DUF4917 - PFAM28P - GREMLIN Contacts

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DUF4917 - Domain of unknown function (DUF4917)

PFAM:	PF16263	Sequences: LLLGNGFSIAYDPDFSYGSLFEFAQDFGLLSPELKKLFEALGTKDFELVLRALETASRVNKAYGIDDAKIREDYEALKEALIEAVAAVHPEHSEIPEQLAACRKFLSNFGTVFTLNYDLLLYWALMHGNDGLGLRFKDGFNPDGDFDDDYVVWREPWGNAKSQTLVFYLHGALHLVFDAGGEIRKLTWNTGIPLLDQIREAWLDKGEYPLFVSEGTSEQKLARIRHNDYLSFCYRSVLASIGGSLVIFGHSLGENDEHILDAINKSKIKKVAVSVYPGDQAIINRAERLIAKRKFPLEVHFFDAESAGVW	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	310 (306)
Sequences:	989 (812)
Seq/√Len:	46.4
META:	0.703

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
274_S	304_A	3.838	1.00
245_L	263_I	3.646	1.00
63_Y	73_D	3.439	1.00
247_I	252_L	3.305	1.00
111_T	167_F	3.036	1.00
257_E	261_D	2.950	1.00
270_K	298_E	2.735	1.00
60_N	65_I	2.718	1.00
119_L	194_L	2.541	1.00
81_L	211_F	2.447	1.00
241_I	245_L	2.440	1.00
9_I	13_P	2.431	1.00
125_L	166_V	2.413	1.00
82_I	211_F	2.403	1.00
9_I	251_S	2.385	1.00
21_F	35_K	2.325	1.00
113_F	236_S	2.311	1.00
57_S	71_R	2.266	1.00
274_S	278_G	2.250	1.00
2_L	245_L	2.237	1.00
102_C	124_A	2.210	1.00
246_V	272_A	2.209	1.00
193_P	196_D	2.201	1.00
30_L	34_L	2.180	1.00
289_L	293_R	2.167	1.00
133_G	136_F	2.163	1.00
287_E	290_I	2.109	1.00
3_L	7_F	2.081	1.00
286_A	293_R	2.034	0.99
137_K	141_N	1.998	0.99
41_L	49_V	1.974	0.99
275_V	282_I	1.934	0.99
11_Y	98_Q	1.933	0.99
282_I	289_L	1.931	0.99
9_I	16_S	1.886	0.99
38_F	49_V	1.879	0.99
282_I	293_R	1.873	0.99
115_L	259_I	1.830	0.99
50_L	74_Y	1.817	0.99
150_Y	153_W	1.808	0.99
11_Y	102_C	1.793	0.99
247_I	250_H	1.789	0.99
270_K	274_S	1.786	0.99
63_Y	70_I	1.775	0.99
86_A	199_R	1.773	0.98
286_A	290_I	1.758	0.98
33_E	69_K	1.756	0.98
178_D	226_H	1.746	0.98
283_I	290_I	1.742	0.98
282_I	290_I	1.730	0.98
115_L	250_H	1.725	0.98
245_L	268_I	1.720	0.98
282_I	286_A	1.719	0.98
286_A	289_L	1.717	0.98
194_L	198_I	1.673	0.98
79_E	83_E	1.665	0.98
102_C	120_L	1.664	0.98
272_A	277_P	1.660	0.98
248_F	302_F	1.642	0.98
270_K	300_H	1.639	0.97
63_Y	274_S	1.602	0.97
54_E	219_Q	1.597	0.97
137_K	140_F	1.594	0.97
85_V	211_F	1.582	0.97
274_S	277_P	1.579	0.97
284_N	287_E	1.569	0.97
92_H	193_P	1.565	0.97
168_Y	227_N	1.552	0.96
288_R	291_A	1.539	0.96
135_R	138_D	1.529	0.96
273_V	277_P	1.514	0.96
31_S	76_A	1.498	0.96
78_K	208_Y	1.496	0.96
121_L	124_A	1.472	0.95
