DUF2333 - PFAM28P - GREMLIN Contacts

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DUF2333 - Uncharacterized protein conserved in bacteria (DUF2333)

PFAM:	PF10095	Sequences: WKEKGLLWTIGALLAVYLLVLLVLGWYWSREPDLFDVRENAQARAAADGQKLVTGYTTTATLIRVAETLLDKPGGYLSNDVLPPGVWLDNMPNWEFGVLVQVRDLARALRNDFSRSQSQSTEDPDLAIAEPQFNFDNDSWILPSTESEYRKGIEALERYLARLSDPDQPDAQFYARADNLREWLADVEKRLGSLSQRLSASVGQRRLNTDLAGDPAARQSTPTPSEVEVKTPWLEIDDVFYEARGTAWALLHFLKAIEVDFADVLEKKNALVSLRQIIRELEATQEPVWSPMILNGSGFGLFANHSLVMASYISRANAAIIDLRELLSQG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	330 (321)
Sequences:	1465 (943)
Seq/√Len:	52.7
META:	0.797

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
123_D	162_R	5.739	1.00
93_N	238_D	5.581	1.00
71_D	150_R	3.911	1.00
105_L	253_F	3.899	1.00
288_V	293_I	3.787	1.00
66_A	153_I	3.688	1.00
65_V	253_F	3.570	1.00
133_F	152_G	3.527	1.00
135_F	145_T	3.332	1.00
29_S	88_L	2.956	1.00
132_Q	151_K	2.933	1.00
67_E	71_D	2.832	1.00
125_D	158_R	2.806	1.00
66_A	133_F	2.784	1.00
67_E	157_E	2.771	1.00
17_Y	21_L	2.663	1.00
111_N	186_D	2.644	1.00
125_D	162_R	2.521	1.00
258_E	275_R	2.505	1.00
45_A	56_Y	2.456	1.00
77_L	92_P	2.368	1.00
66_A	102_V	2.351	1.00
148_E	151_K	2.200	1.00
150_R	154_E	2.198	1.00
101_Q	246_T	2.183	1.00
107_R	130_E	2.170	1.00
144_S	147_S	2.166	1.00
262_A	266_E	2.161	1.00
96_F	100_V	2.129	1.00
128_I	155_A	2.042	1.00
62_L	102_V	2.019	1.00
76_Y	145_T	1.999	1.00
40_N	64_R	1.991	1.00
58_T	105_L	1.984	1.00
77_L	85_G	1.950	1.00
23_V	27_Y	1.945	1.00
60_A	160_L	1.944	1.00
102_V	133_F	1.900	0.99
78_S	137_N	1.897	0.99
155_A	158_R	1.871	0.99
128_I	132_Q	1.858	0.99
62_L	105_L	1.849	0.99
67_E	153_I	1.839	0.99
57_T	259_V	1.835	0.99
25_G	88_L	1.823	0.99
35_F	252_H	1.807	0.99
186_D	189_K	1.804	0.99
99_L	137_N	1.795	0.99
111_N	189_K	1.772	0.99
54_T	175_A	1.767	0.99
266_E	271_L	1.755	0.99
21_L	87_W	1.745	0.99
30_R	73_P	1.698	0.99
63_I	157_E	1.697	0.99
65_V	102_V	1.683	0.99
132_Q	152_G	1.677	0.99
132_Q	148_E	1.652	0.98
28_W	85_G	1.642	0.98
141_I	144_S	1.617	0.98
247_A	313_I	1.612	0.98
17_Y	82_L	1.598	0.98
135_F	148_E	1.595	0.98
305_H	308_V	1.591	0.98
255_K	282_E	1.590	0.98
59_T	63_I	1.588	0.98
107_R	112_D	1.556	0.98
12_A	16_V	1.552	0.98
214_D	217_A	1.546	0.98
101_Q	183_W	1.536	0.97
206_R	210_D	1.497	0.97
135_F	139_S	1.489	0.97
27_Y	73_P	1.481	0.97
132_Q	155_A	1.459	0.97
130_E	134_N	1.458	0.97
111_N	182_E	1.454	0.96
18_L	87_W	1.453	0.96
131_P	134_N	1.443	0.96
