DUF2330 - PFAM28P - GREMLIN Contacts

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DUF2330 - Uncharacterized protein conserved in bacteria (DUF2330)

PFAM:	PF10092	Sequences: PPAAAFCGFYVAKADAKLFNKASQVVLVRDGDRTVLTMQNDYQGDPKDFAMVVPVPTVEQIHVGDRALFDHLDAYSAPRLVEYFDQDPCARRMYEAGAMGAAAAAAAGAAAAAGAAALGVTVEAQYTVGEYDILILSAKESDGLETWLRENGYRIPAGAEPVLGPYIKQGMKFFVAKVNLKEQAKLGFAYLRPLQVAYESPKFMLPIRLGMVNADGPQDLIVYALTRKRVETTNYRTVKLPTNLDVPDFVKDEFGDFYKALFDRAVEEGGRAVFTEYAWDMSWCDPCAADPLSPEELRTLGVFWLDGDDALPAQGLDPRRRAPPGGAQNVFLTRLHVRYDAEHFPEDLVFQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	351 (345)
Sequences:	2967 (2219)
Seq/√Len:	119.5
META:	0.943

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
122_V	134_L	5.189	1.00
118_L	146_T	5.065	1.00
264_R	267_E	4.398	1.00
145_E	160_E	4.385	1.00
76_S	332_L	4.111	1.00
253_E	256_D	3.989	1.00
118_L	150_E	3.942	1.00
58_V	172_K	3.889	1.00
24_Q	223_Y	3.722	1.00
30_D	227_R	3.464	1.00
340_D	343_H	3.422	1.00
146_T	150_E	3.226	1.00
214_A	217_P	2.935	1.00
125_Q	134_L	2.859	1.00
164_G	168_K	2.755	1.00
43_Q	215_D	2.731	1.00
76_S	223_Y	2.705	1.00
232_T	237_T	2.649	1.00
182_E	185_K	2.603	1.00
248_D	251_K	2.572	1.00
217_P	340_D	2.561	1.00
62_H	197_A	2.409	1.00
278_A	331_F	2.400	1.00
70_D	74_A	2.391	1.00
35_V	197_A	2.330	1.00
163_L	167_I	2.301	1.00
30_D	33_R	2.290	1.00
104_A	107_A	2.288	1.00
127_T	182_E	2.246	1.00
26_V	69_F	2.213	1.00
61_I	126_Y	2.186	1.00
119_G	143_G	2.101	1.00
145_E	149_R	2.072	1.00
123_E	137_S	2.067	1.00
103_A	106_A	2.048	1.00
207_I	344_F	1.989	1.00
283_W	288_A	1.949	1.00
246_V	250_V	1.935	1.00
232_T	273_V	1.898	1.00
260_A	263_D	1.880	1.00
26_V	72_L	1.855	1.00
42_Y	46_P	1.855	1.00
256_D	259_K	1.842	1.00
64_G	197_A	1.807	1.00
91_R	94_Y	1.799	1.00
295_E	299_T	1.799	1.00
257_F	261_L	1.771	1.00
39_Q	69_F	1.766	1.00
114_G	117_A	1.735	1.00
33_R	197_A	1.725	1.00
63_V	194_L	1.725	1.00
266_V	270_G	1.724	1.00
20_N	23_S	1.721	1.00
27_L	224_A	1.703	1.00
90_A	93_M	1.664	1.00
226_T	230_V	1.660	1.00
33_R	199_E	1.660	1.00
162_V	165_P	1.649	1.00
145_E	155_I	1.632	1.00
6_F	9_F	1.625	1.00
238_V	272_A	1.615	1.00
138_A	144_L	1.609	1.00
36_L	198_Y	1.607	1.00
21_K	215_D	1.606	1.00
169_Q	208_R	1.582	1.00
46_P	183_Q	1.563	1.00
224_A	230_V	1.546	1.00
21_K	43_Q	1.541	1.00
100_G	103_A	1.537	1.00
162_V	212_V	1.525	1.00
61_I	124_A	1.523	1.00
110_A	113_A	1.495	1.00
123_E	172_K	1.489	1.00
91_R	95_E	1.484	1.00
66_R	70_D	1.480	1.00
130_E	192_R	1.477	1.00
126_Y	133_I	1.463	1.00
232_T	275_T	1.460	1.00
142_D	146_T	1.460	1.00
255_G	259_K	1.457	1.00
57_T	172_K	1.457	1.00
24_Q	66_R	1.451	1.00
118_L	143_G	1.445	1.00
