DUF1189 - PFAM28P - GREMLIN Contacts

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DUF1189 - Protein of unknown function (DUF1189)

PFAM:	PF06691	Sequences: FKQLKKSIYSPKFYRDVRKQKFGKSILYLLLLSLLLSLPLTISLSISLNSFIDEIAEAIEEQLPDFTIKNGKLSTDEPEPYIIEEDGFIIVIDTTGTITEEDLEDYKNGILLTKDKLVIKNGGETQTYPYSDLPDFTLDKEDLLSFLNSIKPFLKIILPLIFLFLFLFSFISKLIYALILALIGLLFAKILKKKLSYKQLFRLAIYALTLPILLFTILGLLGFSIPFFFLIYFIIALIYLFLAI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	244 (239)
Sequences:	1965 (1817)
Seq/√Len:	117.5
META:	0.74

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
28_Y	209_T	8.283	1.00
72_K	114_K	6.159	1.00
199_Q	202_R	4.062	1.00
25_S	206_Y	3.682	1.00
6_K	10_S	3.534	1.00
112_L	130_Y	3.344	1.00
80_P	83_I	3.234	1.00
25_S	202_R	2.954	1.00
181_A	200_L	2.938	1.00
139_D	142_D	2.900	1.00
29_L	205_I	2.653	1.00
22_F	26_I	2.561	1.00
73_L	130_Y	2.430	1.00
72_K	115_D	2.368	1.00
32_L	209_T	2.277	1.00
184_G	200_L	2.241	1.00
173_K	212_I	2.238	1.00
13_F	17_V	2.226	1.00
202_R	206_Y	2.221	1.00
116_K	127_T	2.151	1.00
201_F	205_I	2.119	1.00
33_S	37_S	2.116	1.00
66_F	73_L	2.059	1.00
14_Y	17_V	2.015	1.00
196_S	199_Q	1.965	1.00
22_F	202_R	1.962	1.00
3_Q	20_Q	1.947	1.00
181_A	197_Y	1.796	1.00
140_K	144_L	1.787	1.00
112_L	117_L	1.767	1.00
29_L	177_A	1.742	1.00
177_A	208_L	1.737	1.00
116_K	129_P	1.719	1.00
189_K	194_K	1.690	1.00
181_A	201_F	1.690	1.00
96_G	111_L	1.687	1.00
10_S	13_F	1.669	1.00
20_Q	24_K	1.647	1.00
4_L	8_I	1.639	1.00
24_K	27_L	1.610	1.00
75_T	94_T	1.601	1.00
197_Y	201_F	1.601	1.00
232_Y	236_A	1.593	1.00
79_E	95_T	1.583	1.00
65_D	140_K	1.567	1.00
9_Y	13_F	1.542	1.00
126_Q	130_Y	1.523	1.00
18_R	199_Q	1.497	1.00
142_D	145_S	1.483	1.00
173_K	176_Y	1.464	1.00
13_F	16_D	1.457	1.00
58_A	61_E	1.444	1.00
200_L	204_A	1.440	1.00
155_K	159_P	1.429	1.00
129_P	132_D	1.428	1.00
51_F	55_I	1.426	1.00
14_Y	18_R	1.423	1.00
204_A	208_L	1.417	1.00
75_T	79_E	1.413	1.00
3_Q	206_Y	1.400	1.00
6_K	9_Y	1.397	1.00
65_D	139_D	1.389	1.00
118_V	127_T	1.383	1.00
66_F	75_T	1.366	1.00
34_L	162_F	1.361	1.00
8_I	13_F	1.349	1.00
20_Q	25_S	1.347	1.00
62_Q	78_P	1.343	1.00
198_K	202_R	1.329	1.00
178_L	197_Y	1.328	1.00
66_F	74_S	1.319	1.00
177_A	201_F	1.265	0.99
233_F	237_L	1.259	0.99
93_D	96_G	1.257	0.99
28_Y	32_L	1.253	0.99
42_I	46_I	1.245	0.99
