T0879_1_223 - CASP12 - GREMLIN Contacts

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T0879_1_223 - T0879 1-223

ID:	25	Sequences: SVYDPAATADTVNPGNKIIYLTFDDGPGKYTQGLLDVLDKYNVKATFFVTNTHPDYQNMIAEEAKRGHTVAIHSASHKYNQIYTSEQAFFDDLEQMNSIIKAQTGNDASIIRFPGGSSNTVSKDYCPGIMTQLVNDVTARGLLYCDWNVSSGDANPKPISTEQVVQNVISGVQSHNVSVVLQHDIKEFSVNAVEQIIQWGQANGYTFLPLTTSSPMSHHRVNN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	223 (192)
Sequences:	2263 (1774)
Seq/√Len:	128.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
62_E	66_R	4.646	1.00
41_Y	198_Q	4.537	1.00
36_D	62_E	4.167	1.00
39_D	66_R	4.125	1.00
49_V	60_I	2.962	1.00
41_Y	201_Q	2.735	1.00
43_V	197_I	2.730	1.00
194_E	198_Q	2.613	1.00
49_V	63_E	2.596	1.00
101_K	107_D	2.457	1.00
69_T	211_T	2.373	1.00
76_S	92_D	2.343	1.00
34_L	193_V	2.337	1.00
97_N	142_L	2.317	1.00
91_D	95_Q	2.145	1.00
162_E	195_Q	2.141	1.00
75_A	95_Q	2.081	1.00
169_I	199_W	2.075	1.00
40_K	194_E	2.053	1.00
151_S	182_Q	2.023	1.00
165_V	195_Q	1.952	1.00
152_G	155_N	1.941	1.00
19_I	200_G	1.844	1.00
197_I	201_Q	1.842	1.00
37_V	190_V	1.739	1.00
51_N	75_A	1.714	1.00
44_K	68_H	1.709	1.00
16_N	206_T	1.702	1.00
41_Y	197_I	1.687	1.00
99_I	103_Q	1.633	1.00
41_Y	194_E	1.603	1.00
116_G	147_W	1.572	1.00
32_Q	62_E	1.561	1.00
54_P	57_Q	1.543	1.00
33_G	191_N	1.527	1.00
43_V	207_F	1.526	1.00
34_L	190_V	1.520	1.00
165_V	169_I	1.517	1.00
168_V	196_I	1.452	1.00
17_K	205_Y	1.447	1.00
79_Y	115_G	1.447	1.00
61_A	65_K	1.446	1.00
199_W	202_A	1.426	1.00
25_D	184_D	1.406	1.00
37_V	197_I	1.403	1.00
32_Q	59_M	1.402	1.00
199_W	203_N	1.384	1.00
50_T	74_S	1.373	1.00
54_P	103_Q	1.360	1.00
39_D	62_E	1.356	1.00
98_S	102_A	1.355	1.00
20_Y	208_L	1.352	1.00
198_Q	202_A	1.350	1.00
37_V	41_Y	1.350	1.00
145_C	210_L	1.347	1.00
36_D	66_R	1.332	1.00
18_I	206_T	1.284	1.00
94_E	97_N	1.281	1.00
37_V	193_V	1.276	1.00
149_V	178_S	1.262	1.00
48_F	110_I	1.259	1.00
54_P	99_I	1.252	1.00
193_V	197_I	1.235	1.00
54_P	60_I	1.235	1.00
43_V	201_Q	1.229	1.00
148_N	178_S	1.225	1.00
94_E	98_S	1.215	0.99
135_N	139_A	1.211	0.99
55_D	99_I	1.196	0.99
113_F	146_D	1.194	0.99
60_I	63_E	1.190	0.99
172_V	200_G	1.188	0.99
31_T	184_D	1.182	0.99
78_K	92_D	1.178	0.99
198_Q	201_Q	1.161	0.99
18_I	208_L	1.143	0.99
20_Y	210_L	1.137	0.99
85_S	88_A	1.127	0.99
27_P	184_D	1.123	0.99
63_E	70_V	1.115	0.99
30_Y	190_V	1.110	0.99
187_E	191_N	1.108	0.99
99_I	102_A	1.107	0.99
58_N	61_A	1.092	0.99
150_S	155_N	1.088	0.99
37_V	194_E	1.062	0.99
75_A	96_M	1.056	0.99
19_I	180_V	1.055	0.99
94_E	140_R	1.054	0.98