222_V	350_F	1.439	1.00
284_C	287_C	1.426	1.00
98_A	101_A	1.424	1.00
105_A	109_A	1.416	1.00
122_V	125_Q	1.413	1.00
267_E	270_G	1.413	1.00
45_D	48_D	1.397	1.00
176_A	194_L	1.386	1.00
245_D	248_D	1.384	1.00
42_Y	51_M	1.369	1.00
165_P	211_M	1.349	1.00
229_R	275_T	1.348	1.00
259_K	263_D	1.343	1.00
67_A	70_D	1.331	1.00
127_T	132_D	1.331	1.00
149_R	160_E	1.326	1.00
39_Q	66_R	1.325	1.00
127_T	179_N	1.316	1.00
37_T	69_F	1.308	1.00
92_R	95_E	1.307	1.00
231_E	237_T	1.291	1.00
214_A	218_Q	1.273	1.00
145_E	163_L	1.249	0.99
65_D	299_T	1.247	0.99
64_G	195_Q	1.242	0.99
294_P	298_R	1.230	0.99
240_L	265_A	1.225	0.99
57_T	171_M	1.219	0.99
214_A	340_D	1.217	0.99
92_R	96_A	1.216	0.99
237_T	275_T	1.212	0.99
97_G	100_G	1.209	0.99
337_V	344_F	1.209	0.99
262_F	274_F	1.208	0.99
133_I	194_L	1.203	0.99
94_Y	97_G	1.200	0.99
302_V	330_V	1.186	0.99
337_V	343_H	1.183	0.99
147_W	151_N	1.155	0.99
347_D	350_F	1.152	0.99
121_T	139_K	1.145	0.99
147_W	175_V	1.140	0.99
24_Q	190_Y	1.136	0.99
63_V	192_R	1.132	0.99
165_P	169_Q	1.124	0.99
94_Y	98_A	1.120	0.99
92_R	98_A	1.114	0.99
293_S	296_E	1.111	0.99
106_A	109_A	1.109	0.99
53_V	196_V	1.108	0.99
114_G	150_E	1.106	0.99
308_D	311_L	1.102	0.99
320_R	323_P	1.095	0.99
96_A	99_M	1.093	0.99
97_G	101_A	1.089	0.98
217_P	263_D	1.088	0.98
232_T	348_L	1.087	0.98
228_K	329_N	1.086	0.98
217_P	270_G	1.079	0.98
321_R	324_P	1.073	0.98
240_L	261_L	1.069	0.98
265_A	274_F	1.064	0.98
124_A	135_I	1.062	0.98
11_V	15_D	1.060	0.98
93_M	97_G	1.055	0.98
138_A	143_G	1.044	0.98
233_T	351_Q	1.033	0.98
52_V	55_V	1.032	0.98
240_L	243_N	1.031	0.98
25_V	205_L	1.025	0.98
266_V	274_F	1.019	0.98
98_A	103_A	1.018	0.98
102_A	105_A	1.017	0.98
340_D	344_F	1.014	0.98
268_E	272_A	1.011	0.98
24_Q	76_S	1.010	0.97
149_R	155_I	1.006	0.97
249_F	253_E	1.003	0.97
281_M	292_L	0.995	0.97
183_Q	186_L	0.994	0.97
28_V	302_V	0.993	0.97
280_D	329_N	0.992	0.97
112_A	115_A	0.991	0.97
105_A	108_G	0.990	0.97
55_V	174_F	0.990	0.97
268_E	274_F	0.989	0.97
298_R	302_V	0.988	0.97
99_M	102_A	0.985	0.97
17_K	70_D	0.982	0.97
17_K	21_K	0.974	0.97
155_I	212_V	0.966	0.97
18_L	23_S	0.964	0.97
103_A	107_A	0.963	0.97
108_G	111_A	0.951	0.96
13_K	16_A	0.949	0.96
90_A	94_Y	0.947	0.96
231_E	351_Q	0.946	0.96
61_I	128_V	0.937	0.96
98_A	102_A	0.936	0.96
248_D	252_D	0.935	0.96
167_I	173_F	0.929	0.96
95_E	105_A	0.924	0.96
95_E	101_A	0.922	0.96
107_A	110_A	0.921	0.96
302_V	305_L	0.920	0.96
171_M	202_K	0.908	0.95
292_L	296_E	0.904	0.95
100_G	110_A	0.904	0.95
104_A	114_G	0.903	0.95
269_G	272_A	0.899	0.95
273_V	348_L	0.899	0.95
101_A	105_A	0.899	0.95
322_A	325_G	0.895	0.95
310_A	314_Q	0.891	0.95
