T0890_1_191 - CASP12 - GREMLIN Contacts

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T0890_1_191 - T0890 1-191

ID:	41	Sequences: EKVETVAGLGFKDKEAAEKTLKILKGRDPDYQKLAIKGLLGSAKRVLPSTKNEDKIKSIKEAMETFEDFLETFDREERSKQNMAYLSLDLIKNLSDKPSDALAAEFVECYDKVAKGNYKHLRTKFPKDDDSTSWDIVRNKKLLKLKETVKQNGEKLFDSDGKPTKVHLEMIYWAYSPNVDKLKAYCTKLEK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	191 (189)
Sequences:	51 (34)
Seq/√Len:	2.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
67_E	161_G	4.051	0.65
109_C	136_I	3.627	0.56
33_K	174_A	3.047	0.43
108_E	151_Q	2.995	0.42
52_N	184_A	2.719	0.36
68_D	91_I	2.473	0.31
106_F	134_W	2.379	0.29
70_L	177_P	2.375	0.29
135_D	139_N	2.346	0.28
5_T	156_L	2.257	0.27
96_D	108_E	2.200	0.26
9_L	35_A	2.125	0.24
20_T	175_Y	1.874	0.20
63_M	189_L	1.859	0.20
136_I	174_A	1.818	0.20
14_K	18_E	1.787	0.19
39_L	46_V	1.781	0.19
23_I	96_D	1.772	0.19
35_A	39_L	1.758	0.19
21_L	177_P	1.744	0.19
66_F	142_L	1.668	0.17
9_L	39_L	1.662	0.17
52_N	58_S	1.661	0.17
86_L	182_L	1.650	0.17
109_C	174_A	1.647	0.17
28_D	50_T	1.645	0.17
140_K	148_T	1.556	0.16
29_P	146_K	1.553	0.16
28_D	47_L	1.545	0.16
20_T	23_I	1.488	0.15
66_F	124_K	1.486	0.15
24_L	122_R	1.477	0.15
156_L	170_M	1.466	0.15
99_S	170_M	1.464	0.15
34_L	41_G	1.449	0.15
77_E	113_V	1.443	0.15
80_K	139_N	1.431	0.15
87_S	146_K	1.426	0.15
6_V	37_K	1.420	0.14
25_K	161_G	1.419	0.14
59_I	73_F	1.404	0.14
10_G	87_S	1.399	0.14
123_T	174_A	1.391	0.14
5_T	127_K	1.383	0.14
34_L	37_K	1.380	0.14
89_D	96_D	1.369	0.14
15_E	108_E	1.368	0.14
8_G	123_T	1.350	0.14
42_S	76_E	1.347	0.14
42_S	69_F	1.343	0.14
81_Q	93_N	1.318	0.13
30_D	34_L	1.318	0.13
5_T	44_K	1.313	0.13
135_D	161_G	1.268	0.13
8_G	20_T	1.265	0.13
56_I	61_E	1.262	0.13
82_N	85_Y	1.258	0.13
24_L	28_D	1.253	0.13
76_E	162_K	1.251	0.13
9_L	38_G	1.249	0.13
43_A	124_K	1.249	0.13
25_K	51_K	1.240	0.13
15_E	96_D	1.237	0.12
51_K	173_W	1.233	0.12
150_K	179_V	1.224	0.12
71_E	169_E	1.222	0.12
22_K	136_I	1.208	0.12
107_V	114_A	1.201	0.12
87_S	168_L	1.200	0.12
80_K	122_R	1.197	0.12
23_I	68_D	1.182	0.12
18_E	36_I	1.181	0.12
91_I	104_A	1.176	0.12
113_V	169_E	1.172	0.12
9_L	118_Y	1.171	0.12
21_L	70_L	1.170	0.12
97_K	166_V	1.160	0.12
23_I	126_P	1.152	0.12
27_R	86_L	1.136	0.12
34_L	39_L	1.135	0.12
62_A	65_T	1.134	0.11
37_K	41_G	1.117	0.11
61_E	183_K	1.116	0.11
15_E	162_K	1.112	0.11
24_L	50_T	1.102	0.11
3_V	126_P	1.094	0.11
50_T	55_K	1.093	0.11
145_L	179_V	1.086	0.11
53_E	60_K	1.086	0.11