102_D	105_D	1.233	0.99
133_L	136_F	1.229	0.99
195_L	199_Q	1.224	0.99
83_I	90_I	1.221	0.99
212_I	215_F	1.207	0.99
206_Y	209_T	1.195	0.99
39_P	43_S	1.195	0.99
75_T	92_I	1.182	0.99
25_S	205_I	1.169	0.99
27_L	30_L	1.165	0.99
6_K	13_F	1.153	0.99
113_T	118_V	1.139	0.99
218_L	225_I	1.133	0.99
111_L	118_V	1.131	0.99
236_A	239_Y	1.130	0.99
203_L	207_A	1.126	0.99
24_K	206_Y	1.115	0.99
142_D	146_F	1.113	0.99
225_I	228_F	1.105	0.99
202_R	205_I	1.097	0.98
188_A	200_L	1.096	0.98
124_E	128_Y	1.094	0.98
185_L	200_L	1.071	0.98
7_S	28_Y	1.060	0.98
67_T	137_T	1.048	0.98
215_F	219_G	1.045	0.98
75_T	78_P	1.041	0.98
73_L	94_T	1.038	0.98
177_A	204_A	1.037	0.98
181_A	204_A	1.029	0.98
91_V	96_G	1.029	0.98
52_I	55_I	1.028	0.98
10_S	14_Y	1.024	0.98
84_E	87_G	1.022	0.98
66_F	140_K	1.017	0.97
69_K	72_K	1.017	0.97
22_F	25_S	1.011	0.97
208_L	236_A	1.007	0.97
230_L	239_Y	0.994	0.97
32_L	212_I	0.984	0.97
16_D	20_Q	0.974	0.97
168_F	171_I	0.973	0.97
21_K	206_Y	0.969	0.97
33_S	170_F	0.962	0.96
91_V	98_I	0.960	0.96
66_F	112_L	0.950	0.96
116_K	130_Y	0.944	0.96
77_E	181_A	0.943	0.96
170_F	174_L	0.942	0.96
39_P	46_I	0.940	0.96
3_Q	8_I	0.935	0.96
35_L	50_S	0.934	0.96
48_L	183_I	0.934	0.96
113_T	116_K	0.926	0.96
17_V	21_K	0.922	0.95
85_E	89_I	0.919	0.95
73_L	137_T	0.912	0.95
95_T	98_I	0.912	0.95
216_T	220_L	0.898	0.95
117_L	130_Y	0.896	0.95
8_I	210_L	0.894	0.95
166_F	170_F	0.887	0.94
143_L	146_F	0.881	0.94
184_G	207_A	0.878	0.94
32_L	38_L	0.876	0.94
3_Q	25_S	0.875	0.94
197_Y	208_L	0.867	0.94
67_T	74_S	0.867	0.94
68_I	138_L	0.865	0.94
3_Q	16_D	0.847	0.93
99_T	102_D	0.844	0.93
152_P	160_L	0.838	0.93
25_S	28_Y	0.832	0.92
217_I	220_L	0.828	0.92
13_F	206_Y	0.824	0.92
187_F	208_L	0.822	0.92
113_T	130_Y	0.814	0.91
152_P	155_K	0.810	0.91
14_Y	39_P	0.810	0.91
33_S	39_P	0.808	0.91
182_L	186_L	0.806	0.91
227_F	231_I	0.803	0.91
21_K	26_I	0.801	0.91
43_S	48_L	0.800	0.91
232_Y	239_Y	0.795	0.90
15_R	19_K	0.788	0.90
234_I	238_I	0.785	0.90
65_D	76_D	0.780	0.90
7_S	15_R	0.770	0.89
54_E	57_E	0.769	0.89
96_G	102_D	0.767	0.89
73_L	77_E	0.765	0.89
6_K	16_D	0.764	0.89
67_T	92_I	0.761	0.88
37_S	166_F	0.758	0.88
14_Y	210_L	0.756	0.88
142_D	147_L	0.756	0.88
5_K	164_F	0.755	0.88
185_L	189_K	0.752	0.88
226_P	229_F	0.750	0.88
93_D	99_T	0.750	0.88
59_I	143_L	0.750	0.88