113_F	257_I	1.443	0.96
125_D	155_A	1.427	0.96
219_Q	223_T	1.411	0.96
205_R	226_E	1.402	0.96
207_L	272_V	1.397	0.96
187_V	250_L	1.380	0.95
215_P	267_K	1.378	0.95
258_E	271_L	1.375	0.95
262_A	271_L	1.374	0.95
61_T	65_V	1.372	0.95
64_R	67_E	1.363	0.95
62_L	106_A	1.352	0.95
183_W	253_F	1.331	0.94
271_L	275_R	1.331	0.94
254_L	274_L	1.325	0.94
107_R	135_F	1.320	0.94
29_S	91_M	1.313	0.94
100_V	130_E	1.293	0.93
26_W	30_R	1.280	0.93
185_A	188_E	1.278	0.93
206_R	229_V	1.275	0.93
35_F	61_T	1.269	0.93
82_L	85_G	1.269	0.93
182_E	186_D	1.266	0.93
325_E	328_S	1.246	0.92
36_D	39_E	1.237	0.92
206_R	209_T	1.223	0.91
211_L	221_T	1.223	0.91
211_L	217_A	1.222	0.91
24_L	28_W	1.217	0.91
213_G	221_T	1.200	0.90
17_Y	85_G	1.195	0.90
59_T	156_L	1.185	0.90
57_T	61_T	1.179	0.90
139_S	148_E	1.176	0.89
107_R	134_N	1.171	0.89
235_E	238_D	1.160	0.89
121_T	193_S	1.159	0.89
107_R	186_D	1.158	0.89
292_M	302_F	1.157	0.89
38_R	259_V	1.156	0.89
98_V	246_T	1.156	0.89
41_A	52_L	1.156	0.89
212_A	217_A	1.155	0.89
153_I	157_E	1.150	0.88
59_T	109_L	1.146	0.88
264_V	267_K	1.131	0.88
68_T	248_W	1.131	0.88
29_S	73_P	1.129	0.87
34_L	251_L	1.121	0.87
45_A	52_L	1.107	0.86
56_Y	160_L	1.104	0.86
41_A	45_A	1.098	0.86
54_T	218_R	1.097	0.86
112_D	182_E	1.089	0.85
162_R	171_A	1.081	0.85
31_E	241_Y	1.073	0.85
102_V	152_G	1.073	0.85
130_E	135_F	1.071	0.84
210_D	229_V	1.065	0.84
102_V	106_A	1.061	0.84
25_G	29_S	1.059	0.84
22_L	26_W	1.057	0.84
112_D	189_K	1.056	0.84
325_E	329_Q	1.056	0.84
217_A	220_S	1.051	0.83
216_A	267_K	1.045	0.83
65_V	105_L	1.043	0.83
93_N	235_E	1.036	0.82
213_G	217_A	1.035	0.82
61_T	64_R	1.033	0.82
117_Q	273_S	1.028	0.82
21_L	24_L	1.020	0.81
319_A	322_D	1.018	0.81
30_R	33_D	1.007	0.81
18_L	21_L	1.003	0.80
241_Y	288_V	1.000	0.80
101_Q	253_F	0.997	0.80
112_D	186_D	0.996	0.80
139_S	145_T	0.990	0.79
63_I	153_I	0.987	0.79
21_L	85_G	0.986	0.79
115_R	178_D	0.977	0.79
157_E	161_A	0.973	0.78
39_E	42_Q	0.967	0.78
36_D	41_A	0.967	0.78
196_Q	200_A	0.963	0.78
63_I	67_E	0.962	0.78
56_Y	60_A	0.960	0.77
42_Q	48_D	0.956	0.77
99_L	145_T	0.956	0.77
252_H	255_K	0.952	0.77
58_T	260_D	0.952	0.77
213_G	219_Q	0.949	0.77
172_Q	219_Q	0.947	0.76
183_W	257_I	0.943	0.76
197_R	242_E	0.941	0.76
25_G	28_W	0.941	0.76
183_W	246_T	0.940	0.76
39_E	43_A	0.939	0.76
44_R	64_R	0.938	0.76
150_R	153_I	0.937	0.76
151_K	154_E	0.935	0.75
41_A	57_T	0.931	0.75
66_A	69_L	0.929	0.75
172_Q	213_G	0.924	0.75
201_S	314_S	0.920	0.74