31_S	34_L	1.455	0.95
276_Y	304_A	1.450	0.95
82_I	213_S	1.437	0.95
45_D	115_L	1.434	0.94
134_L	138_D	1.430	0.94
43_T	46_F	1.400	0.94
180_G	226_H	1.398	0.94
71_R	75_E	1.390	0.94
105_F	109_F	1.383	0.93
134_L	140_F	1.377	0.93
5_N	8_S	1.367	0.93
175_L	183_I	1.359	0.93
61_K	71_R	1.354	0.93
221_L	225_R	1.342	0.92
4_G	8_S	1.332	0.92
283_I	293_R	1.329	0.92
238_L	262_A	1.329	0.92
183_I	227_N	1.314	0.91
103_R	128_G	1.290	0.91
2_L	259_I	1.274	0.90
234_Y	262_A	1.266	0.90
1_L	4_G	1.256	0.89
285_R	289_L	1.254	0.89
287_E	292_K	1.254	0.89
133_G	137_K	1.252	0.89
280_Q	283_I	1.250	0.89
238_L	266_S	1.246	0.89
238_L	241_I	1.246	0.89
177_F	208_Y	1.245	0.89
270_K	273_V	1.244	0.89
134_L	137_K	1.242	0.89
268_I	272_A	1.241	0.89
88_V	259_I	1.236	0.89
283_I	289_L	1.232	0.89
101_A	107_S	1.226	0.88
216_T	219_Q	1.223	0.88
24_A	123_W	1.221	0.88
51_R	55_T	1.221	0.88
151_V	154_R	1.199	0.87
91_E	94_E	1.196	0.87
281_A	284_N	1.190	0.87
85_V	203_L	1.186	0.87
15_F	24_A	1.182	0.86
167_F	233_C	1.176	0.86
272_A	278_G	1.159	0.85
225_R	228_D	1.156	0.85
132_L	136_F	1.155	0.85
283_I	286_A	1.155	0.85
106_L	121_L	1.153	0.85
284_N	288_R	1.143	0.84
232_F	236_S	1.141	0.84
201_A	207_E	1.140	0.84
13_P	18_G	1.136	0.84
287_E	293_R	1.130	0.84
247_I	301_F	1.130	0.84
104_K	218_E	1.102	0.82
105_F	310_W	1.101	0.82
21_F	77_L	1.099	0.82
167_F	232_F	1.089	0.81
294_K	297_L	1.087	0.81
42_G	257_E	1.087	0.81
151_V	187_T	1.087	0.81
115_L	169_L	1.085	0.81
21_F	49_V	1.080	0.81
290_I	293_R	1.079	0.81
123_W	174_H	1.078	0.81
7_F	114_T	1.070	0.80
140_F	145_D	1.068	0.80
253_G	260_L	1.068	0.80
243_G	266_S	1.067	0.80
251_S	255_N	1.059	0.80
247_I	271_V	1.058	0.80
8_S	17_Y	1.057	0.79
231_S	235_R	1.048	0.79
131_G	134_L	1.046	0.79
46_F	81_L	1.034	0.78
192_I	200_E	1.034	0.78
90_P	109_F	1.032	0.78
112_V	236_S	1.031	0.78
18_G	44_K	1.030	0.78
20_L	46_F	1.028	0.78
169_L	174_H	1.026	0.77
288_R	293_R	1.022	0.77
21_F	44_K	1.021	0.77
24_A	30_L	1.019	0.77
287_E	291_A	1.018	0.77
64_G	218_E	1.008	0.76
244_S	270_K	1.006	0.76
34_L	77_L	1.003	0.76
70_I	79_E	1.001	0.76
38_F	46_F	0.996	0.75
153_W	156_P	0.987	0.75
250_H	253_G	0.983	0.74
125_L	168_Y	0.980	0.74
93_S	96_P	0.968	0.73
15_F	120_L	0.962	0.73
23_F	88_V	0.962	0.73
34_L	302_F	0.959	0.72
78_K	113_F	0.959	0.72
89_H	123_W	0.952	0.72
242_G	273_V	0.949	0.72
15_F	123_W	0.936	0.71