169_S	173_K	0.745	0.87
36_L	216_T	0.744	0.87
48_L	55_I	0.744	0.87
70_N	225_I	0.744	0.87
178_L	181_A	0.740	0.87
103_L	108_N	0.738	0.87
150_I	153_F	0.736	0.87
4_L	218_L	0.735	0.87
21_K	202_R	0.733	0.87
224_S	229_F	0.733	0.87
3_Q	17_V	0.731	0.86
184_G	204_A	0.731	0.86
68_I	71_G	0.730	0.86
21_K	25_S	0.727	0.86
15_R	196_S	0.726	0.86
115_D	118_V	0.723	0.86
208_L	212_I	0.721	0.86
8_I	206_Y	0.717	0.85
79_E	94_T	0.716	0.85
23_G	27_L	0.716	0.85
33_S	177_A	0.712	0.85
225_I	232_Y	0.711	0.85
228_F	231_I	0.711	0.85
209_T	213_L	0.708	0.85
41_T	44_L	0.707	0.85
36_L	215_F	0.704	0.84
80_P	96_G	0.699	0.84
99_T	111_L	0.699	0.84
181_A	236_A	0.698	0.84
67_T	75_T	0.694	0.83
71_G	195_L	0.693	0.83
180_L	236_A	0.691	0.83
68_I	134_P	0.689	0.83
61_E	125_T	0.689	0.83
143_L	162_F	0.688	0.83
98_I	165_L	0.687	0.83
223_F	228_F	0.687	0.83
19_K	227_F	0.683	0.82
130_Y	180_L	0.680	0.82
103_L	208_L	0.680	0.82
35_L	207_A	0.680	0.82
92_I	112_L	0.680	0.82
101_E	105_D	0.680	0.82
24_K	202_R	0.678	0.82
109_G	113_T	0.677	0.82
170_F	197_Y	0.675	0.82
6_K	17_V	0.673	0.82
182_L	185_L	0.669	0.81
40_L	182_L	0.663	0.81
97_T	141_E	0.663	0.81
183_I	187_F	0.663	0.81
181_A	211_P	0.662	0.80
211_P	220_L	0.660	0.80
31_L	39_P	0.658	0.80
237_L	241_F	0.656	0.80
198_K	201_F	0.656	0.80
204_A	236_A	0.655	0.80
4_L	7_S	0.653	0.80
3_Q	21_K	0.653	0.80
223_F	227_F	0.649	0.79
186_L	237_L	0.649	0.79
92_I	175_I	0.648	0.79
13_F	25_S	0.646	0.79
43_S	47_S	0.645	0.79
82_I	118_V	0.644	0.79
178_L	201_F	0.643	0.79
72_K	75_T	0.643	0.79
229_F	236_A	0.643	0.79
3_Q	24_K	0.642	0.78
154_L	162_F	0.639	0.78
96_G	99_T	0.638	0.78
121_N	235_I	0.636	0.78
220_L	231_I	0.636	0.78
37_S	169_S	0.633	0.77
57_E	141_E	0.632	0.77
11_P	17_V	0.632	0.77
177_A	205_I	0.630	0.77
3_Q	6_K	0.628	0.77
68_I	73_L	0.627	0.77
125_T	128_Y	0.626	0.77
124_E	139_D	0.626	0.77
73_L	112_L	0.622	0.76
5_K	9_Y	0.621	0.76
177_A	184_G	0.619	0.76
29_L	181_A	0.617	0.76
53_D	57_E	0.615	0.75
3_Q	13_F	0.615	0.75
34_L	37_S	0.612	0.75
160_L	231_I	0.612	0.75
27_L	38_L	0.608	0.75
28_Y	206_Y	0.605	0.74
176_Y	208_L	0.602	0.74
203_L	206_Y	0.601	0.74
226_P	230_L	0.595	0.73
30_L	166_F	0.595	0.73
204_A	240_L	0.595	0.73
73_L	133_L	0.593	0.73
176_Y	180_L	0.591	0.73
217_I	229_F	0.591	0.73
80_P	95_T	0.591	0.73
47_S	217_I	0.588	0.72
66_F	130_Y	0.588	0.72
