SIRB1 - ECOLI - GREMLIN Contacts

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SIRB1 - Protein sirB1

UniProt:	P0AGM5	Sequences: MRSLADFEFNKAPLCEGMILACEAIRRDFPSQDVYDELERLVSLAKEEISQLLPLEEQLEKLIALFYGDWGFKASRGVYRLSDALWLDQVLKNRQGSAVSLGAVLLWVANRLDLPLLPVIFPTQLILRIECPDGEIWLINPFNGESLSEHMLDVWLKGNISPSAELFYEDLDEADNIEVIRKLLDTLKASLMEENQMELALRTSEALLQFNPEDPYEIRDRGLIYAQLDCEHVALNDLSYFVEQCPEDPISEMIRAQINNIAHKHIVLH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11251
Length:	269 (251)
Sequences:	928 (648)
Seq/√Len:	40.9

ECOLI - SIRB1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
221_R	237_D	5.161	1.00
118_P	125_L	4.807	1.00
230_C	233_V	4.597	1.00
34_V	92_K	3.349	1.00
196_Q	199_L	3.232	1.00
205_E	221_R	2.919	1.00
63_I	105_L	2.858	1.00
103_A	179_V	2.505	1.00
19_I	34_V	2.383	1.00
225_Y	230_C	2.378	1.00
83_D	89_Q	2.301	1.00
188_K	204_S	2.263	1.00
74_A	142_F	2.199	1.00
106_L	116_L	2.193	1.00
79_Y	84_A	2.170	0.99
64_A	69_D	2.100	0.99
45_A	112_L	2.075	0.99
38_L	104_V	2.019	0.99
225_Y	233_V	2.018	0.99
15_C	38_L	2.009	0.99
8_E	11_K	1.995	0.99
30_P	33_D	1.976	0.99
201_L	221_R	1.970	0.99
75_S	84_A	1.961	0.99
41_L	65_L	1.938	0.99
249_P	257_Q	1.933	0.99
188_K	220_D	1.853	0.98
72_F	91_L	1.844	0.98
79_Y	142_F	1.840	0.98
42_V	111_R	1.839	0.98
26_R	88_D	1.822	0.98
9_F	12_A	1.813	0.98
63_I	67_Y	1.779	0.98
191_L	199_L	1.764	0.98
54_P	57_E	1.761	0.98
109_A	116_L	1.754	0.98
40_R	44_L	1.751	0.97
121_F	152_L	1.741	0.97
254_I	259_N	1.703	0.97
98_A	182_K	1.664	0.97
37_E	41_L	1.648	0.96
79_Y	97_S	1.614	0.96
67_Y	141_P	1.608	0.96
188_K	217_E	1.602	0.96
119_V	122_P	1.582	0.95
79_Y	186_T	1.576	0.95
39_E	111_R	1.572	0.95
22_C	88_D	1.564	0.95
222_G	238_L	1.562	0.95
245_C	254_I	1.555	0.95
37_E	40_R	1.528	0.94
118_P	179_V	1.522	0.94
45_A	65_L	1.508	0.94
39_E	43_S	1.485	0.94
110_N	176_N	1.484	0.94
240_Y	244_Q	1.482	0.93
109_A	113_D	1.471	0.93
252_E	255_R	1.467	0.93
175_D	178_E	1.443	0.93
238_L	254_I	1.432	0.92
219_R	241_F	1.428	0.92
80_R	84_A	1.425	0.92
219_R	222_G	1.411	0.92
29_F	88_D	1.409	0.92
140_N	182_K	1.399	0.91
256_A	259_N	1.398	0.91
100_S	183_L	1.390	0.91
245_C	248_D	1.389	0.91
16_E	35_Y	1.385	0.91
107_W	111_R	1.375	0.91
222_G	241_F	1.364	0.90
