YJIM - ECOLI - GREMLIN Contacts

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YJIM - Uncharacterized protein YjiM

UniProt:	P39384	Sequences: MSLVTDLPAIFDQFSEARQTGFLTVMDLKERGIPLVGTYCTFMPQEIPMAAGAVVVSLCSTSDETIEEAEKDLPRNLCPLIKSSYGFGKTDKCPYFYFSDLVVGETTCDGKKKMYEYMAEFKPVHVMQLPNSVKDDASRALWKAEMLRLQKTVEERFGHEISEDALRDAIALKNRERRALANFYHLGQLNPPALSGSDILKVVYGATFRFDKEALINELDAMTARVRQQWEEGQRLDPRPRILITGCPIGGAAEKVVRAIEENGGWVVGYENCTGAKATEQCVAETGDVYDALADKYLAIGCSCVSPNDQRLKMLSQMVEEYQVDGVVDVILQACHTYAVESLAIKRHVRQQHNIPYIAIETDYSTSDVGQLSTRVAAFIEML	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12574
Length:	383 (357)
Sequences:	1080 (824)
Seq/√Len:	43.6

ECOLI - YJIM

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
175_R	220_D	6.971	1.00
182_N	227_R	6.809	1.00
143_K	291_D	4.722	1.00
243_L	324_V	4.409	1.00
179_A	220_D	3.973	1.00
165_A	168_D	3.611	1.00
139_R	295_D	3.499	1.00
320_E	353_H	3.307	1.00
228_Q	232_E	3.295	1.00
143_K	147_L	3.245	1.00
317_Q	321_E	3.217	1.00
78_C	335_C	3.213	1.00
78_C	108_C	3.147	1.00
150_Q	161_I	3.123	1.00
172_L	213_E	3.111	1.00
103_V	149_L	2.996	1.00
319_V	355_I	2.802	1.00
108_C	335_C	2.796	1.00
52_G	165_A	2.777	1.00
51_A	161_I	2.753	1.00
188_Q	321_E	2.647	1.00
27_D	31_R	2.529	1.00
175_R	178_R	2.514	1.00
348_H	352_Q	2.367	1.00
269_G	324_V	2.364	1.00
140_A	291_D	2.347	1.00
29_K	100_D	2.254	1.00
49_M	169_A	2.230	1.00
220_D	224_A	2.199	1.00
48_P	53_A	2.176	1.00
150_Q	154_E	2.116	0.99
265_G	380_I	2.062	0.99
120_E	347_R	2.050	0.99
358_I	376_V	2.047	0.99
68_E	71_K	2.038	0.99
375_R	378_A	1.994	0.99
179_A	223_T	1.971	0.99
190_N	323_Q	1.960	0.99
152_T	155_E	1.957	0.99
313_K	317_Q	1.936	0.99
28_L	33_I	1.906	0.99
370_G	373_S	1.905	0.99
136_D	140_A	1.890	0.99
316_S	353_H	1.882	0.99
40_C	273_C	1.863	0.99
178_R	282_C	1.862	0.99
260_I	328_V	1.852	0.99
150_Q	290_Y	1.805	0.98
16_E	20_T	1.803	0.98
168_D	171_A	1.788	0.98
348_H	353_H	1.757	0.98
170_I	289_V	1.739	0.98
170_I	174_N	1.737	0.98
188_Q	322_Y	1.736	0.98
218_E	221_A	1.735	0.98
223_T	227_R	1.726	0.98
242_I	326_G	1.726	0.98
172_L	216_I	1.697	0.98
179_A	216_I	1.696	0.98
371_Q	374_T	1.689	0.97
26_M	30_E	1.684	0.97
81_I	110_G	1.678	0.97
175_R	216_I	1.676	0.97
319_V	327_V	1.671	0.97
314_M	317_Q	1.662	0.97
23_L	27_D	1.652	0.97
182_N	220_D	1.650	0.97
