T0942_260-487_1_228 - CASP12 - GREMLIN Contacts

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T0942_260-487_1_228 - T0942_260-487 1-228

ID:	125	Sequences: ANQMRPMVVQSSEDFYLAKARTLGMYNSGRNQLTSDLLDEWAKGNVRQQRAAQYGRALQAMEANKYDEARKTLQPLLAAEPGNAWYLDLATDIDLGQNKANEAINRLKNARDLRTNPVLQLNLANAYLQGGQPQEAANILNRYTFNNKDDSNGWDLLAQAEAALNNRDQELAARAEGYALAGRLDQAISLLSSASSQVKLGSLQQARYDARIDQLRQLQERFKPYTKM	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	228 (221)
Sequences:	2065 (1485)
Seq/√Len:	99.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
65_K	68_E	5.027	1.00
99_K	102_E	4.638	1.00
132_Q	135_E	4.633	1.00
176_E	211_R	3.806	1.00
175_A	191_L	3.618	1.00
13_E	17_L	3.333	1.00
123_L	127_Y	3.052	1.00
94_D	106_R	2.714	1.00
56_R	60_A	2.474	1.00
60_A	68_E	2.413	1.00
188_I	212_I	2.361	1.00
53_Q	72_T	2.282	1.00
95_L	126_A	2.238	1.00
70_R	94_D	2.213	1.00
188_I	215_L	2.202	1.00
195_S	209_D	2.188	1.00
34_T	38_L	2.171	1.00
35_S	38_L	2.148	1.00
60_A	72_T	2.057	1.00
16_Y	20_A	2.047	1.00
38_L	41_W	2.014	1.00
60_A	65_K	2.004	1.00
107_L	122_N	1.997	1.00
202_S	206_A	1.954	1.00
179_A	215_L	1.934	1.00
192_S	216_R	1.925	1.00
80_E	86_Y	1.894	1.00
13_E	16_Y	1.893	1.00
70_R	97_Q	1.892	1.00
171_L	193_S	1.892	1.00
179_A	218_L	1.822	1.00
37_L	41_W	1.778	1.00
73_L	89_L	1.769	1.00
17_L	20_A	1.704	1.00
166_N	169_Q	1.656	1.00
108_K	135_E	1.655	1.00
91_T	107_L	1.618	1.00
172_A	207_R	1.617	1.00
185_D	219_Q	1.614	1.00
35_S	39_D	1.559	1.00
137_A	161_E	1.557	1.00
70_R	74_Q	1.552	1.00
90_A	94_D	1.550	1.00
6_P	9_V	1.547	1.00
61_M	66_Y	1.531	1.00
154_W	173_A	1.508	1.00
11_S	15_F	1.499	1.00
128_L	160_A	1.499	1.00
50_R	79_A	1.457	1.00
161_E	166_N	1.421	1.00
104_I	126_A	1.415	1.00
104_I	130_G	1.411	1.00
61_M	93_I	1.410	1.00
94_D	102_E	1.365	0.99
46_V	49_Q	1.363	0.99
18_A	21_R	1.361	0.99
183_R	186_Q	1.320	0.99
201_G	204_Q	1.318	0.99
59_Q	63_A	1.306	0.99
133_P	160_A	1.301	0.99
162_A	170_E	1.284	0.99
127_Y	135_E	1.284	0.99
133_P	163_A	1.283	0.99
72_T	75_P	1.269	0.99
31_N	35_S	1.243	0.99
104_I	123_L	1.236	0.99
147_N	150_D	1.236	0.99
50_R	86_Y	1.228	0.99
194_A	208_Y	1.215	0.99
51_A	55_G	1.215	0.99
90_A	93_I	1.197	0.98
137_A	157_L	1.182	0.98
92_D	122_N	1.173	0.98
28_S	31_N	1.171	0.98
144_T	157_L	1.170	0.98
18_A	35_S	1.164	0.98
108_K	123_L	1.157	0.98
219_Q	223_K	1.151	0.98
75_P	78_A	1.149	0.98
5_R	9_V	1.141	0.98
58_L	89_L	1.134	0.98
77_L	87_L	1.131	0.98
124_A	140_L	1.126	0.98
188_I	219_Q	1.126	0.98
38_L	42_A	1.116	0.98
125_N	129_Q	1.101	0.97
155_D	177_G	1.096	0.97
125_N	156_L	1.095	0.97
15_F	20_A	1.093	0.97
8_V	11_S	1.090	0.97
195_S	208_Y	1.088	0.97
17_L	21_R	1.084	0.97
32_Q	35_S	1.074	0.97
19_K	31_N	1.071	0.97
141_N	161_E	1.062	0.97
13_E	20_A	1.060	0.97
155_D	159_Q	1.054	0.97
87_L	110_A	1.049	0.97
171_L	190_L	1.036	0.96
12_S	15_F	1.033	0.96
128_L	133_P	1.033	0.96
31_N	34_T	1.028	0.96