68_T	94_W	0.914	0.74
35_F	64_R	0.912	0.74
166_P	169_P	0.912	0.74
188_E	324_R	0.910	0.73
141_I	147_S	0.907	0.73
172_Q	221_T	0.902	0.73
66_A	152_G	0.896	0.72
65_V	98_V	0.879	0.71
257_I	274_L	0.871	0.70
298_G	310_A	0.868	0.70
132_Q	139_S	0.865	0.70
326_L	330_G	0.861	0.69
205_R	228_E	0.859	0.69
130_E	186_D	0.858	0.69
137_N	145_T	0.855	0.69
208_N	211_L	0.855	0.69
100_V	111_N	0.852	0.68
211_L	219_Q	0.850	0.68
327_L	330_G	0.843	0.68
121_T	197_R	0.840	0.67
213_G	220_S	0.829	0.66
182_E	189_K	0.828	0.66
76_Y	137_N	0.821	0.66
109_L	156_L	0.812	0.65
272_V	275_R	0.811	0.65
52_L	57_T	0.811	0.65
254_L	257_I	0.809	0.64
45_A	51_K	0.806	0.64
217_A	221_T	0.804	0.64
42_Q	51_K	0.804	0.64
160_L	164_S	0.803	0.64
122_E	127_A	0.803	0.64
182_E	185_A	0.802	0.64
218_R	263_D	0.794	0.63
176_R	192_G	0.794	0.63
209_T	219_Q	0.791	0.63
107_R	145_T	0.791	0.63
48_D	56_Y	0.790	0.63
17_Y	20_V	0.788	0.62
11_G	19_L	0.786	0.62
56_Y	112_D	0.785	0.62
26_W	31_E	0.781	0.62
45_A	49_G	0.779	0.61
21_L	25_G	0.779	0.61
100_V	246_T	0.777	0.61
181_R	328_S	0.777	0.61
167_D	170_D	0.776	0.61
233_W	236_I	0.775	0.61
125_D	171_A	0.775	0.61
108_A	186_D	0.771	0.61
98_V	247_A	0.770	0.61
65_V	248_W	0.769	0.60
318_A	321_I	0.768	0.60
37_V	41_A	0.767	0.60
100_V	107_R	0.765	0.60
138_D	145_T	0.763	0.60
208_N	227_V	0.763	0.60
209_T	213_G	0.762	0.60
106_A	156_L	0.761	0.60
104_D	190_R	0.760	0.60
234_L	238_D	0.759	0.59
141_I	148_E	0.753	0.59
211_L	220_S	0.747	0.58
101_Q	105_L	0.747	0.58
284_T	299_F	0.746	0.58
14_L	18_L	0.742	0.58
81_V	85_G	0.742	0.58
44_R	60_A	0.740	0.58
42_Q	52_L	0.739	0.57
283_A	287_P	0.737	0.57
204_Q	283_A	0.732	0.57
40_N	43_A	0.731	0.57
133_F	153_I	0.731	0.57
246_T	253_F	0.731	0.57
187_V	320_I	0.730	0.56
118_S	130_E	0.730	0.56
157_E	160_L	0.728	0.56
101_Q	123_D	0.727	0.56
12_A	19_L	0.726	0.56
165_D	222_P	0.725	0.56
107_R	185_A	0.723	0.56
203_G	230_K	0.723	0.56
134_N	145_T	0.716	0.55
188_E	298_G	0.707	0.54
289_W	302_F	0.707	0.54
218_R	223_T	0.706	0.54
40_N	60_A	0.706	0.54
284_T	309_M	0.704	0.54
94_W	98_V	0.704	0.54
93_N	234_L	0.703	0.54
30_R	91_M	0.702	0.54
44_R	157_E	0.701	0.53
189_K	320_I	0.700	0.53
133_F	156_L	0.697	0.53
13_L	17_Y	0.696	0.53
307_L	310_A	0.693	0.53
178_D	192_G	0.693	0.53
10_I	13_L	0.693	0.53
297_S	302_F	0.692	0.53
72_K	75_G	0.689	0.52
48_D	51_K	0.689	0.52
132_Q	135_F	0.686	0.52
276_Q	279_R	0.686	0.52
264_V	269_N	0.684	0.52
317_N	321_I	0.683	0.52
208_N	213_G	0.682	0.51
37_V	61_T	0.681	0.51
