178_A	0.732	0.19
52_L	91_T	0.730	0.18
54_V	141_F	0.728	0.18
312_P	318_G	0.726	0.18
59_G	104_S	0.726	0.18
336_P	346_F	0.724	0.18
87_H	175_R	0.723	0.18
258_L	281_S	0.723	0.18
259_A	328_I	0.722	0.18
135_A	165_L	0.717	0.18
113_A	116_Q	0.717	0.18
57_N	68_L	0.710	0.18
76_I	79_F	0.708	0.18
291_F	334_S	0.708	0.18
175_R	346_F	0.707	0.18
135_A	275_S	0.707	0.18
306_V	346_F	0.702	0.18
259_A	276_T	0.700	0.18
115_L	136_N	0.699	0.18
53_W	75_F	0.697	0.17
220_Y	261_L	0.697	0.17
337_A	340_A	0.693	0.17
39_K	320_T	0.691	0.17
79_F	294_N	0.691	0.17
71_N	86_F	0.691	0.17
182_V	265_V	0.690	0.17
85_D	92_T	0.687	0.17
195_S	198_F	0.684	0.17
82_Y	154_D	0.683	0.17
51_I	183_I	0.683	0.17
99_Q	307_N	0.680	0.17
183_I	234_P	0.677	0.17
309_V	314_D	0.675	0.17
48_Q	176_S	0.673	0.17
44_F	346_F	0.672	0.17
274_G	277_L	0.672	0.17
231_I	318_G	0.671	0.17
305_T	310_S	0.670	0.17
36_E	40_Q	0.668	0.17
38_Y	330_F	0.667	0.17
188_E	289_S	0.667	0.17
51_I	75_F	0.665	0.17
182_V	290_V	0.664	0.17
89_A	260_T	0.663	0.17
138_G	340_A	0.662	0.16
175_R	269_L	0.661	0.16
138_G	176_S	0.661	0.16
155_E	232_T	0.661	0.16
229_S	280_I	0.659	0.16
190_D	289_S	0.657	0.16
340_A	346_F	0.649	0.16
61_M	68_L	0.647	0.16
221_V	306_V	0.646	0.16
229_S	258_L	0.646	0.16
259_A	340_A	0.644	0.16
277_L	293_L	0.644	0.16
155_E	184_I	0.643	0.16
338_A	343_T	0.643	0.16
30_S	34_D	0.642	0.16
157_A	293_L	0.637	0.16
86_F	194_S	0.636	0.16
101_N	143_T	0.635	0.16
315_A	328_I	0.634	0.16
229_S	298_Q	0.634	0.16
97_E	107_A	0.634	0.16
260_T	325_N	0.627	0.16
148_G	166_L	0.627	0.16
161_F	217_L	0.626	0.16
138_G	329_T	0.626	0.16
165_L	284_I	0.624	0.15
270_C	330_F	0.624	0.15
57_N	269_L	0.623	0.15
87_H	269_L	0.621	0.15
129_I	321_Y	0.620	0.15
307_N	342_I	0.620	0.15
50_D	273_F	0.616	0.15
52_L	178_A	0.614	0.15
62_K	145_A	0.614	0.15
35_A	38_Y	0.613	0.15
44_F	322_D	0.613	0.15
94_E	330_F	0.613	0.15
139_D	302_I	0.610	0.15
156_R	262_T	0.608	0.15
47_K	297_P	0.607	0.15
156_R	161_F	0.607	0.15
257_E	290_V	0.606	0.15
51_I	275_S	0.604	0.15
47_K	51_I	0.603	0.15
56_D	61_M	0.601	0.15
195_S	325_N	0.598	0.15
88_M	160_S	0.596	0.15
28_S	35_A	0.595	0.15
104_S	177_E	0.595	0.15
59_G	187_D	0.593	0.15
165_L	312_P	0.592	0.15
47_K	227_S	0.592	0.15
143_T	251_I	0.591	0.15
69_A	85_D	0.591	0.15
221_V	302_I	0.591	0.15
77_S	310_S	0.590	0.15
102_S	175_R	0.588	0.15
67_N	309_V	0.585	0.14
344_I	347_Y	0.584	0.14
294_N	307_N	0.583	0.14