143_K	290_Y	1.649	0.97
36_V	101_L	1.647	0.97
327_V	349_V	1.628	0.97
47_I	153_V	1.619	0.97
123_P	156_R	1.607	0.97
182_N	223_T	1.586	0.96
213_E	217_N	1.586	0.96
27_D	30_E	1.584	0.96
182_N	224_A	1.564	0.96
346_K	350_R	1.538	0.96
150_Q	163_E	1.527	0.95
312_L	348_H	1.486	0.95
258_R	262_E	1.477	0.94
316_S	348_H	1.470	0.94
70_E	82_K	1.468	0.94
187_G	270_Y	1.429	0.93
349_V	355_I	1.429	0.93
316_S	320_E	1.419	0.93
128_Q	141_L	1.395	0.93
168_D	172_L	1.385	0.92
328_V	376_V	1.373	0.92
151_K	155_E	1.371	0.92
48_P	55_V	1.362	0.92
374_T	378_A	1.354	0.91
168_D	213_E	1.351	0.91
49_M	173_K	1.350	0.91
154_E	160_E	1.335	0.91
72_D	89_K	1.330	0.91
185_H	188_Q	1.324	0.90
285_E	289_V	1.319	0.90
269_G	322_Y	1.318	0.90
196_G	261_E	1.318	0.90
45_Q	212_K	1.308	0.90
375_R	381_E	1.304	0.90
140_A	144_A	1.298	0.90
273_C	302_C	1.291	0.89
163_E	167_R	1.282	0.89
101_L	152_T	1.273	0.89
326_G	379_F	1.267	0.88
40_C	302_C	1.260	0.88
142_W	146_M	1.255	0.88
49_M	55_V	1.255	0.88
170_I	285_E	1.244	0.87
374_T	377_A	1.233	0.87
181_A	282_C	1.228	0.87
50_A	161_I	1.225	0.87
260_I	265_G	1.223	0.86
68_E	90_T	1.222	0.86
125_H	152_T	1.218	0.86
309_D	313_K	1.218	0.86
185_H	322_Y	1.217	0.86
370_G	374_T	1.206	0.86
342_S	359_A	1.197	0.85
143_K	294_A	1.193	0.85
152_T	156_R	1.176	0.84
127_M	142_W	1.162	0.84
176_E	216_I	1.154	0.83
245_T	315_L	1.147	0.83
269_G	318_M	1.142	0.82
289_V	292_A	1.140	0.82
64_E	92_K	1.135	0.82
179_A	182_N	1.135	0.82
43_M	48_P	1.133	0.82
181_A	185_H	1.133	0.82
202_V	222_M	1.129	0.82
288_D	291_D	1.129	0.82
137_A	148_R	1.117	0.81
79_P	381_E	1.114	0.81
47_I	146_M	1.114	0.81
191_P	266_W	1.110	0.81
146_M	293_L	1.108	0.80
187_G	192_P	1.089	0.79
186_L	223_T	1.074	0.78
36_V	153_V	1.069	0.78
147_L	151_K	1.068	0.78
147_L	150_Q	1.068	0.78
125_H	149_L	1.064	0.78
243_L	327_V	1.062	0.78
315_L	345_I	1.053	0.77
175_R	179_A	1.043	0.76
167_R	288_D	1.027	0.75
183_F	223_T	1.023	0.75
189_L	230_W	1.021	0.75
144_A	147_L	1.018	0.74
76_N	334_A	1.013	0.74
371_Q	381_E	1.006	0.74
217_N	221_A	1.005	0.74
311_R	341_E	1.005	0.74
224_A	228_Q	1.003	0.73
170_I	293_L	1.000	0.73
248_P	368_D	0.999	0.73
34_P	159_H	0.999	0.73
40_C	111_K	0.996	0.73
72_D	85_Y	0.995	0.73
74_P	113_K	0.994	0.73
37_G	297_Y	0.994	0.73
130_P	335_C	0.993	0.73
179_A	219_L	0.993	0.73