172_Q	220_S	0.679	0.51
183_W	267_K	0.679	0.51
232_P	235_E	0.674	0.51
278_I	282_E	0.673	0.51
86_V	167_D	0.672	0.50
234_L	243_A	0.669	0.50
22_L	25_G	0.668	0.50
23_V	26_W	0.668	0.50
246_T	320_I	0.666	0.50
34_L	252_H	0.664	0.50
106_A	133_F	0.663	0.49
128_I	158_R	0.661	0.49
114_S	311_S	0.660	0.49
102_V	253_F	0.659	0.49
308_V	325_E	0.659	0.49
100_V	118_S	0.658	0.49
203_G	272_V	0.656	0.49
28_W	73_P	0.656	0.49
38_R	42_Q	0.654	0.49
111_N	132_Q	0.653	0.48
40_N	44_R	0.653	0.48
127_A	137_N	0.651	0.48
193_S	197_R	0.651	0.48
195_S	241_Y	0.651	0.48
115_R	179_N	0.651	0.48
54_T	142_L	0.651	0.48
25_G	30_R	0.650	0.48
78_S	96_F	0.649	0.48
117_Q	322_D	0.642	0.47
121_T	124_P	0.639	0.47
36_D	57_T	0.639	0.47
111_N	144_S	0.637	0.47
109_L	186_D	0.637	0.47
310_A	314_S	0.635	0.47
49_G	52_L	0.635	0.47
11_G	16_V	0.633	0.46
309_M	318_A	0.631	0.46
239_V	243_A	0.631	0.46
11_G	18_L	0.629	0.46
47_A	52_L	0.629	0.46
116_S	175_A	0.629	0.46
200_A	206_R	0.629	0.46
18_L	23_V	0.628	0.46
81_V	141_I	0.625	0.45
131_P	186_D	0.622	0.45
36_D	255_K	0.621	0.45
70_L	150_R	0.621	0.45
35_F	41_A	0.620	0.45
46_A	56_Y	0.619	0.45
59_T	62_L	0.618	0.45
115_R	192_G	0.617	0.45
193_S	241_Y	0.615	0.44
211_L	214_D	0.615	0.44
17_Y	24_L	0.612	0.44
82_L	86_V	0.611	0.44
63_I	160_L	0.610	0.44
57_T	60_A	0.609	0.44
204_Q	210_D	0.608	0.44
62_L	65_V	0.607	0.44
285_Q	299_F	0.607	0.44
207_L	275_R	0.606	0.44
131_P	135_F	0.605	0.43
131_P	246_T	0.605	0.43
117_Q	178_D	0.604	0.43
251_L	284_T	0.604	0.43
307_L	315_R	0.604	0.43
128_I	131_P	0.604	0.43
131_P	137_N	0.602	0.43
210_D	227_V	0.601	0.43
105_L	183_W	0.599	0.43
273_S	279_R	0.599	0.43
263_D	267_K	0.598	0.43
37_V	57_T	0.598	0.43
109_L	113_F	0.598	0.43
321_I	326_L	0.597	0.43
12_A	154_E	0.596	0.42
80_D	146_E	0.594	0.42
127_A	145_T	0.593	0.42
27_Y	88_L	0.591	0.42
151_K	155_A	0.591	0.42
23_V	30_R	0.591	0.42
91_M	294_L	0.588	0.42
313_I	318_A	0.586	0.41
12_A	86_V	0.584	0.41
101_Q	162_R	0.582	0.41
117_Q	120_S	0.579	0.41
186_D	246_T	0.579	0.41
169_P	221_T	0.578	0.41
44_R	160_L	0.578	0.41
38_R	161_A	0.576	0.40
313_I	322_D	0.576	0.40
33_D	287_P	0.573	0.40
165_D	168_Q	0.570	0.40
151_K	286_E	0.570	0.40
100_V	186_D	0.569	0.40
59_T	160_L	0.568	0.40
259_V	271_L	0.567	0.40
161_A	225_S	0.567	0.40
176_R	179_N	0.564	0.39
61_T	253_F	0.563	0.39
209_T	221_T	0.562	0.39
105_L	144_S	0.561	0.39
64_R	218_R	0.561	0.39
234_L	293_I	0.561	0.39
119_Q	248_W	0.558	0.39
59_T	159_Y	0.558	0.39
204_Q	207_L	0.557	0.39