110_K	170_N	0.580	0.14
161_F	280_I	0.578	0.14
302_I	344_I	0.578	0.14
86_F	275_S	0.577	0.14
223_S	342_I	0.576	0.14
53_W	139_D	0.576	0.14
58_S	233_V	0.576	0.14
45_I	185_V	0.575	0.14
272_N	291_F	0.575	0.14
214_V	284_I	0.574	0.14
93_T	190_D	0.573	0.14
292_K	327_T	0.573	0.14
137_L	284_I	0.571	0.14
28_S	40_Q	0.570	0.14
28_S	41_Q	0.569	0.14
58_S	61_M	0.569	0.14
74_S	182_V	0.567	0.14
94_E	188_E	0.565	0.14
163_E	193_S	0.564	0.14
34_D	39_K	0.563	0.14
46_P	97_E	0.562	0.14
149_T	176_S	0.562	0.14
259_A	264_G	0.561	0.14
216_F	219_G	0.561	0.14
59_G	257_E	0.560	0.14
183_I	200_E	0.560	0.14
284_I	330_F	0.556	0.14
256_P	266_K	0.552	0.14
236_D	321_Y	0.551	0.14
258_L	264_G	0.549	0.14
72_F	237_A	0.547	0.14
158_F	164_A	0.545	0.14
251_I	266_K	0.543	0.13
50_D	91_T	0.543	0.13
89_A	180_L	0.542	0.13
53_W	88_M	0.542	0.13
133_N	311_V	0.541	0.13
64_S	233_V	0.540	0.13
89_A	286_Q	0.538	0.13
93_T	192_S	0.537	0.13
240_T	274_G	0.536	0.13
140_V	151_G	0.534	0.13
46_P	255_L	0.533	0.13
49_I	86_F	0.532	0.13
68_L	158_F	0.531	0.13
60_S	75_F	0.528	0.13
109_I	336_P	0.526	0.13
257_E	343_T	0.526	0.13
186_S	193_S	0.523	0.13
43_V	270_C	0.523	0.13
209_T	311_V	0.523	0.13
184_I	226_Y	0.523	0.13
50_D	92_T	0.522	0.13
302_I	312_P	0.520	0.13
217_L	341_N	0.519	0.13
66_D	303_V	0.519	0.13
133_N	136_N	0.518	0.13
314_D	326_L	0.517	0.13
71_N	188_E	0.514	0.13
61_M	93_T	0.511	0.13
28_S	67_N	0.509	0.13
139_D	142_S	0.509	0.13
257_E	279_L	0.509	0.13
186_S	216_F	0.508	0.13
157_A	220_Y	0.508	0.13
250_K	307_N	0.507	0.13
72_F	183_I	0.507	0.13
151_G	297_P	0.506	0.13
47_K	321_Y	0.506	0.13
62_K	250_K	0.505	0.13
29_Y	76_I	0.503	0.13
99_Q	236_D	0.503	0.13
81_Q	286_Q	0.503	0.13
134_T	137_L	0.501	0.13
261_L	344_I	0.501	0.13
200_E	207_L	0.501	0.13
190_D	348_P	0.500	0.13
303_V	342_I	0.500	0.13
151_G	154_D	0.500	0.13
227_S	283_S	0.500	0.13

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
1q0p_A	1	0.5014	99.6	0.801	Contact Map
2b2x_A	1	0.5241	99.6	0.804	Contact Map
1v7p_C	1	0.5297	99.5	0.811	Contact Map
1pt6_A	1	0.5269	99.5	0.812	Contact Map
1mjn_A	1	0.4929	99.5	0.813	Contact Map
3fcs_B	1	0.898	99.5	0.813	Contact Map
1shu_X	1	0.5127	99.5	0.813	Contact Map
1rrk_A	1	0.7224	99.5	0.815	Contact Map
4igi_A	1	0.5354	99.5	0.815	Contact Map
1n3y_A	1	0.5156	99.5	0.817	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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