120_L	178_D	0.933	0.70
81_L	85_V	0.932	0.70
36_K	39_E	0.924	0.70
54_E	74_Y	0.923	0.70
114_T	169_L	0.922	0.69
121_L	166_V	0.916	0.69
134_L	139_G	0.916	0.69
109_F	246_V	0.911	0.68
232_F	235_R	0.911	0.68
136_F	140_F	0.910	0.68
187_T	190_T	0.907	0.68
1_L	49_V	0.906	0.68
56_A	268_I	0.900	0.68
186_L	201_A	0.898	0.67
285_R	288_R	0.892	0.67
177_F	226_H	0.892	0.67
281_A	285_R	0.888	0.67
130_D	269_K	0.888	0.67
119_L	123_W	0.887	0.66
281_A	290_I	0.884	0.66
110_G	303_D	0.882	0.66
269_K	298_E	0.881	0.66
2_L	8_S	0.878	0.66
12_D	98_Q	0.878	0.66
102_C	186_L	0.877	0.66
169_L	233_C	0.872	0.65
238_L	243_G	0.870	0.65
267_K	272_A	0.866	0.65
81_L	213_S	0.860	0.64
285_R	293_R	0.859	0.64
68_A	101_A	0.859	0.64
168_Y	172_A	0.856	0.64
102_C	121_L	0.852	0.63
239_A	262_A	0.849	0.63
248_F	255_N	0.846	0.63
79_E	106_L	0.846	0.63
7_F	169_L	0.845	0.63
130_D	133_G	0.843	0.62
2_L	6_G	0.842	0.62
34_L	73_D	0.838	0.62
271_V	274_S	0.829	0.61
48_L	253_G	0.826	0.61
41_L	255_N	0.825	0.61
293_R	297_L	0.823	0.61
80_A	181_G	0.822	0.60
149_D	216_T	0.820	0.60
52_A	113_F	0.819	0.60
2_L	5_N	0.818	0.60
224_I	230_L	0.818	0.60
49_V	203_L	0.817	0.60
122_Y	224_I	0.814	0.60
131_G	136_F	0.812	0.60
120_L	123_W	0.811	0.59
282_I	288_R	0.810	0.59
288_R	292_K	0.809	0.59
54_E	194_L	0.808	0.59
132_L	137_K	0.803	0.59
182_E	261_D	0.803	0.59
11_Y	121_L	0.803	0.59
283_I	287_E	0.802	0.59
100_A	204_D	0.794	0.58
198_I	201_A	0.791	0.58
183_I	233_C	0.791	0.58
159_N	163_Q	0.790	0.57
280_Q	284_N	0.787	0.57
175_L	229_Y	0.785	0.57
149_D	155_E	0.784	0.57
1_L	9_I	0.782	0.57
19_S	168_Y	0.782	0.57
299_V	307_A	0.779	0.56
280_Q	296_P	0.777	0.56
24_A	174_H	0.774	0.56
7_F	113_F	0.772	0.56
10_A	120_L	0.769	0.55
113_F	241_I	0.769	0.55
43_T	304_A	0.768	0.55
112_V	136_F	0.762	0.55
282_I	285_R	0.762	0.55
128_G	233_C	0.760	0.54
63_Y	246_V	0.760	0.54
138_D	145_D	0.754	0.54
20_L	214_E	0.752	0.54
302_F	309_V	0.746	0.53
135_R	140_F	0.744	0.53
284_N	290_I	0.737	0.52
173_L	177_F	0.735	0.52
45_D	109_F	0.735	0.52
126_M	168_Y	0.734	0.52
93_S	166_V	0.732	0.52
271_V	279_D	0.732	0.52
139_G	165_L	0.728	0.51
248_F	306_S	0.728	0.51
48_L	59_V	0.724	0.51
106_L	124_A	0.721	0.51
297_L	300_H	0.721	0.51
30_L	259_I	0.717	0.50
242_G	263_I	0.714	0.50
46_F	89_H	0.712	0.50
211_F	225_R	0.711	0.50
289_L	292_K	0.710	0.50
46_F	214_E	0.710	0.50
66_D	72_E	0.710	0.50