78_V	81_L	1.358	0.90
90_V	144_G	1.346	0.90
74_A	79_Y	1.344	0.90
201_L	228_L	1.336	0.89
188_K	222_G	1.312	0.88
188_K	219_R	1.309	0.88
34_V	37_E	1.287	0.87
21_A	24_A	1.275	0.87
187_L	191_L	1.258	0.86
84_A	142_F	1.256	0.86
125_L	179_V	1.247	0.86
84_A	97_S	1.230	0.85
10_N	16_E	1.229	0.85
12_A	176_N	1.223	0.85
252_E	259_N	1.222	0.85
122_P	182_K	1.218	0.84
105_L	116_L	1.218	0.84
65_L	70_W	1.212	0.84
203_T	226_A	1.207	0.84
121_F	126_I	1.205	0.84
96_G	112_L	1.204	0.84
106_L	127_L	1.193	0.83
75_S	80_R	1.190	0.83
251_S	255_R	1.178	0.82
241_F	250_I	1.171	0.82
43_S	46_K	1.165	0.82
196_Q	200_A	1.161	0.81
62_L	109_A	1.155	0.81
75_S	97_S	1.133	0.80
119_V	128_R	1.126	0.79
17_G	176_N	1.123	0.79
246_P	249_P	1.122	0.79
217_E	220_D	1.117	0.79
181_R	211_N	1.105	0.78
119_V	138_L	1.105	0.78
106_L	179_V	1.086	0.77
99_V	186_T	1.079	0.76
140_N	155_W	1.068	0.76
31_S	35_Y	1.058	0.75
200_A	204_S	1.049	0.74
124_Q	140_N	1.047	0.74
82_S	187_L	1.045	0.74
98_A	186_T	1.038	0.73
12_A	17_G	1.035	0.73
35_Y	45_A	1.029	0.73
39_E	42_V	1.025	0.73
215_P	245_C	1.025	0.73
89_Q	92_K	1.017	0.72
9_F	177_I	1.016	0.72
257_Q	260_N	1.008	0.71
38_L	42_V	1.003	0.71
36_D	50_S	0.999	0.71
95_Q	109_A	0.999	0.71
41_L	44_L	0.993	0.70
8_E	12_A	0.992	0.70
246_P	260_N	0.992	0.70
166_L	170_D	0.991	0.70
50_S	53_L	0.991	0.70
33_D	60_E	0.978	0.69
87_L	90_V	0.972	0.68
96_G	124_Q	0.963	0.68
223_L	238_L	0.958	0.67
44_L	70_W	0.956	0.67
42_V	87_L	0.956	0.67
182_K	186_T	0.949	0.67
16_E	27_R	0.938	0.66
37_E	91_L	0.933	0.65
219_R	223_L	0.924	0.64
27_R	229_D	0.924	0.64
252_E	260_N	0.923	0.64
188_K	207_L	0.921	0.64
60_E	103_A	0.921	0.64
238_L	241_F	0.919	0.64
157_K	162_P	0.914	0.64
245_C	260_N	0.913	0.64
140_N	144_G	0.913	0.64
49_I	52_L	0.910	0.63
99_V	102_G	0.909	0.63
252_E	256_A	0.908	0.63
175_D	224_I	0.907	0.63
41_L	108_V	0.903	0.63
9_F	176_N	0.902	0.63
205_E	208_L	0.901	0.62
97_S	100_S	0.895	0.62
21_A	34_V	0.887	0.61
37_E	47_E	0.879	0.61
189_A	192_M	0.876	0.60
79_Y	182_K	0.872	0.60
140_N	152_L	0.866	0.59
8_E	15_C	0.866	0.59
67_Y	144_G	0.855	0.58
38_L	111_R	0.854	0.58
141_P	152_L	0.853	0.58
233_V	238_L	0.852	0.58
145_E	151_M	0.852	0.58
185_D	189_A	0.851	0.58
67_Y	102_G	0.850	0.58
8_E	100_S	0.849	0.58
