DUF2332 - PFAM28P - GREMLIN Contacts

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DUF2332 - Uncharacterized protein conserved in bacteria (DUF2332)

PFAM:	PF10094	Sequences: AEAFRRQAEACARGGSPLYARLARAVADDLELLGLLARAPPGDALPLRLLGAVHALVLAGRAPPLAAYYPSAGGDPDDDAAWPAFRAALLAHRDELRALLATRPTQTNEVGRSAALLPGLLALARRTGLPLALLEVGASAGLNLLWDRYRYDYGGGRWGDPDSPVRLACEWRGPVPPPLAPPEVVSRAGCDLNPLDVTDPDDRLWLRAYVWPDQPERLARLRAAIALARADPPRVVRGDAADWLPALLAEAPAGATTVVFHSIVLQYLPAEERARFAAALAAAGADRPLAWLSLEPPGVLPGGGGAELRLTLWPGGERRVELLARADPHGRWVEW	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	335 (330)
Sequences:	4275 (3398)
Seq/√Len:	187.1
META:	0.796

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
207_R	222_R	5.489	1.00
195_L	202_D	4.458	1.00
199_D	202_D	3.631	1.00
119_G	292_L	3.283	1.00
239_D	272_E	3.265	1.00
197_V	225_I	3.165	1.00
203_R	225_I	3.160	1.00
147_D	187_R	2.842	1.00
53_V	85_F	2.839	1.00
120_L	146_W	2.702	1.00
52_A	96_L	2.688	1.00
150_R	166_R	2.677	1.00
248_L	283_A	2.641	1.00
136_V	276_F	2.564	1.00
12_A	24_R	2.518	1.00
245_P	275_R	2.403	1.00
23_A	50_L	2.403	1.00
248_L	257_T	2.345	1.00
327_D	331_R	2.281	1.00
87_A	91_A	2.196	1.00
58_L	204_L	2.183	1.00
5_R	28_D	2.119	1.00
269_P	272_E	2.046	1.00
190_C	243_W	2.019	1.00
203_R	229_R	2.018	1.00
185_V	255_A	1.990	1.00
259_V	280_L	1.987	1.00
241_A	272_E	1.959	1.00
152_D	168_A	1.939	1.00
148_R	231_D	1.921	1.00
294_L	326_A	1.917	1.00
190_C	238_G	1.903	1.00
188_A	236_V	1.903	1.00
152_D	166_R	1.898	1.00
225_I	229_R	1.897	1.00
134_L	247_L	1.882	1.00
172_R	334_E	1.858	1.00
277_A	281_A	1.855	1.00
8_A	24_R	1.842	1.00
93_R	97_R	1.832	1.00
86_R	90_L	1.832	1.00
163_S	227_L	1.819	1.00
145_L	233_P	1.798	1.00
132_A	255_A	1.782	1.00
82_W	86_R	1.769	1.00
244_L	259_V	1.763	1.00
113_S	149_Y	1.763	1.00
145_L	231_D	1.752	1.00
92_H	95_E	1.726	1.00
29_D	86_R	1.704	1.00
132_A	186_S	1.687	1.00
99_L	208_A	1.670	1.00
210_V	221_L	1.665	1.00
264_V	268_L	1.659	1.00
5_R	24_R	1.657	1.00
152_D	157_R	1.650	1.00
193_N	237_R	1.648	1.00
241_A	279_A	1.642	1.00
134_L	257_T	1.629	1.00
113_S	143_N	1.602	1.00
172_R	332_W	1.598	1.00
274_A	278_A	1.591	1.00
118_P	153_Y	1.578	1.00
19_Y	50_L	1.558	1.00
20_A	24_R	1.557	1.00
111_G	220_R	1.540	1.00
52_A	99_L	1.539	1.00
126_R	319_R	1.533	1.00
325_R	334_E	1.531	1.00
270_A	274_A	1.515	1.00
59_A	204_L	1.508	1.00
123_L	256_T	1.499	1.00
25_A	82_W	1.497	1.00
164_P	227_L	1.490	1.00
242_D	272_E	1.456	1.00
236_V	243_W	1.449	1.00
120_L	260_F	1.436	1.00
242_D	275_R	1.413	1.00
277_A	291_W	1.413	1.00