19_S	48_L	0.709	0.49
46_F	49_V	0.708	0.49
52_A	55_T	0.708	0.49
198_I	235_R	0.704	0.49
197_Q	203_L	0.703	0.49
120_L	212_V	0.702	0.49
120_L	174_H	0.702	0.49
54_E	233_C	0.701	0.49
91_E	198_I	0.701	0.49
9_I	215_G	0.697	0.48
103_R	107_S	0.693	0.48
260_L	266_S	0.693	0.48
279_D	289_L	0.692	0.48
268_I	274_S	0.688	0.47
105_F	123_W	0.687	0.47
43_T	274_S	0.687	0.47
80_A	84_A	0.684	0.47
152_V	236_S	0.680	0.47
17_Y	250_H	0.679	0.47
151_V	155_E	0.679	0.47
59_V	66_D	0.674	0.46
90_P	178_D	0.673	0.46
7_F	63_Y	0.672	0.46
254_E	302_F	0.671	0.46
248_F	276_Y	0.671	0.46
50_L	213_S	0.671	0.46
49_V	98_Q	0.670	0.46
149_D	175_L	0.668	0.45
170_H	220_K	0.667	0.45
33_E	73_D	0.662	0.45
136_F	139_G	0.661	0.45
114_T	206_G	0.661	0.45
263_I	303_D	0.660	0.45
141_N	189_N	0.660	0.45
37_L	76_A	0.658	0.44
1_L	215_G	0.656	0.44
286_A	294_K	0.654	0.44
53_L	276_Y	0.653	0.44
41_L	52_A	0.652	0.44
34_L	105_F	0.651	0.44
228_D	232_F	0.651	0.44
205_K	222_A	0.651	0.44
102_C	177_F	0.649	0.44
200_E	271_V	0.649	0.44
95_I	166_V	0.648	0.43
280_Q	286_A	0.647	0.43
249_G	258_H	0.646	0.43
7_F	10_A	0.645	0.43
113_F	227_N	0.645	0.43
70_I	78_K	0.644	0.43
172_A	175_L	0.642	0.43
249_G	256_D	0.641	0.43
273_V	279_D	0.641	0.43
50_L	99_L	0.639	0.43
1_L	6_G	0.636	0.42
83_E	221_L	0.635	0.42
112_V	125_L	0.635	0.42
211_F	246_V	0.633	0.42
100_A	271_V	0.631	0.42
285_R	291_A	0.629	0.42
143_D	152_V	0.625	0.41
122_Y	185_K	0.624	0.41
238_L	259_I	0.624	0.41
51_R	211_F	0.622	0.41
253_G	289_L	0.622	0.41
97_E	100_A	0.619	0.41
34_L	259_I	0.614	0.40
292_K	298_E	0.613	0.40
284_N	291_A	0.611	0.40
80_A	304_A	0.610	0.40
69_K	73_D	0.609	0.40
68_A	72_E	0.608	0.40
75_E	78_K	0.605	0.39
103_R	196_D	0.604	0.39
138_D	141_N	0.604	0.39
77_L	90_P	0.603	0.39
116_N	212_V	0.601	0.39
63_Y	223_R	0.598	0.39
67_D	79_E	0.598	0.39
178_D	234_Y	0.598	0.39
28_G	218_E	0.597	0.39
60_N	248_F	0.596	0.39
56_A	72_E	0.595	0.38
7_F	86_A	0.595	0.38
245_L	302_F	0.594	0.38
221_L	234_Y	0.594	0.38
213_S	266_S	0.594	0.38
21_F	24_A	0.593	0.38
105_F	115_L	0.590	0.38
217_S	252_L	0.589	0.38
56_A	60_N	0.587	0.38
32_P	112_V	0.585	0.37
121_L	177_F	0.585	0.37
15_F	174_H	0.585	0.37
146_F	154_R	0.584	0.37
120_L	304_A	0.584	0.37
24_A	46_F	0.582	0.37
257_E	264_N	0.579	0.37
223_R	226_H	0.578	0.37
245_L	271_V	0.577	0.37
142_P	145_D	0.575	0.37
200_E	288_R	0.575	0.37
179_A	184_R	0.573	0.36