217_N	256_V	0.987	0.72
28_L	54_V	0.980	0.72
303_S	337_T	0.979	0.72
162_S	165_A	0.979	0.72
241_R	325_D	0.976	0.71
66_I	69_A	0.970	0.71
83_S	87_F	0.969	0.71
197_S	229_Q	0.965	0.70
178_R	182_N	0.960	0.70
241_R	268_V	0.955	0.70
147_L	290_Y	0.954	0.70
242_I	260_I	0.946	0.69
216_I	220_D	0.945	0.69
139_R	291_D	0.941	0.68
113_K	116_E	0.940	0.68
378_A	381_E	0.938	0.68
261_E	268_V	0.936	0.68
144_A	299_A	0.935	0.68
166_L	290_Y	0.935	0.68
225_R	229_Q	0.933	0.68
255_K	368_D	0.933	0.68
139_R	143_K	0.932	0.68
132_S	135_D	0.931	0.68
209_R	218_E	0.923	0.67
53_A	157_F	0.921	0.67
17_A	21_G	0.920	0.67
336_H	339_A	0.915	0.66
316_S	319_V	0.910	0.66
315_L	319_V	0.909	0.66
23_L	26_M	0.907	0.66
228_Q	231_E	0.906	0.66
195_S	198_D	0.904	0.65
33_I	52_G	0.904	0.65
68_E	89_K	0.901	0.65
107_T	368_D	0.900	0.65
176_E	212_K	0.896	0.65
54_V	172_L	0.888	0.64
249_I	330_V	0.884	0.64
78_C	130_P	0.883	0.64
243_L	269_G	0.882	0.63
295_D	299_A	0.879	0.63
241_R	323_Q	0.878	0.63
336_H	363_D	0.876	0.63
349_V	357_Y	0.873	0.63
190_N	238_P	0.873	0.63
361_E	375_R	0.872	0.63
172_L	175_R	0.872	0.63
161_I	166_L	0.868	0.62
230_W	233_G	0.868	0.62
318_M	321_E	0.867	0.62
102_V	118_M	0.866	0.62
175_R	224_A	0.864	0.62
164_D	168_D	0.862	0.62
330_V	362_T	0.859	0.61
50_A	166_L	0.858	0.61
182_N	186_L	0.858	0.61
150_Q	160_E	0.858	0.61
360_I	372_L	0.855	0.61
227_R	231_E	0.854	0.61
319_V	324_V	0.847	0.60
37_G	99_S	0.845	0.60
162_S	166_L	0.840	0.60
49_M	226_V	0.837	0.59
113_K	248_P	0.832	0.59
154_E	161_I	0.831	0.59
46_E	177_R	0.821	0.58
59_C	80_L	0.816	0.57
189_L	227_R	0.816	0.57
162_S	168_D	0.812	0.57
21_G	187_G	0.812	0.57
139_R	294_A	0.807	0.57
189_L	193_A	0.804	0.56
168_D	220_D	0.802	0.56
319_V	349_V	0.797	0.56
312_L	345_I	0.797	0.56
172_L	288_D	0.795	0.55
182_N	185_H	0.795	0.55
59_C	271_E	0.794	0.55
211_D	362_T	0.791	0.55
16_E	19_Q	0.788	0.55
163_E	289_V	0.780	0.54
112_K	131_N	0.776	0.54
39_Y	84_S	0.776	0.54
79_P	363_D	0.775	0.54
316_S	328_V	0.774	0.53
160_E	165_A	0.774	0.53
166_L	289_V	0.771	0.53
16_E	22_F	0.768	0.53
226_V	349_V	0.767	0.53
123_P	152_T	0.765	0.53
20_T	24_T	0.763	0.52
277_K	314_M	0.762	0.52
42_F	302_C	0.761	0.52
39_Y	43_M	0.759	0.52
374_T	381_E	0.759	0.52
77_L	110_G	0.758	0.52
36_V	53_A	0.754	0.52
333_Q	361_E	0.754	0.52