12_A	20_A	1.405	1.00
113_S	151_Y	1.401	1.00
188_A	247_L	1.399	1.00
136_V	240_A	1.373	1.00
207_R	218_L	1.357	1.00
165_V	223_A	1.355	1.00
218_L	222_R	1.344	1.00
207_R	221_L	1.342	1.00
13_R	20_A	1.342	1.00
5_R	27_A	1.340	1.00
221_L	225_I	1.339	1.00
138_A	235_V	1.326	1.00
152_D	155_G	1.324	1.00
21_R	25_A	1.316	1.00
219_A	222_R	1.314	1.00
311_T	318_R	1.312	1.00
119_G	323_L	1.306	1.00
238_G	243_W	1.303	1.00
55_A	204_L	1.298	1.00
109_E	217_R	1.284	1.00
265_L	276_F	1.279	1.00
122_A	126_R	1.277	1.00
144_L	189_G	1.276	1.00
245_P	279_A	1.265	1.00
190_C	247_L	1.261	1.00
14_G	20_A	1.256	1.00
136_V	264_V	1.252	1.00
54_H	58_L	1.251	1.00
116_L	262_S	1.241	1.00
150_R	157_R	1.241	1.00
284_G	313_W	1.240	1.00
292_L	310_L	1.239	1.00
245_P	282_A	1.237	1.00
263_I	306_A	1.236	1.00
308_L	324_A	1.227	1.00
226_A	230_A	1.223	1.00
134_L	188_A	1.221	1.00
9_E	24_R	1.217	1.00
57_V	72_A	1.217	1.00
240_A	264_V	1.201	1.00
188_A	234_R	1.197	1.00
241_A	276_F	1.194	1.00
243_W	246_A	1.193	1.00
88_A	92_H	1.193	1.00
122_A	125_R	1.187	1.00
219_A	223_A	1.186	1.00
115_A	294_L	1.181	1.00
244_L	279_A	1.181	1.00
55_A	99_L	1.180	1.00
133_L	146_W	1.178	1.00
71_S	74_G	1.177	1.00
89_L	96_L	1.174	1.00
256_T	290_A	1.171	1.00
272_E	275_R	1.166	1.00
129_L	256_T	1.166	1.00
226_A	229_R	1.165	1.00
197_V	229_R	1.162	1.00
265_L	273_R	1.162	1.00
284_G	289_L	1.152	1.00
132_A	185_V	1.141	1.00
7_Q	11_C	1.140	1.00
197_V	233_P	1.123	1.00
35_L	93_R	1.112	1.00
324_A	333_V	1.100	1.00
247_L	250_E	1.097	1.00
290_A	310_L	1.089	1.00
107_T	139_S	1.081	1.00
49_L	100_L	1.079	1.00
120_L	258_V	1.077	1.00
34_G	37_A	1.074	1.00
132_A	257_T	1.069	1.00
107_T	217_R	1.060	1.00
236_V	247_L	1.058	1.00
138_A	260_F	1.057	1.00
51_G	209_Y	1.057	1.00
197_V	202_D	1.057	1.00
123_L	127_T	1.056	1.00
123_L	258_V	1.048	1.00
11_C	15_G	1.041	1.00
203_R	226_A	1.041	1.00
6_R	10_A	1.029	1.00
276_F	280_L	1.028	1.00
261_H	291_W	1.025	1.00
180_A	183_E	1.023	1.00
16_S	213_D	1.019	1.00
131_L	256_T	1.017	1.00
47_L	105_T	1.014	1.00
240_A	268_L	1.012	1.00
251_A	257_T	1.010	1.00
21_R	81_A	1.004	0.99
63_P	87_A	1.003	0.99
290_A	312_L	0.999	0.99
117_L	158_W	0.995	0.99
261_H	295_E	0.994	0.99
55_A	208_A	0.991	0.99
263_I	266_Q	0.990	0.99
54_H	218_L	0.989	0.99
26_V	36_L	0.988	0.99
238_G	242_D	0.987	0.99
135_E	260_F	0.977	0.99
213_D	218_L	0.974	0.99
146_W	260_F	0.970	0.99
265_L	268_L	0.960	0.99
22_L	50_L	0.952	0.99
278_A	282_A	0.951	0.99
98_A	101_A	0.940	0.99
186_S	251_A	0.937	0.99
65_L	69_Y	0.935	0.99
47_L	209_Y	0.935	0.99