243_G	269_K	0.571	0.36
102_C	274_S	0.570	0.36
130_D	134_L	0.568	0.36
132_L	135_R	0.567	0.36
289_L	302_F	0.567	0.36
162_S	259_I	0.567	0.36
61_K	97_E	0.566	0.36
127_H	239_A	0.566	0.36
141_N	145_D	0.565	0.36
48_L	52_A	0.563	0.35
147_D	153_W	0.563	0.35
280_Q	288_R	0.561	0.35
50_L	88_V	0.560	0.35
78_K	233_C	0.560	0.35
252_L	273_V	0.557	0.35
178_D	186_L	0.556	0.35
270_K	278_G	0.553	0.35
110_G	241_I	0.552	0.34
88_V	231_S	0.551	0.34
174_H	203_L	0.551	0.34
5_N	17_Y	0.551	0.34
178_D	182_E	0.549	0.34
208_Y	276_Y	0.548	0.34
126_M	187_T	0.547	0.34
131_G	135_R	0.543	0.34
101_A	240_S	0.543	0.34
212_V	223_R	0.542	0.34
271_V	280_Q	0.542	0.34
90_P	246_V	0.540	0.33
185_K	215_G	0.539	0.33
114_T	223_R	0.539	0.33
50_L	260_L	0.537	0.33
183_I	210_L	0.536	0.33
274_S	302_F	0.536	0.33
146_F	229_Y	0.535	0.33
61_K	200_E	0.535	0.33
260_L	264_N	0.534	0.33
133_G	140_F	0.532	0.33
94_E	191_G	0.532	0.33
126_M	215_G	0.532	0.33
283_I	288_R	0.532	0.33
42_G	261_D	0.531	0.33
105_F	139_G	0.531	0.33
7_F	121_L	0.530	0.33
77_L	272_A	0.529	0.32
5_N	15_F	0.527	0.32
37_L	84_A	0.526	0.32
38_F	89_H	0.526	0.32
1_L	5_N	0.526	0.32
166_V	207_E	0.525	0.32
22_E	26_D	0.525	0.32
72_E	269_K	0.524	0.32
142_P	149_D	0.522	0.32
233_C	262_A	0.521	0.32
268_I	277_P	0.521	0.32
9_I	18_G	0.520	0.32
133_G	196_D	0.519	0.32
7_F	102_C	0.518	0.32
119_L	304_A	0.517	0.31
282_I	292_K	0.517	0.31
132_L	140_F	0.517	0.31
184_R	207_E	0.516	0.31
15_F	116_N	0.514	0.31
9_I	198_I	0.514	0.31
28_G	32_P	0.513	0.31
274_S	306_S	0.512	0.31
302_F	308_G	0.512	0.31
103_R	120_L	0.511	0.31
13_P	273_V	0.510	0.31
199_R	235_R	0.510	0.31
3_L	114_T	0.510	0.31
108_N	246_V	0.507	0.31
267_K	292_K	0.507	0.31
228_D	302_F	0.507	0.31
200_E	205_K	0.503	0.30
281_A	288_R	0.503	0.30
100_A	280_Q	0.502	0.30
21_F	53_L	0.500	0.30

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
3wctD	1	0.3387	40.3	0.964	Contact Map
3i5tA	2	0.3645	39.8	0.964	Contact Map
1x9fA	1	0.3355	31.5	0.966	Contact Map
1qgpA	1	0.2097	29.5	0.967	Contact Map
2epjA	2	0.3419	28.3	0.967	Contact Map
2zs0C	1	0.3323	26.1	0.968	Contact Map
1x9fC	1	0.4032	21.8	0.969	Contact Map
3ruyA	2	0.3387	20.5	0.969	Contact Map
3i4jA	2	0.3097	19.8	0.969	Contact Map
2eo5A	3	0.3548	18.9	0.97	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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