263_D	270_G	0.890	0.95
32_D	199_E	0.889	0.95
35_V	62_H	0.888	0.95
156_P	159_A	0.883	0.95
183_Q	188_F	0.882	0.95
44_G	49_F	0.881	0.94
73_D	77_A	0.880	0.94
113_A	117_A	0.879	0.94
6_F	10_Y	0.871	0.94
236_R	268_E	0.868	0.94
97_G	110_A	0.865	0.94
219_D	259_K	0.859	0.94
294_P	306_D	0.854	0.94
96_A	101_A	0.854	0.94
40_N	69_F	0.850	0.93
21_K	170_G	0.849	0.93
6_F	11_V	0.847	0.93
26_V	300_L	0.838	0.93
76_S	211_M	0.837	0.93
93_M	96_A	0.836	0.93
134_L	175_V	0.835	0.93
95_E	99_M	0.835	0.93
281_M	330_V	0.834	0.93
151_N	177_K	0.830	0.93
24_Q	39_Q	0.827	0.92
48_D	154_R	0.827	0.92
241_P	257_F	0.827	0.92
263_D	267_E	0.823	0.92
219_D	337_V	0.822	0.92
283_W	292_L	0.821	0.92
248_D	270_G	0.816	0.92
227_R	329_N	0.810	0.92
66_R	69_F	0.810	0.92
149_R	154_R	0.809	0.92
28_V	225_L	0.806	0.91
135_I	174_F	0.802	0.91
93_M	99_M	0.801	0.91
93_M	98_A	0.800	0.91
309_D	313_A	0.799	0.91
58_V	124_A	0.798	0.91
100_G	111_A	0.795	0.91
238_V	268_E	0.795	0.91
23_S	210_G	0.788	0.90
127_T	185_K	0.787	0.90
63_V	128_V	0.787	0.90
171_M	204_M	0.786	0.90
69_F	165_P	0.786	0.90
243_N	261_L	0.782	0.90
298_R	303_F	0.775	0.90
337_V	348_L	0.766	0.89
139_K	143_G	0.765	0.89
21_K	41_D	0.765	0.89
210_G	218_Q	0.763	0.89
307_G	310_A	0.762	0.89
13_K	19_F	0.759	0.89
99_M	103_A	0.758	0.89
100_G	108_G	0.757	0.89
12_A	19_F	0.757	0.89
160_E	164_G	0.756	0.89
99_M	105_A	0.755	0.89
20_N	25_V	0.755	0.89
291_P	296_E	0.752	0.88
182_E	186_L	0.750	0.88
99_M	112_A	0.750	0.88
38_M	196_V	0.748	0.88
283_W	291_P	0.747	0.88
91_R	97_G	0.745	0.88
197_A	303_F	0.741	0.88
3_A	6_F	0.740	0.88
297_L	302_V	0.739	0.87
20_N	210_G	0.738	0.87
111_A	114_G	0.736	0.87
185_K	188_F	0.730	0.87
290_D	327_A	0.729	0.87
112_A	116_A	0.728	0.87
140_E	143_G	0.727	0.87
12_A	15_D	0.726	0.87
302_V	306_D	0.725	0.86
289_A	327_A	0.725	0.86
69_F	332_L	0.724	0.86
323_P	327_A	0.723	0.86
294_P	327_A	0.721	0.86
319_R	322_A	0.720	0.86
170_G	201_P	0.719	0.86
96_A	104_A	0.718	0.86
96_A	103_A	0.718	0.86
311_L	314_Q	0.717	0.86
344_F	348_L	0.717	0.86
263_D	338_R	0.715	0.86
246_V	249_F	0.715	0.86
189_A	240_L	0.706	0.85
325_G	329_N	0.703	0.85
281_M	288_A	0.703	0.85
225_L	280_D	0.703	0.85
238_V	274_F	0.703	0.85
40_N	207_I	0.701	0.85
41_D	188_F	0.701	0.85
71_H	293_S	0.699	0.84
11_V	14_A	0.699	0.84
112_A	117_A	0.699	0.84
160_E	199_E	0.696	0.84
98_A	108_G	0.695	0.84
109_A	112_A	0.694	0.84
309_D	312_P	0.693	0.84
51_M	257_F	0.692	0.84
310_A	313_A	0.691	0.84
253_E	261_L	0.690	0.84
282_S	328_Q	0.689	0.84
104_A	113_A	0.686	0.83
155_I	158_G	0.684	0.83
36_L	53_V	0.683	0.83
134_L	147_W	0.681	0.83
93_M	109_A	0.679	0.83
32_D	201_P	0.678	0.83
326_G	329_N	0.678	0.83