30_R	34_T	1.027	0.96
17_L	24_G	1.016	0.96
171_L	194_A	1.011	0.96
28_S	32_Q	1.009	0.96
36_D	39_D	1.007	0.96
12_S	17_L	1.002	0.95
123_L	139_I	0.998	0.95
191_L	208_Y	0.997	0.95
179_A	184_L	0.992	0.95
219_Q	222_F	0.987	0.95
54_Y	58_L	0.979	0.95
57_A	61_M	0.972	0.95
80_E	83_N	0.963	0.94
77_L	90_A	0.961	0.94
25_M	28_S	0.958	0.94
22_T	58_L	0.953	0.94
120_Q	143_Y	0.948	0.94
144_T	153_G	0.947	0.94
212_I	215_L	0.946	0.94
126_A	130_G	0.944	0.94
137_A	160_A	0.942	0.94
159_Q	163_A	0.929	0.93
211_R	215_L	0.920	0.93
13_E	18_A	0.919	0.93
18_A	85_W	0.917	0.93
70_R	93_I	0.907	0.92
17_L	22_T	0.906	0.92
144_T	154_W	0.899	0.92
74_Q	90_A	0.898	0.92
68_E	71_K	0.898	0.92
189_S	193_S	0.896	0.92
38_L	55_G	0.888	0.92
70_R	90_A	0.886	0.92
74_Q	78_A	0.884	0.91
71_K	75_P	0.876	0.91
172_A	176_E	0.875	0.91
127_Y	139_I	0.862	0.90
117_P	150_D	0.861	0.90
61_M	89_L	0.861	0.90
94_D	99_K	0.858	0.90
117_P	147_N	0.853	0.90
191_L	195_S	0.852	0.90
151_S	181_A	0.851	0.90
85_W	88_D	0.848	0.90
177_G	181_A	0.844	0.89
15_F	18_A	0.840	0.89
16_Y	85_W	0.840	0.89
105_N	108_K	0.830	0.89
67_D	97_Q	0.827	0.88
119_L	153_G	0.824	0.88
76_L	86_Y	0.823	0.88
30_R	35_S	0.823	0.88
117_P	143_Y	0.821	0.88
200_L	208_Y	0.816	0.88
27_N	31_N	0.814	0.88
14_D	18_A	0.810	0.87
101_N	132_Q	0.807	0.87
24_G	27_N	0.802	0.87
86_Y	204_Q	0.800	0.87
78_A	192_S	0.797	0.87
217_Q	221_R	0.796	0.86
65_K	71_K	0.789	0.86
53_Q	75_P	0.786	0.86
34_T	39_D	0.786	0.86
202_S	205_Q	0.785	0.86
5_R	8_V	0.782	0.86
172_A	208_Y	0.778	0.85
119_L	123_L	0.778	0.85
14_D	17_L	0.777	0.85
179_A	188_I	0.777	0.85
66_Y	93_I	0.776	0.85
205_Q	209_D	0.769	0.85
104_I	127_Y	0.767	0.84
36_D	40_E	0.766	0.84
56_R	63_A	0.765	0.84
120_Q	139_I	0.765	0.84
10_Q	13_E	0.762	0.84
4_M	9_V	0.759	0.84
9_V	12_S	0.758	0.84
66_Y	97_Q	0.758	0.84
90_A	106_R	0.754	0.83
30_R	33_L	0.748	0.83
53_Q	79_A	0.746	0.83
57_A	89_L	0.745	0.83
204_Q	207_R	0.744	0.83
22_T	25_M	0.744	0.83
184_L	219_Q	0.744	0.83
13_E	22_T	0.737	0.82
50_R	80_E	0.737	0.82
150_D	176_E	0.736	0.82
192_S	212_I	0.730	0.81
6_P	10_Q	0.727	0.81
21_R	24_G	0.727	0.81
83_N	86_Y	0.724	0.81
19_K	23_L	0.723	0.81
118_V	158_A	0.722	0.81
116_N	120_Q	0.721	0.81
161_E	173_A	0.720	0.80
61_M	96_G	0.717	0.80
13_E	24_G	0.713	0.80
88_D	122_N	0.708	0.79
48_Q	52_A	0.707	0.79
39_D	43_K	0.707	0.79
158_A	174_R	0.705	0.79
128_L	156_L	0.704	0.79
7_M	10_Q	0.703	0.79
154_W	157_L	0.698	0.78
44_G	49_Q	0.697	0.78
175_A	182_G	0.696	0.78
88_D	119_L	0.695	0.78
168_D	208_Y	0.693	0.78
178_Y	186_Q	0.692	0.78
49_Q	52_A	0.692	0.78
128_L	136_A	0.691	0.78
141_N	157_L	0.686	0.77
16_Y	22_T	0.685	0.77
40_E	43_K	0.682	0.77
91_T	106_R	0.682	0.77
161_E	164_L	0.678	0.76
117_P	121_L	0.677	0.76
102_E	105_N	0.676	0.76
157_L	173_A	0.674	0.76
34_T	41_W	0.670	0.76
93_I	97_Q	0.669	0.75
170_E	174_R	0.666	0.75
174_R	178_Y	0.661	0.75
125_N	128_L	0.658	0.74