15_G	214_Q	0.931	0.99
279_A	282_A	0.927	0.99
77_D	80_A	0.923	0.99
143_N	262_S	0.920	0.99
134_L	248_L	0.918	0.99
216_E	220_R	0.918	0.99
98_A	102_T	0.914	0.99
133_L	260_F	0.913	0.99
288_P	314_P	0.911	0.99
29_D	34_G	0.910	0.99
97_R	101_A	0.909	0.99
38_R	97_R	0.907	0.99
154_G	157_R	0.905	0.99
24_R	28_D	0.899	0.99
39_A	43_D	0.898	0.99
107_T	329_H	0.894	0.99
305_G	325_R	0.891	0.99
306_A	328_P	0.889	0.99
238_G	246_A	0.882	0.99
61_R	95_E	0.880	0.99
95_E	98_A	0.879	0.99
211_W	329_H	0.877	0.99
197_V	228_A	0.876	0.99
35_L	38_R	0.876	0.99
107_T	211_W	0.875	0.99
262_S	294_L	0.871	0.99
327_D	332_W	0.869	0.99
239_D	242_D	0.868	0.98
62_A	88_A	0.866	0.98
5_R	9_E	0.865	0.98
102_T	205_W	0.864	0.98
117_L	151_Y	0.862	0.98
120_L	131_L	0.862	0.98
127_T	256_T	0.861	0.98
309_R	318_R	0.861	0.98
73_G	76_P	0.860	0.98
244_L	276_F	0.859	0.98
4_F	30_L	0.859	0.98
281_A	311_T	0.858	0.98
29_D	82_W	0.857	0.98
124_A	131_L	0.853	0.98
132_A	252_P	0.853	0.98
264_V	276_F	0.851	0.98
217_R	329_H	0.849	0.98
2_E	6_R	0.847	0.98
25_A	29_D	0.846	0.98
9_E	13_R	0.846	0.98
111_G	114_A	0.846	0.98
146_W	182_P	0.843	0.98
53_V	57_V	0.842	0.98
200_P	229_R	0.841	0.98
211_W	217_R	0.840	0.98
204_L	208_A	0.834	0.98
36_L	49_L	0.833	0.98
26_V	50_L	0.832	0.98
261_H	293_S	0.830	0.98
171_W	333_V	0.830	0.98
57_V	69_Y	0.826	0.98
176_P	179_L	0.824	0.98
104_P	209_Y	0.824	0.98
294_L	306_A	0.824	0.98
216_E	219_A	0.823	0.98
148_R	230_A	0.815	0.98
204_L	207_R	0.815	0.98
122_A	310_L	0.812	0.98
309_R	320_V	0.808	0.98
7_Q	47_L	0.805	0.98
82_W	85_F	0.799	0.97
116_L	120_L	0.798	0.97
73_G	77_D	0.798	0.97
32_L	82_W	0.795	0.97
132_A	251_A	0.794	0.97
114_A	169_C	0.792	0.97
243_W	247_L	0.789	0.97
203_R	207_R	0.788	0.97
3_A	44_A	0.786	0.97
136_V	259_V	0.784	0.97
311_T	316_G	0.780	0.97
33_L	37_A	0.778	0.97
54_H	71_S	0.778	0.97
263_I	267_Y	0.774	0.97
261_H	276_F	0.774	0.97
175_V	178_P	0.769	0.97
168_A	216_E	0.766	0.97
10_A	14_G	0.761	0.97
160_D	163_S	0.760	0.97
148_R	160_D	0.760	0.97
130_P	185_V	0.759	0.96
268_L	276_F	0.758	0.96
308_L	323_L	0.758	0.96
142_L	224_A	0.758	0.96
153_Y	156_G	0.753	0.96
297_P	307_E	0.751	0.96
8_A	12_A	0.751	0.96
68_Y	71_S	0.748	0.96
275_R	278_A	0.744	0.96
56_L	99_L	0.743	0.96
310_L	313_W	0.743	0.96
150_R	160_D	0.742	0.96
118_P	335_W	0.740	0.96
68_Y	84_A	0.739	0.96
165_V	227_L	0.738	0.96
120_L	133_L	0.735	0.96
131_L	260_F	0.735	0.96
128_G	256_T	0.733	0.96
38_R	93_R	0.730	0.96
126_R	312_L	0.724	0.95
215_P	218_L	0.722	0.95
108_N	139_S	0.721	0.95
11_C	14_G	0.721	0.95