102_A	106_A	0.677	0.82
324_P	327_A	0.675	0.82
108_G	112_A	0.675	0.82
51_M	194_L	0.674	0.82
345_P	351_Q	0.672	0.82
164_G	212_V	0.671	0.82
225_L	330_V	0.671	0.82
57_T	199_E	0.671	0.82
260_A	264_R	0.670	0.82
342_E	349_V	0.668	0.82
96_A	106_A	0.668	0.82
107_A	113_A	0.666	0.81
97_G	105_A	0.665	0.81
269_G	333_T	0.665	0.81
280_D	283_W	0.665	0.81
127_T	196_V	0.664	0.81
92_R	100_G	0.662	0.81
36_L	40_N	0.662	0.81
22_A	25_V	0.662	0.81
84_F	248_D	0.661	0.81
71_H	296_E	0.660	0.81
132_D	182_E	0.658	0.81
83_Y	87_D	0.656	0.80
96_A	100_G	0.655	0.80
100_G	104_A	0.653	0.80
53_V	209_L	0.650	0.80
92_R	112_A	0.649	0.80
145_E	164_G	0.648	0.80
181_K	185_K	0.648	0.80
93_M	101_A	0.647	0.80
131_Y	193_P	0.645	0.79
138_A	173_F	0.642	0.79
107_A	112_A	0.641	0.79
22_A	219_D	0.640	0.79
144_L	173_F	0.640	0.79
158_G	212_V	0.639	0.79
283_W	290_D	0.639	0.79
322_A	326_G	0.639	0.79
119_G	146_T	0.637	0.78
294_P	328_Q	0.635	0.78
91_R	110_A	0.634	0.78
52_V	208_R	0.633	0.78
82_E	85_D	0.631	0.78
64_G	182_E	0.630	0.78
38_M	56_P	0.630	0.78
97_G	103_A	0.630	0.78
138_A	141_S	0.628	0.78
83_Y	285_D	0.628	0.78
60_Q	197_A	0.626	0.77
210_G	213_N	0.625	0.77
10_Y	36_L	0.623	0.77
27_L	36_L	0.622	0.77
322_A	329_N	0.622	0.77
297_L	300_L	0.622	0.77
86_Q	92_R	0.620	0.77
319_R	327_A	0.620	0.77
66_R	223_Y	0.615	0.76
132_D	179_N	0.614	0.76
346_E	349_V	0.613	0.76
99_M	106_A	0.613	0.76
101_A	104_A	0.612	0.76
144_L	163_L	0.612	0.76
111_A	115_A	0.610	0.75
298_R	308_D	0.609	0.75
102_A	114_G	0.609	0.75
95_E	98_A	0.608	0.75
290_D	293_S	0.606	0.75
56_P	198_Y	0.604	0.75
275_T	333_T	0.604	0.75
136_L	144_L	0.602	0.75
23_S	37_T	0.602	0.75
56_P	200_S	0.602	0.75
319_R	323_P	0.601	0.74
219_D	338_R	0.600	0.74
98_A	105_A	0.600	0.74
99_M	107_A	0.599	0.74
102_A	107_A	0.598	0.74
26_V	225_L	0.598	0.74
107_A	111_A	0.594	0.74
68_L	71_H	0.592	0.73
91_R	109_A	0.592	0.73
71_H	288_A	0.592	0.73
96_A	112_A	0.592	0.73
127_T	181_K	0.592	0.73
295_E	311_L	0.591	0.73
343_H	346_E	0.591	0.73
162_V	278_A	0.590	0.73
118_L	151_N	0.590	0.73
329_N	342_E	0.590	0.73
139_K	142_D	0.589	0.73
106_A	110_A	0.589	0.73
207_I	212_V	0.588	0.73
252_D	256_D	0.588	0.73
71_H	289_A	0.586	0.73
284_C	288_A	0.586	0.73
91_R	96_A	0.585	0.72
30_D	42_Y	0.583	0.72
95_E	117_A	0.582	0.72
96_A	113_A	0.581	0.72
94_Y	99_M	0.581	0.72
61_I	176_A	0.579	0.72
21_K	201_P	0.579	0.72
63_V	133_I	0.579	0.72
290_D	296_E	0.576	0.71
17_K	20_N	0.575	0.71
190_Y	253_E	0.575	0.71
47_K	51_M	0.574	0.71
97_G	107_A	0.572	0.71
145_E	158_G	0.571	0.71
104_A	111_A	0.570	0.70
91_R	98_A	0.568	0.70
295_E	298_R	0.568	0.70
337_V	345_P	0.568	0.70
64_G	199_E	0.568	0.70