290_Y	320_E	0.749	0.51
326_G	378_A	0.747	0.51
73_L	79_P	0.744	0.51
309_D	344_A	0.744	0.51
329_D	342_S	0.743	0.50
144_A	228_Q	0.741	0.50
115_Y	293_L	0.739	0.50
214_A	218_E	0.737	0.50
171_A	217_N	0.736	0.50
130_P	142_W	0.734	0.50
316_S	352_Q	0.734	0.50
75_R	327_V	0.734	0.50
176_E	215_L	0.733	0.49
167_R	171_A	0.731	0.49
140_A	151_K	0.730	0.49
215_L	219_L	0.730	0.49
274_T	355_I	0.728	0.49
171_A	285_E	0.725	0.49
116_E	246_G	0.725	0.49
21_G	270_Y	0.722	0.48
189_L	323_Q	0.718	0.48
349_V	353_H	0.718	0.48
320_E	380_I	0.718	0.48
18_R	21_G	0.715	0.48
220_D	228_Q	0.715	0.48
286_T	289_V	0.714	0.48
85_Y	122_K	0.713	0.48
258_R	293_L	0.710	0.47
358_I	381_E	0.709	0.47
79_P	114_M	0.709	0.47
127_M	149_L	0.708	0.47
102_V	125_H	0.706	0.47
319_V	353_H	0.705	0.47
263_N	373_S	0.702	0.47
79_P	110_G	0.702	0.47
39_Y	42_F	0.698	0.46
259_A	373_S	0.693	0.46
224_A	229_Q	0.692	0.46
28_L	31_R	0.692	0.46
135_D	138_S	0.692	0.46
22_F	26_M	0.689	0.45
262_E	373_S	0.686	0.45
231_E	376_V	0.684	0.45
178_R	354_N	0.684	0.45
342_S	346_K	0.683	0.45
273_C	371_Q	0.683	0.45
128_Q	145_E	0.682	0.45
265_G	268_V	0.682	0.45
206_A	215_L	0.681	0.45
279_T	360_I	0.679	0.44
172_L	212_K	0.678	0.44
216_I	224_A	0.676	0.44
304_C	329_D	0.676	0.44
232_E	323_Q	0.675	0.44
26_M	98_F	0.675	0.44
46_E	296_K	0.674	0.44
107_T	302_C	0.674	0.44
172_L	237_D	0.673	0.44
326_G	382_M	0.672	0.44
29_K	98_F	0.671	0.44
37_G	48_P	0.671	0.44
328_V	358_I	0.670	0.44
73_L	114_M	0.669	0.43
24_T	27_D	0.668	0.43
202_V	219_L	0.667	0.43
240_P	264_G	0.667	0.43
155_E	197_S	0.666	0.43
281_Q	299_A	0.664	0.43
40_C	297_Y	0.658	0.42
193_A	230_W	0.658	0.42
160_E	163_E	0.657	0.42
280_E	376_V	0.657	0.42
222_M	226_V	0.657	0.42
163_E	320_E	0.656	0.42
242_I	265_G	0.656	0.42
124_V	179_A	0.655	0.42
212_K	215_L	0.654	0.42
159_H	231_E	0.654	0.42
333_Q	340_V	0.653	0.42
130_P	375_R	0.653	0.42
336_H	365_S	0.648	0.41
371_Q	378_A	0.648	0.41
164_D	313_K	0.646	0.41
153_V	162_S	0.645	0.41
40_C	59_C	0.644	0.41
24_T	36_V	0.643	0.41
271_E	342_S	0.641	0.41
181_A	280_E	0.640	0.41
109_D	130_P	0.640	0.41
153_V	158_G	0.640	0.41
303_S	336_H	0.639	0.41
165_A	169_A	0.638	0.41
213_E	224_A	0.637	0.40
277_K	338_Y	0.636	0.40
36_V	48_P	0.636	0.40
232_E	317_Q	0.634	0.40
113_K	364_Y	0.634	0.40
370_G	381_E	0.634	0.40
47_I	201_K	0.633	0.40