49_Q	53_Q	0.658	0.74
124_A	157_L	0.656	0.74
143_Y	153_G	0.655	0.74
210_A	214_Q	0.653	0.74
101_N	105_N	0.653	0.74
137_A	164_L	0.647	0.73
34_T	37_L	0.647	0.73
107_L	123_L	0.646	0.73
20_A	24_G	0.645	0.73
33_L	37_L	0.644	0.73
67_D	71_K	0.643	0.72
155_D	160_A	0.639	0.72
27_N	32_Q	0.637	0.72
179_A	211_R	0.636	0.72
134_Q	138_N	0.633	0.71
76_L	81_P	0.631	0.71
27_N	30_R	0.629	0.71
4_M	7_M	0.628	0.71
15_F	24_G	0.619	0.70
184_L	215_L	0.618	0.70
169_Q	172_A	0.618	0.70
97_Q	127_Y	0.616	0.69
216_R	219_Q	0.615	0.69
19_K	22_T	0.615	0.69
26_Y	29_G	0.613	0.69
28_S	35_S	0.613	0.69
44_G	47_R	0.613	0.69
9_V	17_L	0.610	0.69
17_L	86_Y	0.609	0.68
190_L	206_A	0.606	0.68
5_R	10_Q	0.605	0.68
15_F	25_M	0.605	0.68
155_D	181_A	0.605	0.68
172_A	186_Q	0.604	0.68
39_D	68_E	0.604	0.68
67_D	98_N	0.600	0.67
89_L	93_I	0.598	0.67
139_I	143_Y	0.593	0.66
15_F	51_A	0.586	0.65
12_S	16_Y	0.586	0.65
141_N	145_F	0.586	0.65
182_G	191_L	0.584	0.65
22_T	29_G	0.583	0.65
174_R	177_G	0.583	0.65
155_D	174_R	0.582	0.65
121_L	153_G	0.582	0.65
19_K	161_E	0.581	0.65
45_N	64_N	0.579	0.65
53_Q	76_L	0.579	0.65
134_Q	164_L	0.577	0.64
73_L	90_A	0.577	0.64
10_Q	16_Y	0.576	0.64
52_A	182_G	0.575	0.64
192_S	196_S	0.574	0.64
123_L	199_K	0.570	0.63
120_Q	144_T	0.561	0.62
5_R	11_S	0.560	0.62
6_P	11_S	0.558	0.62
142_R	146_N	0.553	0.61
124_A	139_I	0.549	0.60
207_R	212_I	0.547	0.60
140_L	144_T	0.545	0.60
176_E	179_A	0.544	0.60
190_L	193_S	0.542	0.59
94_D	97_Q	0.541	0.59
85_W	180_L	0.540	0.59
159_Q	178_Y	0.540	0.59
35_S	206_A	0.537	0.59
71_K	139_I	0.536	0.59
95_L	103_A	0.534	0.58
221_R	224_P	0.533	0.58
68_E	72_T	0.533	0.58
154_W	170_E	0.531	0.58
113_L	197_Q	0.529	0.58
187_A	212_I	0.529	0.58
11_S	16_Y	0.527	0.57
171_L	178_Y	0.526	0.57
178_Y	183_R	0.526	0.57
150_D	154_W	0.525	0.57
29_G	34_T	0.525	0.57
55_G	59_Q	0.524	0.57
5_R	12_S	0.523	0.57
63_A	220_E	0.522	0.57
191_L	215_L	0.522	0.57
66_Y	96_G	0.520	0.56
32_Q	63_A	0.519	0.56
20_A	23_L	0.518	0.56
56_R	72_T	0.517	0.56
33_L	36_D	0.516	0.56
32_Q	39_D	0.516	0.56
21_R	54_Y	0.514	0.56
95_L	100_A	0.513	0.55
84_A	113_L	0.512	0.55
137_A	141_N	0.511	0.55
150_D	153_G	0.510	0.55
135_E	205_Q	0.505	0.54
69_A	93_I	0.503	0.54
120_Q	147_N	0.503	0.54
170_E	200_L	0.503	0.54
9_V	15_F	0.501	0.54
193_S	196_S	0.501	0.54
22_T	26_Y	0.500	0.54
49_Q	72_T	0.500	0.54

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
3as5_A	1	0.7237	99.6	0.663	Contact Map
2pl2_A	1	0.7149	99.6	0.678	Contact Map
1xnf_A	1	0.886	99.5	0.683	Contact Map
3vtx_A	1	0.7149	99.5	0.684	Contact Map
1w3b_A	1	0.9386	99.5	0.685	Contact Map
3ieg_A	1	0.9386	99.5	0.686	Contact Map
4kvm_A	1	0.9561	99.5	0.691	Contact Map
2y4t_A	1	0.943	99.5	0.692	Contact Map
2yhc_A	1	0.7895	99.5	0.693	Contact Map
3uq3_A	1	0.8947	99.5	0.696	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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