101_L	122_P	0.849	0.58
234_A	245_C	0.848	0.58
103_A	183_L	0.846	0.58
98_A	140_N	0.845	0.57
10_N	36_D	0.842	0.57
26_R	86_W	0.839	0.57
102_G	186_T	0.837	0.57
118_P	123_T	0.836	0.57
181_R	207_L	0.834	0.56
50_S	61_K	0.832	0.56
85_L	190_S	0.832	0.56
140_N	151_M	0.829	0.56
106_L	118_P	0.828	0.56
171_L	227_Q	0.822	0.55
122_P	144_G	0.819	0.55
22_C	29_F	0.818	0.55
166_L	169_E	0.816	0.55
20_L	24_A	0.815	0.55
234_A	241_F	0.814	0.55
138_L	152_L	0.813	0.55
16_E	20_L	0.811	0.54
94_R	100_S	0.811	0.54
83_D	108_V	0.811	0.54
21_A	31_S	0.807	0.54
249_P	254_I	0.807	0.54
96_G	123_T	0.805	0.54
192_M	200_A	0.803	0.54
51_Q	68_G	0.802	0.54
183_L	254_I	0.800	0.53
118_P	186_T	0.798	0.53
90_V	98_A	0.798	0.53
225_Y	237_D	0.794	0.53
103_A	107_W	0.792	0.53
85_L	184_L	0.790	0.52
121_F	141_P	0.789	0.52
225_Y	231_E	0.786	0.52
154_V	158_G	0.782	0.52
47_E	130_E	0.778	0.51
24_A	206_A	0.770	0.51
251_S	259_N	0.769	0.51
156_L	183_L	0.767	0.50
28_D	68_G	0.765	0.50
234_A	238_L	0.762	0.50
208_L	218_I	0.761	0.50
131_C	135_E	0.759	0.50
223_L	227_Q	0.755	0.49
62_L	114_L	0.754	0.49
237_D	241_F	0.752	0.49
200_A	224_I	0.750	0.49
116_L	159_N	0.748	0.49
235_L	239_S	0.741	0.48
106_L	125_L	0.739	0.48
26_R	29_F	0.739	0.48
43_S	50_S	0.738	0.48
188_K	241_F	0.738	0.48
63_I	70_W	0.737	0.48
85_L	183_L	0.733	0.47
253_M	260_N	0.731	0.47
91_L	108_V	0.723	0.46
253_M	257_Q	0.722	0.46
11_K	195_N	0.720	0.46
74_A	98_A	0.720	0.46
220_D	241_F	0.719	0.46
109_A	186_T	0.718	0.46
51_Q	143_N	0.715	0.46
84_A	182_K	0.715	0.46
221_R	228_L	0.715	0.46
247_E	252_E	0.714	0.45
160_I	168_Y	0.712	0.45
150_H	227_Q	0.708	0.45
97_S	182_K	0.700	0.44
83_D	120_I	0.700	0.44
98_A	120_I	0.700	0.44
101_L	182_K	0.698	0.44
208_L	228_L	0.698	0.44
13_P	19_I	0.698	0.44
253_M	259_N	0.696	0.44
157_K	165_E	0.689	0.43
20_L	23_E	0.688	0.43
44_L	69_D	0.685	0.43
58_Q	65_L	0.682	0.42
39_E	49_I	0.680	0.42
75_S	85_L	0.680	0.42
99_V	142_F	0.678	0.42
116_L	127_L	0.676	0.42
248_D	257_Q	0.674	0.42
123_T	140_N	0.670	0.41
188_K	191_L	0.669	0.41
85_L	93_N	0.655	0.40
239_S	258_I	0.652	0.40
166_L	200_A	0.650	0.40
13_P	16_E	0.649	0.40
19_I	24_A	0.647	0.39
30_P	57_E	0.646	0.39
119_V	173_E	0.642	0.39
79_Y	100_S	0.639	0.39
110_N	171_L	0.636	0.38