114_A	167_L	0.721	0.95
39_A	45_L	0.719	0.95
253_A	286_D	0.718	0.95
127_T	312_L	0.716	0.95
109_E	211_W	0.715	0.95
215_P	219_A	0.713	0.95
168_A	220_R	0.712	0.95
134_L	186_S	0.710	0.95
326_A	333_V	0.710	0.95
115_A	326_A	0.709	0.95
55_A	201_D	0.708	0.95
12_A	15_G	0.707	0.95
106_Q	267_Y	0.705	0.95
263_I	294_L	0.703	0.95
64_P	87_A	0.702	0.95
153_Y	169_C	0.701	0.95
107_T	267_Y	0.700	0.95
54_H	213_D	0.700	0.95
131_L	182_P	0.699	0.94
59_A	95_E	0.699	0.94
222_R	226_A	0.696	0.94
210_V	218_L	0.695	0.94
268_L	272_E	0.695	0.94
119_G	262_S	0.694	0.94
188_A	235_V	0.691	0.94
111_G	327_D	0.691	0.94
254_G	286_D	0.690	0.94
292_L	323_L	0.687	0.94
276_F	279_A	0.687	0.94
145_L	227_L	0.686	0.94
53_V	88_A	0.685	0.94
312_L	319_R	0.685	0.94
111_G	216_E	0.680	0.94
4_F	26_V	0.676	0.93
297_P	325_R	0.675	0.93
192_L	264_V	0.673	0.93
186_S	255_A	0.670	0.93
171_W	175_V	0.669	0.93
56_L	92_H	0.666	0.93
93_R	96_L	0.664	0.93
84_A	87_A	0.664	0.93
134_L	243_W	0.663	0.93
68_Y	72_A	0.661	0.93
310_L	315_G	0.661	0.93
43_D	48_R	0.658	0.93
146_W	184_V	0.658	0.93
49_L	53_V	0.654	0.92
125_R	180_A	0.653	0.92
236_V	246_A	0.652	0.92
275_R	279_A	0.650	0.92
139_S	217_R	0.648	0.92
123_L	292_L	0.642	0.92
216_E	331_R	0.640	0.91
251_A	255_A	0.638	0.91
308_L	313_W	0.637	0.91
123_L	131_L	0.636	0.91
171_W	177_P	0.635	0.91
7_Q	12_A	0.635	0.91
15_G	327_D	0.634	0.91
130_P	183_E	0.633	0.91
110_V	167_L	0.632	0.91
30_L	34_G	0.632	0.91
293_S	318_R	0.631	0.91
3_A	46_P	0.630	0.91
23_A	26_V	0.629	0.91
133_L	187_R	0.629	0.91
236_V	250_E	0.629	0.91
103_R	209_Y	0.629	0.91
61_R	92_H	0.628	0.91
265_L	277_A	0.628	0.91
267_Y	329_H	0.627	0.91
266_Q	296_P	0.626	0.91
18_L	22_L	0.626	0.91
272_E	276_F	0.623	0.90
234_R	250_E	0.622	0.90
26_V	82_W	0.622	0.90
206_L	221_L	0.621	0.90
30_L	37_A	0.619	0.90
19_Y	22_L	0.619	0.90
186_S	252_P	0.618	0.90
269_P	274_A	0.617	0.90
15_G	20_A	0.617	0.90
314_P	320_V	0.617	0.90
257_T	289_L	0.613	0.90
150_R	158_W	0.613	0.90
293_S	309_R	0.607	0.89
44_A	266_Q	0.606	0.89
198_T	232_P	0.606	0.89
197_V	207_R	0.605	0.89
105_T	267_Y	0.604	0.89
220_R	227_L	0.604	0.89
278_A	281_A	0.600	0.89
85_F	96_L	0.600	0.89
116_L	260_F	0.600	0.89
124_A	127_T	0.597	0.88
252_P	287_R	0.596	0.88
150_R	159_G	0.596	0.88
129_L	254_G	0.595	0.88
103_R	192_L	0.592	0.88
44_A	267_Y	0.592	0.88
200_P	203_R	0.592	0.88
53_V	96_L	0.590	0.88
64_P	91_A	0.589	0.88
121_L	158_W	0.588	0.88
109_E	220_R	0.586	0.87
259_V	289_L	0.582	0.87
293_S	296_P	0.581	0.87
30_L	33_L	0.578	0.87
43_D	104_P	0.578	0.87
289_L	313_W	0.577	0.87