72_I	97_N	1.050	0.98
165_V	192_A	1.042	0.98
188_F	191_N	1.039	0.98
74_S	80_N	1.026	0.98
42_N	201_Q	1.022	0.98
64_A	104_T	1.019	0.98
79_Y	82_I	1.012	0.98
83_Y	88_A	1.004	0.98
197_I	207_F	0.995	0.98
75_A	99_I	0.991	0.98
64_A	106_N	0.986	0.98
35_L	62_E	0.964	0.97
204_G	207_F	0.961	0.97
42_N	65_K	0.960	0.97
35_L	63_E	0.956	0.97
168_V	180_V	0.944	0.97
90_F	136_D	0.944	0.97
20_Y	209_P	0.943	0.97
166_Q	170_S	0.931	0.97
87_Q	91_D	0.930	0.97
136_D	139_A	0.919	0.96
164_V	192_A	0.910	0.96
60_I	100_I	0.896	0.96
60_I	70_V	0.896	0.96
35_L	68_H	0.890	0.96
151_S	164_V	0.882	0.95
145_C	179_V	0.879	0.95
150_S	154_A	0.878	0.95
36_D	40_K	0.877	0.95
149_V	180_V	0.875	0.95
60_I	103_Q	0.872	0.95
44_K	209_P	0.872	0.95
209_P	213_S	0.871	0.95
96_M	100_I	0.863	0.95
90_F	94_E	0.863	0.95
182_Q	196_I	0.858	0.95
86_E	121_V	0.856	0.95
72_I	96_M	0.856	0.95
19_I	174_S	0.853	0.95
210_L	214_S	0.848	0.94
17_K	176_N	0.848	0.94
38_L	45_A	0.846	0.94
73_H	77_H	0.838	0.94
165_V	196_I	0.837	0.94
93_L	111_I	0.837	0.94
48_F	145_C	0.833	0.94
59_M	63_E	0.833	0.94
168_V	200_G	0.825	0.94
52_T	76_S	0.821	0.93
115_G	154_A	0.818	0.93
39_D	68_H	0.810	0.93
95_Q	98_S	0.809	0.93
26_G	184_D	0.806	0.93
69_T	110_I	0.800	0.92
164_V	168_V	0.797	0.92
164_V	188_F	0.797	0.92
136_D	140_R	0.795	0.92
46_T	210_L	0.793	0.92
90_F	139_A	0.793	0.92
163_Q	167_N	0.781	0.92
72_I	93_L	0.781	0.92
27_P	53_H	0.779	0.91
69_T	209_P	0.778	0.91
113_F	144_Y	0.771	0.91
98_S	101_K	0.765	0.91
192_A	196_I	0.765	0.91
93_L	137_V	0.764	0.91
100_I	104_T	0.764	0.91
29_K	184_D	0.764	0.91
20_Y	213_S	0.757	0.90
165_V	199_W	0.756	0.90
46_T	69_T	0.751	0.90
151_S	168_V	0.748	0.90
79_Y	117_S	0.737	0.89
137_V	144_Y	0.737	0.89
149_V	174_S	0.736	0.89
30_Y	33_G	0.732	0.89
166_Q	169_I	0.728	0.88
72_I	111_I	0.725	0.88
21_L	182_Q	0.722	0.88
80_N	111_I	0.720	0.88
169_I	203_N	0.720	0.88
175_H	178_S	0.717	0.88
23_F	193_V	0.715	0.88
88_A	91_D	0.713	0.87
179_V	210_L	0.711	0.87
89_F	136_D	0.709	0.87
37_V	40_K	0.706	0.87
161_T	165_V	0.704	0.87
110_I	211_T	0.703	0.87
189_S	193_V	0.698	0.86
119_N	133_L	0.696	0.86
147_W	181_L	0.693	0.86
41_Y	193_V	0.693	0.86
150_S	181_L	0.690	0.86
81_Q	117_S	0.681	0.85
195_Q	199_W	0.680	0.85
31_T	35_L	0.679	0.85
27_P	31_T	0.678	0.85
96_M	99_I	0.676	0.85
17_K	203_N	0.675	0.84
74_S	78_K	0.673	0.84
18_I	207_F	0.672	0.84
48_F	71_A	0.658	0.83
149_V	168_V	0.656	0.83
201_Q	207_F	0.655	0.83
69_T	210_L	0.655	0.83
86_E	136_D	0.651	0.82
70_V	104_T	0.648	0.82
43_V	209_P	0.645	0.82
28_G	32_Q	0.643	0.81