206_R	297_S	0.557	0.39
40_N	160_L	0.556	0.38
46_A	49_G	0.556	0.38
112_D	155_A	0.556	0.38
38_R	43_A	0.555	0.38
207_L	226_E	0.553	0.38
113_F	289_W	0.551	0.38
283_A	286_E	0.551	0.38
234_L	292_M	0.550	0.38
149_Y	260_D	0.550	0.38
235_E	239_V	0.549	0.38
62_L	253_F	0.549	0.38
194_L	246_T	0.548	0.38
100_V	127_A	0.547	0.38
182_E	257_I	0.547	0.38
134_N	156_L	0.547	0.38
195_S	314_S	0.546	0.37
52_L	56_Y	0.546	0.37
26_W	73_P	0.545	0.37
168_Q	224_P	0.545	0.37
41_A	60_A	0.545	0.37
128_I	151_K	0.545	0.37
14_L	44_R	0.544	0.37
46_A	51_K	0.544	0.37
61_T	98_V	0.543	0.37
205_R	224_P	0.542	0.37
138_D	235_E	0.542	0.37
116_S	201_S	0.542	0.37
255_K	278_I	0.541	0.37
25_G	130_E	0.541	0.37
52_L	235_E	0.538	0.37
188_E	325_E	0.538	0.37
13_L	16_V	0.537	0.37
110_R	179_N	0.536	0.36
129_A	156_L	0.536	0.36
112_D	289_W	0.536	0.36
43_A	49_G	0.535	0.36
158_R	170_D	0.534	0.36
263_D	266_E	0.532	0.36
179_N	192_G	0.531	0.36
27_Y	50_Q	0.530	0.36
46_A	52_L	0.529	0.36
16_V	303_A	0.528	0.36
164_S	251_L	0.528	0.36
154_E	157_E	0.527	0.36
115_R	119_Q	0.527	0.36
42_Q	47_A	0.526	0.35
135_F	144_S	0.526	0.35
94_W	252_H	0.525	0.35
134_N	186_D	0.525	0.35
114_S	126_L	0.524	0.35
35_F	57_T	0.523	0.35
224_P	227_V	0.523	0.35
209_T	227_V	0.522	0.35
175_A	216_A	0.522	0.35
140_W	233_W	0.521	0.35
154_E	274_L	0.521	0.35
56_Y	188_E	0.520	0.35
323_L	330_G	0.519	0.35
50_Q	161_A	0.518	0.35
303_A	308_V	0.518	0.35
124_P	166_P	0.517	0.35
34_L	255_K	0.517	0.35
226_E	293_I	0.514	0.34
100_V	135_F	0.513	0.34
51_K	96_F	0.511	0.34
78_S	145_T	0.511	0.34
23_V	263_D	0.510	0.34
42_Q	45_A	0.510	0.34
254_L	320_I	0.510	0.34
206_R	220_S	0.507	0.34
11_G	15_A	0.507	0.34
284_T	287_P	0.507	0.34
106_A	152_G	0.506	0.34
25_G	85_G	0.506	0.34
13_L	22_L	0.504	0.33
236_I	324_R	0.504	0.33
209_T	212_A	0.504	0.33
108_A	113_F	0.503	0.33
56_Y	247_A	0.502	0.33
147_S	266_E	0.501	0.33
112_D	134_N	0.501	0.33
72_K	95_E	0.500	0.33
37_V	259_V	0.500	0.33

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
4j2cA	1	0.2818	61.3	0.97	Contact Map
2vhjA	3	0.2394	25.7	0.976	Contact Map
4dndA	1	0.2606	22.8	0.977	Contact Map
2rt6A	1	0.197	11.8	0.979	Contact Map
3nw0A	1	0.1939	10.1	0.98	Contact Map
4a5xA	1	0.1848	8.1	0.981	Contact Map
5a2fA	1	0	7.7	0.981	Contact Map
3ls0A	1	0.3091	6.9	0.982	Contact Map
1h7bA	2	0.1727	6.4	0.982	Contact Map
3zvlA	1	0.2909	6.4	0.982	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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