114_A	124_K	1.082	0.11
79_S	108_E	1.082	0.11
5_T	37_K	1.072	0.11
80_K	135_D	1.071	0.11
107_V	188_K	1.071	0.11
27_R	177_P	1.070	0.11
16_A	76_E	1.068	0.11
138_R	167_H	1.058	0.11
12_K	167_H	1.058	0.11
12_K	17_A	1.058	0.11
11_F	167_H	1.058	0.11
17_A	138_R	1.058	0.11
11_F	138_R	1.058	0.11
12_K	138_R	1.058	0.11
11_F	17_A	1.058	0.11
17_A	167_H	1.058	0.11
79_S	123_T	1.050	0.11
74_D	175_Y	1.049	0.11
153_G	171_I	1.037	0.11
45_R	118_Y	1.024	0.11
147_E	174_A	1.004	0.10
137_V	158_D	0.993	0.10
46_V	157_F	0.989	0.10
89_D	189_L	0.988	0.10
56_I	147_E	0.988	0.10
29_P	37_K	0.984	0.10
46_V	49_S	0.983	0.10
24_L	139_N	0.978	0.10
110_Y	142_L	0.972	0.10
52_N	166_V	0.971	0.10
57_K	114_A	0.956	0.10
13_D	70_L	0.956	0.10
93_N	148_T	0.954	0.10
15_E	115_K	0.952	0.10
40_L	109_C	0.942	0.10
4_E	37_K	0.935	0.10
72_T	133_S	0.931	0.10
81_Q	166_V	0.924	0.10
40_L	123_T	0.913	0.10
39_L	45_R	0.908	0.10
122_R	139_N	0.901	0.09
60_K	90_L	0.899	0.09
36_I	162_K	0.894	0.09
54_D	191_K	0.893	0.09
21_L	115_K	0.883	0.09
82_N	183_K	0.880	0.09
80_K	116_G	0.879	0.09
116_G	122_R	0.876	0.09
88_L	142_L	0.874	0.09
68_D	105_E	0.874	0.09
14_K	145_L	0.863	0.09
55_K	85_Y	0.863	0.09
79_S	151_Q	0.855	0.09
58_S	166_V	0.854	0.09
16_A	98_P	0.849	0.09
110_Y	121_L	0.847	0.09
37_K	40_L	0.846	0.09
55_K	163_P	0.840	0.09
21_L	103_A	0.840	0.09
57_K	90_L	0.834	0.09
59_I	155_K	0.830	0.09
87_S	111_D	0.830	0.09
81_Q	97_K	0.824	0.09
35_A	46_V	0.823	0.09
79_S	113_V	0.820	0.09
108_E	170_M	0.820	0.09
105_E	169_E	0.816	0.09
77_E	115_K	0.815	0.09
58_S	184_A	0.813	0.09
8_G	168_L	0.813	0.09
42_S	58_S	0.812	0.09
33_K	74_D	0.810	0.09
47_L	91_I	0.809	0.09
129_D	183_K	0.801	0.09
94_L	149_V	0.799	0.09
73_F	175_Y	0.798	0.09
90_L	158_D	0.791	0.09
165_K	190_E	0.791	0.09
51_K	108_E	0.789	0.09
84_A	132_T	0.788	0.09
21_L	36_I	0.787	0.09
60_K	155_K	0.783	0.09
71_E	84_A	0.783	0.09
3_V	98_P	0.776	0.09
110_Y	134_W	0.774	0.09
62_A	66_F	0.768	0.08
56_I	66_F	0.768	0.08
43_A	62_A	0.767	0.08
106_F	110_Y	0.766	0.08
140_K	145_L	0.764	0.08
171_I	178_N	0.756	0.08
15_E	19_K	0.755	0.08
72_T	166_V	0.748	0.08
66_F	133_S	0.748	0.08
93_N	166_V	0.745	0.08
83_M	146_K	0.739	0.08
44_K	70_L	0.737	0.08
3_V	8_G	0.736	0.08
59_I	175_Y	0.732	0.08
150_K	176_S	0.731	0.08
20_T	68_D	0.730	0.08
154_E	166_V	0.729	0.08
46_V	118_Y	0.726	0.08
53_E	182_L	0.724	0.08
19_K	190_E	0.720	0.08
46_V	56_I	0.705	0.08
43_A	79_S	0.703	0.08
62_A	96_D	0.701	0.08
55_K	82_N	0.699	0.08