61_A	64_A	0.640	0.81
163_Q	166_Q	0.639	0.81
161_T	195_Q	0.635	0.81
34_L	189_S	0.635	0.81
32_Q	36_D	0.634	0.81
50_T	184_D	0.634	0.81
86_E	90_F	0.631	0.80
35_L	66_R	0.629	0.80
62_E	65_K	0.628	0.80
133_L	136_D	0.628	0.80
51_N	99_I	0.627	0.80
186_K	193_V	0.626	0.80
90_F	140_R	0.614	0.78
28_G	53_H	0.612	0.78
100_I	103_Q	0.609	0.78
49_V	54_P	0.608	0.78
72_I	142_L	0.608	0.78
46_T	209_P	0.607	0.78
30_Y	34_L	0.600	0.77
89_F	133_L	0.598	0.77
34_L	37_V	0.597	0.76
97_N	107_D	0.596	0.76
23_F	182_Q	0.591	0.76
21_L	43_V	0.586	0.75
200_G	203_N	0.586	0.75
80_N	83_Y	0.583	0.75
160_S	188_F	0.582	0.75
70_V	100_I	0.578	0.74
115_G	151_S	0.577	0.74
98_S	107_D	0.571	0.73
32_Q	35_L	0.569	0.73
168_V	192_A	0.568	0.73
25_D	53_H	0.568	0.73
174_S	200_G	0.565	0.73
157_K	160_S	0.563	0.72
186_K	189_S	0.559	0.72
168_V	182_Q	0.556	0.71
93_L	142_L	0.556	0.71
111_I	137_V	0.555	0.71
78_K	83_Y	0.554	0.71
153_D	189_S	0.554	0.71
76_S	95_Q	0.550	0.71
33_G	37_V	0.548	0.70
49_V	184_D	0.546	0.70
24_D	112_R	0.543	0.70
92_D	96_M	0.541	0.69
20_Y	46_T	0.540	0.69
19_I	199_W	0.538	0.69
19_I	207_F	0.538	0.69
28_G	184_D	0.537	0.69
39_D	42_N	0.537	0.69
174_S	178_S	0.536	0.69
88_A	92_D	0.535	0.68
54_P	96_M	0.535	0.68
18_I	212_T	0.533	0.68
30_Y	71_A	0.531	0.68
54_P	100_I	0.531	0.68
205_Y	208_L	0.530	0.68
23_F	26_G	0.529	0.68
59_M	184_D	0.529	0.68
150_S	164_V	0.528	0.67
24_D	27_P	0.528	0.67
149_V	164_V	0.523	0.67
57_Q	102_A	0.522	0.67
149_V	172_V	0.521	0.66
83_Y	89_F	0.520	0.66
116_G	181_L	0.519	0.66
55_D	75_A	0.519	0.66
81_Q	88_A	0.517	0.66
191_N	195_Q	0.517	0.66
80_N	89_F	0.514	0.65
110_I	210_L	0.512	0.65
25_D	31_T	0.512	0.65
24_D	114_P	0.512	0.65
115_G	180_V	0.507	0.64
35_L	45_A	0.507	0.64
162_E	170_S	0.506	0.64
208_L	212_T	0.506	0.64
56_Y	59_M	0.505	0.64
196_I	200_G	0.505	0.64
20_Y	142_L	0.504	0.64
164_V	171_G	0.503	0.64
64_A	70_V	0.503	0.64
23_F	34_L	0.502	0.64
162_E	166_Q	0.502	0.64
40_K	202_A	0.501	0.63
117_S	133_L	0.500	0.63
28_G	34_L	0.500	0.63

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
2cc0_A	1	0.8565	100	0.264	Contact Map
4m1b_A	1	0.8744	100	0.274	Contact Map
1ny1_A	1	0.9193	100	0.279	Contact Map
2c1i_A	1	0.9148	100	0.281	Contact Map
2w3z_A	1	0.8789	100	0.282	Contact Map
2y8u_A	1	0.9193	100	0.284	Contact Map
2j13_A	1	0.8341	100	0.294	Contact Map
2c71_A	1	0.843	100	0.301	Contact Map
2iw0_A	1	0.9148	100	0.303	Contact Map
2vyo_A	1	0.8744	100	0.319	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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