69_K	117_L	0.588	0.72
207_A	239_Y	0.584	0.72
154_L	172_S	0.583	0.72
110_I	138_L	0.578	0.71
90_I	107_K	0.575	0.70
9_Y	18_R	0.575	0.70
4_L	46_I	0.575	0.70
48_L	146_F	0.574	0.70
119_I	127_T	0.572	0.70
18_R	34_L	0.572	0.70
33_S	216_T	0.571	0.70
73_L	117_L	0.563	0.69
215_F	218_L	0.563	0.69
68_I	230_L	0.560	0.68
23_G	202_R	0.559	0.68
96_G	113_T	0.557	0.68
214_L	235_I	0.556	0.68
36_L	62_Q	0.556	0.68
119_I	128_Y	0.553	0.68
185_L	220_L	0.553	0.68
15_R	18_R	0.553	0.68
156_I	161_I	0.552	0.67
148_N	151_K	0.552	0.67
206_Y	210_L	0.552	0.67
121_N	124_E	0.548	0.67
29_L	173_K	0.548	0.67
26_I	195_L	0.547	0.67
91_V	106_Y	0.544	0.66
40_L	153_F	0.544	0.66
60_E	144_L	0.543	0.66
158_L	163_L	0.542	0.66
37_S	162_F	0.541	0.66
228_F	232_Y	0.539	0.66
34_L	125_T	0.539	0.66
51_F	54_E	0.539	0.66
68_I	102_D	0.536	0.65
121_N	183_I	0.536	0.65
50_S	165_L	0.535	0.65
20_Q	197_Y	0.531	0.64
51_F	90_I	0.529	0.64
20_Q	184_G	0.529	0.64
99_T	192_K	0.529	0.64
12_K	18_R	0.528	0.64
18_R	21_K	0.528	0.64
97_T	103_L	0.527	0.64
139_D	204_A	0.526	0.64
214_L	220_L	0.522	0.63
219_G	222_G	0.522	0.63
83_I	178_L	0.521	0.63
229_F	239_Y	0.521	0.63
130_Y	135_D	0.520	0.63
162_F	166_F	0.520	0.63
36_L	70_N	0.519	0.63
175_I	241_F	0.518	0.63
113_T	212_I	0.517	0.62
237_L	240_L	0.516	0.62
22_F	206_Y	0.514	0.62
57_E	61_E	0.513	0.62
29_L	170_F	0.513	0.62
88_F	128_Y	0.512	0.62
233_F	240_L	0.511	0.61
76_D	79_E	0.511	0.61
157_I	163_L	0.509	0.61
85_E	88_F	0.506	0.61
47_S	116_K	0.505	0.61
38_L	216_T	0.505	0.61
18_R	22_F	0.504	0.60
172_S	190_I	0.503	0.60
158_L	162_F	0.503	0.60
87_G	107_K	0.502	0.60
66_F	94_T	0.502	0.60
82_I	85_E	0.502	0.60
7_S	10_S	0.502	0.60
26_I	227_F	0.501	0.60
172_S	212_I	0.501	0.60
128_Y	177_A	0.501	0.60
114_K	126_Q	0.501	0.60
63_L	68_I	0.500	0.60

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
4gycB	2	0.1844	2.9	0.949	Contact Map
3wdoA	1	0.4508	2.3	0.951	Contact Map
2m8rA	1	0.168	2.2	0.952	Contact Map
2kogA	1	0.1639	2.1	0.953	Contact Map
4wmuA	1	0.3074	1.9	0.954	Contact Map
3qbrA	1	0.2992	1.9	0.954	Contact Map
3tx3A	2	0.2746	1.8	0.954	Contact Map
4gx0A	3	0.3238	1.6	0.955	Contact Map
3pk1A	1	0.3361	1.5	0.956	Contact Map
4hw4A	2	0.3238	1.5	0.956	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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