159_A	212_V	0.565	0.70
59_E	172_K	0.565	0.70
69_F	243_N	0.564	0.70
14_A	19_F	0.564	0.70
240_L	262_F	0.563	0.70
103_A	111_A	0.563	0.70
78_P	276_E	0.563	0.70
287_C	301_G	0.563	0.70
64_G	68_L	0.562	0.69
12_A	51_M	0.559	0.69
51_M	196_V	0.559	0.69
167_I	170_G	0.559	0.69
92_R	107_A	0.558	0.69
71_H	74_A	0.558	0.69
345_P	348_L	0.558	0.69
40_N	212_V	0.557	0.69
165_P	196_V	0.556	0.69
236_R	269_G	0.555	0.68
16_A	19_F	0.554	0.68
126_Y	195_Q	0.553	0.68
322_A	327_A	0.553	0.68
75_Y	277_Y	0.553	0.68
103_A	110_A	0.552	0.68
270_G	340_D	0.552	0.68
93_M	100_G	0.552	0.68
336_H	339_Y	0.550	0.68
167_I	211_M	0.549	0.68
95_E	112_A	0.548	0.67
101_A	106_A	0.548	0.67
102_A	111_A	0.547	0.67
185_K	189_A	0.546	0.67
65_D	267_E	0.545	0.67
172_K	196_V	0.545	0.67
133_I	174_F	0.544	0.67
10_Y	23_S	0.544	0.67
291_P	294_P	0.543	0.67
46_P	211_M	0.542	0.67
207_I	339_Y	0.540	0.66
15_D	154_R	0.538	0.66
296_E	299_T	0.537	0.66
183_Q	343_H	0.536	0.66
106_A	115_A	0.535	0.66
308_D	312_P	0.535	0.66
133_I	136_L	0.533	0.65
94_Y	105_A	0.531	0.65
10_Y	13_K	0.530	0.65
303_F	332_L	0.530	0.65
266_V	300_L	0.526	0.64
28_V	42_Y	0.526	0.64
190_Y	269_G	0.524	0.64
141_S	163_L	0.524	0.64
91_R	113_A	0.523	0.64
53_V	165_P	0.522	0.64
51_M	69_F	0.522	0.64
279_W	286_P	0.522	0.64
10_Y	20_N	0.520	0.63
98_A	269_G	0.518	0.63
93_M	112_A	0.517	0.63
171_M	198_Y	0.516	0.63
4_A	36_L	0.515	0.63
107_A	116_A	0.514	0.63
83_Y	89_C	0.514	0.63
62_H	195_Q	0.513	0.62
289_A	297_L	0.513	0.62
291_P	300_L	0.513	0.62
99_M	110_A	0.512	0.62
36_L	207_I	0.512	0.62
170_G	271_R	0.511	0.62
332_L	346_E	0.510	0.62
23_S	218_Q	0.510	0.62
294_P	305_L	0.510	0.62
106_A	111_A	0.509	0.62
139_K	157_A	0.506	0.61
125_Q	153_Y	0.506	0.61
301_G	304_W	0.506	0.61
62_H	199_E	0.506	0.61
150_E	181_K	0.506	0.61
91_R	100_G	0.506	0.61
181_K	184_A	0.505	0.61
95_E	107_A	0.505	0.61
133_I	176_A	0.505	0.61
177_K	256_D	0.504	0.61
300_L	304_W	0.503	0.61
14_A	73_D	0.503	0.61
85_D	88_P	0.502	0.61
50_A	56_P	0.502	0.61
55_V	198_Y	0.501	0.61
18_L	25_V	0.501	0.61
341_A	348_L	0.501	0.61
126_Y	136_L	0.500	0.60
161_P	341_A	0.500	0.60
265_A	268_E	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
2kngA	1	0.1481	21.7	0.968	Contact Map
2kxeA	1	0.1994	13.9	0.97	Contact Map
2cu1A	1	0.2336	8.2	0.973	Contact Map
2m7cA	1	0.057	5.6	0.975	Contact Map
1ng7A	2	0.1652	4.3	0.977	Contact Map
3na7A	1	0.114	4.2	0.977	Contact Map
4iloA	3	0.1111	4.2	0.977	Contact Map
2e8mA	1	0.2821	3.6	0.978	Contact Map
2pqrC	1	0.1282	3.5	0.978	Contact Map
3f6cA	2	0.359	3.2	0.978	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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