19_Q	26_M	0.633	0.40
48_P	242_I	0.632	0.40
136_D	295_D	0.632	0.40
132_S	138_S	0.629	0.40
70_E	363_D	0.629	0.40
24_T	214_A	0.627	0.40
193_A	241_R	0.626	0.39
81_I	116_E	0.623	0.39
112_K	368_D	0.622	0.39
272_N	315_L	0.622	0.39
149_L	238_P	0.622	0.39
118_M	186_L	0.620	0.39
24_T	28_L	0.620	0.39
51_A	150_Q	0.620	0.39
34_P	128_Q	0.620	0.39
319_V	352_Q	0.619	0.39
343_L	347_R	0.618	0.39
19_Q	22_F	0.618	0.39
261_E	264_G	0.617	0.39
256_V	260_I	0.617	0.39
207_T	334_A	0.617	0.39
84_S	114_M	0.613	0.38
146_M	242_I	0.611	0.38
168_D	232_E	0.611	0.38
25_V	200_L	0.611	0.38
17_A	27_D	0.609	0.38
171_A	221_A	0.609	0.38
54_V	71_K	0.609	0.38
178_R	352_Q	0.607	0.38
170_I	283_V	0.606	0.38
283_V	293_L	0.606	0.38
18_R	22_F	0.605	0.38
123_P	171_A	0.604	0.37
82_K	248_P	0.602	0.37
141_L	146_M	0.601	0.37
225_R	380_I	0.601	0.37
40_C	107_T	0.599	0.37
171_A	323_Q	0.598	0.37
51_A	177_R	0.596	0.37
319_V	325_D	0.596	0.37
125_H	145_E	0.596	0.37
131_N	307_P	0.594	0.37
360_I	377_A	0.593	0.36
219_L	226_V	0.592	0.36
158_G	356_P	0.591	0.36
329_D	345_I	0.591	0.36
342_S	357_Y	0.591	0.36
356_P	379_F	0.591	0.36
242_I	267_V	0.590	0.36
47_I	150_Q	0.589	0.36
47_I	166_L	0.589	0.36
320_E	347_R	0.588	0.36
146_M	290_Y	0.587	0.36
311_R	375_R	0.587	0.36
315_L	361_E	0.587	0.36
371_Q	375_R	0.587	0.36
177_R	297_Y	0.586	0.36
378_A	383_L	0.584	0.36
192_P	266_W	0.583	0.36
221_A	376_V	0.582	0.35
237_D	313_K	0.580	0.35
64_E	190_N	0.580	0.35
25_V	28_L	0.580	0.35
65_T	92_K	0.579	0.35
73_L	117_Y	0.579	0.35
57_S	300_I	0.579	0.35
243_L	318_M	0.577	0.35
37_G	53_A	0.577	0.35
302_C	338_Y	0.576	0.35
228_Q	320_E	0.576	0.35
74_P	80_L	0.576	0.35
301_G	310_Q	0.574	0.35
281_Q	296_K	0.573	0.35
313_K	383_L	0.573	0.35
214_A	317_Q	0.572	0.35
329_D	357_Y	0.572	0.35
175_R	213_E	0.571	0.35
37_G	347_R	0.570	0.34
86_G	113_K	0.567	0.34
31_R	323_Q	0.567	0.34
191_P	238_P	0.565	0.34
161_I	165_A	0.565	0.34
187_G	199_I	0.565	0.34
150_Q	166_L	0.564	0.34
49_M	212_K	0.563	0.34
267_V	314_M	0.562	0.34
39_Y	118_M	0.560	0.34
218_E	225_R	0.558	0.33
33_I	383_L	0.558	0.33
71_K	167_R	0.558	0.33
34_P	53_A	0.558	0.33
260_I	358_I	0.558	0.33
119_A	323_Q	0.557	0.33
96_F	339_A	0.557	0.33
42_F	303_S	0.556	0.33
276_A	279_T	0.556	0.33
46_E	297_Y	0.555	0.33
280_E	317_Q	0.554	0.33
107_T	273_C	0.552	0.33