94_D	97_R	0.576	0.87
135_E	261_H	0.576	0.87
60_G	92_H	0.574	0.86
6_R	9_E	0.573	0.86
240_A	243_W	0.572	0.86
39_A	42_G	0.569	0.86
115_A	118_P	0.568	0.86
16_S	214_Q	0.568	0.86
138_A	189_G	0.568	0.86
291_W	296_P	0.567	0.86
36_L	89_L	0.564	0.85
131_L	146_W	0.564	0.85
149_Y	167_L	0.561	0.85
293_S	311_T	0.561	0.85
194_P	237_R	0.560	0.85
25_A	28_D	0.560	0.85
150_R	163_S	0.559	0.85
294_L	308_L	0.559	0.85
123_L	290_A	0.558	0.85
241_A	275_R	0.557	0.85
106_Q	112_R	0.556	0.85
71_S	218_L	0.556	0.85
279_A	283_A	0.554	0.84
197_V	203_R	0.553	0.84
69_Y	85_F	0.553	0.84
55_A	95_E	0.550	0.84
291_W	295_E	0.549	0.84
136_V	265_L	0.548	0.84
6_R	11_C	0.544	0.83
200_P	204_L	0.544	0.83
45_L	48_R	0.542	0.83
19_Y	69_Y	0.542	0.83
4_F	23_A	0.541	0.83
322_L	325_R	0.538	0.83
186_S	234_R	0.538	0.83
108_N	211_W	0.537	0.83
308_L	326_A	0.536	0.82
294_L	323_L	0.535	0.82
198_T	229_R	0.534	0.82
186_S	247_L	0.534	0.82
280_L	284_G	0.533	0.82
68_Y	75_D	0.533	0.82
121_L	182_P	0.531	0.82
136_V	190_C	0.531	0.82
186_S	257_T	0.531	0.82
7_Q	14_G	0.529	0.82
192_L	239_D	0.528	0.81
184_V	187_R	0.526	0.81
163_S	166_R	0.525	0.81
55_A	59_A	0.525	0.81
9_E	12_A	0.524	0.81
40_P	43_D	0.524	0.81
44_A	47_L	0.524	0.81
30_L	36_L	0.524	0.81
284_G	290_A	0.523	0.81
85_F	89_L	0.523	0.81
188_A	251_A	0.522	0.81
110_V	224_A	0.521	0.81
32_L	89_L	0.519	0.80
70_P	74_G	0.517	0.80
258_V	292_L	0.516	0.80
64_P	84_A	0.516	0.80
217_R	267_Y	0.515	0.80
277_A	280_L	0.514	0.80
214_Q	218_L	0.514	0.80
139_S	211_W	0.514	0.80
25_A	81_A	0.514	0.80
310_L	316_G	0.512	0.79
11_C	51_G	0.511	0.79
145_L	148_R	0.510	0.79
99_L	205_W	0.509	0.79
54_H	212_P	0.509	0.79
318_R	322_L	0.508	0.79
135_E	143_N	0.507	0.79
108_N	217_R	0.507	0.79
31_E	34_G	0.507	0.79
241_A	245_P	0.506	0.79
7_Q	23_A	0.505	0.79
280_L	291_W	0.504	0.78
68_Y	73_G	0.504	0.78
18_L	213_D	0.503	0.78
119_G	122_A	0.503	0.78
121_L	151_Y	0.503	0.78
323_L	335_W	0.501	0.78
243_W	268_L	0.500	0.78
57_V	66_A	0.500	0.78
159_G	163_S	0.500	0.78

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
2p8jA	2	0.4955	82.6	0.955	Contact Map
3jwgA	1	0.4955	74.6	0.958	Contact Map
4xcxA	1	0.4955	70.2	0.96	Contact Map
1af7A	1	0.7582	64.3	0.961	Contact Map
3ihtA	2	0.4478	63.8	0.961	Contact Map
3dr5A	2	0.6149	52.7	0.964	Contact Map
2h00A	1	0.5881	48.8	0.965	Contact Map
2hnkA	2	0.5642	48.2	0.965	Contact Map
4azsA	6	0.5552	45.9	0.965	Contact Map
3h2bA	2	0.5433	44.7	0.965	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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