102_L	144_K	0.698	0.08
156_L	185_Y	0.697	0.08
46_V	61_E	0.695	0.08
61_E	157_F	0.681	0.08
94_L	168_L	0.681	0.08
21_L	83_M	0.675	0.08
147_E	180_D	0.674	0.08
79_S	140_K	0.673	0.08
54_D	188_K	0.669	0.08
24_L	135_D	0.668	0.08
16_A	162_K	0.660	0.08
39_L	51_K	0.659	0.08
30_D	73_F	0.654	0.08
11_F	32_Q	0.654	0.08
32_Q	138_R	0.654	0.08
32_Q	167_H	0.654	0.08
12_K	32_Q	0.654	0.08
17_A	32_Q	0.654	0.08
166_V	184_A	0.651	0.08
9_L	46_V	0.650	0.08
14_K	116_G	0.650	0.08
35_A	118_Y	0.648	0.08
32_Q	44_K	0.637	0.08
54_D	181_K	0.635	0.08
180_D	186_C	0.632	0.08
43_A	66_F	0.624	0.08
14_K	78_R	0.623	0.08
151_Q	171_I	0.616	0.07
40_L	143_L	0.614	0.07
13_D	17_A	0.613	0.07
13_D	138_R	0.613	0.07
13_D	167_H	0.613	0.07
82_N	175_Y	0.612	0.07
89_D	188_K	0.611	0.07
68_D	77_E	0.611	0.07
83_M	94_L	0.609	0.07
24_L	80_K	0.603	0.07
21_L	102_L	0.602	0.07
20_T	168_L	0.599	0.07
56_I	175_Y	0.595	0.07
28_D	45_R	0.594	0.07
73_F	155_K	0.594	0.07
102_L	115_K	0.590	0.07
57_K	108_E	0.588	0.07
22_K	124_K	0.580	0.07
67_E	135_D	0.580	0.07
48_P	188_K	0.577	0.07
151_Q	188_K	0.576	0.07
98_P	133_S	0.575	0.07
15_E	51_K	0.569	0.07
23_I	180_D	0.568	0.07
168_L	174_A	0.568	0.07
99_S	159_S	0.564	0.07
4_E	148_T	0.564	0.07
16_A	42_S	0.560	0.07
155_K	160_D	0.558	0.07
19_K	92_K	0.557	0.07
119_K	175_Y	0.556	0.07
50_T	163_P	0.554	0.07
16_A	69_F	0.554	0.07
87_S	113_V	0.551	0.07
20_T	70_L	0.551	0.07
20_T	156_L	0.540	0.07
71_E	104_A	0.538	0.07
144_K	190_E	0.532	0.07
54_D	103_A	0.529	0.07
38_G	173_W	0.529	0.07
58_S	117_N	0.528	0.07
65_T	152_N	0.525	0.07
80_K	119_K	0.525	0.07
85_Y	139_N	0.522	0.07
33_K	41_G	0.522	0.07
103_A	188_K	0.516	0.07
70_L	105_E	0.513	0.07
55_K	122_R	0.513	0.07
10_G	106_F	0.512	0.07
59_I	173_W	0.512	0.07
69_F	76_E	0.510	0.07
90_L	131_S	0.506	0.07
92_K	180_D	0.503	0.07
84_A	177_P	0.503	0.07
53_E	180_D	0.501	0.07
18_E	69_F	0.500	0.07
11_F	27_R	0.500	0.07
17_A	27_R	0.500	0.07
27_R	138_R	0.500	0.07

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
4un2_B	1	0.1885	9.9	0.969	Contact Map
2dna_A	1	0.2461	9.1	0.97	Contact Map
4e0t_A	1	0.8063	8.8	0.97	Contact Map
2cwb_A	1	0.2147	8	0.97	Contact Map
2g3q_A	1	0.199	8	0.97	Contact Map
3c1x_A	1	0.4503	7.4	0.971	Contact Map
2jy5_A	1	0.2042	7.2	0.971	Contact Map
4q0w_A	1	0.6021	6.9	0.971	Contact Map
1wii_A	1	0.3717	6.5	0.971	Contact Map
1vg5_A	1	0.2251	6.3	0.972	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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