113_K	341_E	0.551	0.33
326_G	375_R	0.548	0.33
52_G	213_E	0.548	0.33
272_N	277_K	0.547	0.32
106_T	297_Y	0.546	0.32
144_A	290_Y	0.546	0.32
50_A	177_R	0.544	0.32
80_L	362_T	0.543	0.32
52_G	67_E	0.543	0.32
192_P	196_G	0.542	0.32
179_A	227_R	0.542	0.32
104_G	341_E	0.542	0.32
281_Q	295_D	0.541	0.32
320_E	324_V	0.540	0.32
183_F	226_V	0.539	0.32
123_P	180_L	0.537	0.32
19_Q	358_I	0.535	0.31
99_S	211_D	0.534	0.31
287_G	292_A	0.534	0.31
59_C	338_Y	0.533	0.31
186_L	228_Q	0.532	0.31
161_I	170_I	0.531	0.31
147_L	167_R	0.531	0.31
136_D	171_A	0.531	0.31
36_V	343_L	0.530	0.31
191_P	230_W	0.529	0.31
30_E	151_K	0.528	0.31
59_C	82_K	0.528	0.31
232_E	287_G	0.527	0.31
302_C	335_C	0.527	0.31
30_E	197_S	0.527	0.31
184_Y	322_Y	0.526	0.31
82_K	375_R	0.525	0.31
160_E	239_R	0.525	0.31
135_D	299_A	0.523	0.30
24_T	155_E	0.523	0.30
165_A	350_R	0.522	0.30
239_R	266_W	0.522	0.30
105_E	127_M	0.521	0.30
89_K	121_F	0.521	0.30
15_S	19_Q	0.520	0.30
153_V	161_I	0.520	0.30
168_D	321_E	0.518	0.30
323_Q	360_I	0.516	0.30
59_C	111_K	0.515	0.30
284_A	287_G	0.514	0.30
52_G	159_H	0.514	0.30
260_I	267_V	0.514	0.30
166_L	269_G	0.513	0.30
171_A	284_A	0.513	0.30
255_K	308_N	0.513	0.30
224_A	317_Q	0.512	0.30
101_L	153_V	0.511	0.30
165_A	237_D	0.511	0.30
149_L	279_T	0.511	0.30
82_K	116_E	0.510	0.29
56_V	293_L	0.509	0.29
229_Q	328_V	0.509	0.29
49_M	215_L	0.509	0.29
155_E	160_E	0.507	0.29
278_A	281_Q	0.505	0.29
181_A	328_V	0.505	0.29
74_P	107_T	0.505	0.29
106_T	128_Q	0.505	0.29
217_N	228_Q	0.505	0.29
284_A	292_A	0.504	0.29
67_E	71_K	0.504	0.29
171_A	228_Q	0.502	0.29
313_K	316_S	0.502	0.29
246_G	302_C	0.502	0.29
185_H	313_K	0.502	0.29
84_S	99_S	0.501	0.29
232_E	290_Y	0.501	0.29
105_E	336_H	0.501	0.29
104_G	118_M	0.500	0.29

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
3o3mA	1	0.9634	100	0.302	Contact Map
3o3mB	1	0.9556	100	0.312	Contact Map
3wnzA	2	0.3525	86.5	0.948	Contact Map
1w96A	1	0.47	85.1	0.949	Contact Map
2vpqA	2	0.329	84.2	0.95	Contact Map
3va7A	1	0.2898	82.6	0.951	Contact Map
4h4dA	1	0.4204	82.5	0.951	Contact Map
1ulzA	2	0.3316	81	0.952	Contact Map
3ouzA	2	0.3316	79	0.952	Contact Map
3glkA	1	0.3786	78.4	0.953	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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