184_L	203_T	0.636	0.38
104_V	176_N	0.633	0.38
150_H	154_V	0.633	0.38
90_V	97_S	0.633	0.38
105_L	111_R	0.630	0.38
58_Q	62_L	0.629	0.38
33_D	43_S	0.628	0.38
43_S	167_F	0.627	0.38
47_E	92_K	0.625	0.37
75_S	183_L	0.624	0.37
48_E	51_Q	0.623	0.37
98_A	107_W	0.622	0.37
102_G	187_L	0.619	0.37
244_Q	248_D	0.618	0.37
43_S	149_E	0.617	0.37
74_A	140_N	0.617	0.37
11_K	18_M	0.615	0.37
223_L	234_A	0.615	0.37
85_L	98_A	0.612	0.36
106_L	110_N	0.611	0.36
22_C	25_I	0.609	0.36
32_Q	35_Y	0.608	0.36
142_F	182_K	0.607	0.36
218_I	237_D	0.605	0.36
139_I	144_G	0.604	0.36
33_D	52_L	0.602	0.35
18_M	97_S	0.600	0.35
28_D	243_E	0.599	0.35
75_S	190_S	0.598	0.35
146_S	149_E	0.598	0.35
248_D	254_I	0.596	0.35
94_R	229_D	0.595	0.35
246_P	252_E	0.594	0.35
17_G	20_L	0.591	0.35
11_K	20_L	0.590	0.34
23_E	235_L	0.589	0.34
66_F	133_D	0.588	0.34
245_C	253_M	0.587	0.34
66_F	101_L	0.587	0.34
102_G	121_F	0.586	0.34
188_K	223_L	0.585	0.34
62_L	66_F	0.583	0.34
122_P	140_N	0.580	0.34
13_P	34_V	0.579	0.34
204_S	217_E	0.579	0.34
15_C	107_W	0.577	0.33
20_L	139_I	0.576	0.33
120_I	140_N	0.574	0.33
162_P	165_E	0.573	0.33
249_P	260_N	0.573	0.33
21_A	103_A	0.573	0.33
34_V	40_R	0.573	0.33
8_E	47_E	0.572	0.33
56_E	65_L	0.570	0.33
245_C	251_S	0.570	0.33
98_A	138_L	0.566	0.32
58_Q	61_K	0.565	0.32
109_A	122_P	0.563	0.32
54_P	58_Q	0.563	0.32
10_N	213_E	0.563	0.32
248_D	260_N	0.562	0.32
99_V	183_L	0.561	0.32
47_E	54_P	0.560	0.32
121_F	156_L	0.560	0.32
234_A	237_D	0.558	0.32
60_E	148_S	0.557	0.32
203_T	207_L	0.557	0.32
220_D	234_A	0.556	0.32
145_E	155_W	0.555	0.32
125_L	186_T	0.555	0.32
10_N	43_S	0.553	0.31
62_L	112_L	0.551	0.31
247_E	253_M	0.549	0.31
48_E	69_D	0.545	0.31
74_A	182_K	0.545	0.31
96_G	141_P	0.545	0.31
25_I	229_D	0.545	0.31
32_Q	178_E	0.545	0.31
32_Q	36_D	0.544	0.31
99_V	109_A	0.543	0.31
99_V	103_A	0.543	0.31
230_C	240_Y	0.542	0.31
135_E	153_D	0.539	0.30
123_T	182_K	0.538	0.30
36_D	169_E	0.537	0.30
254_I	257_Q	0.536	0.30
93_N	111_R	0.536	0.30
195_N	212_P	0.535	0.30
99_V	107_W	0.535	0.30
31_S	119_V	0.534	0.30
106_L	109_A	0.533	0.30
222_G	234_A	0.529	0.30
114_L	226_A	0.528	0.29
124_Q	128_R	0.528	0.29
102_G	184_L	0.527	0.29
56_E	238_L	0.526	0.29
197_M	228_L	0.524	0.29
64_A	235_L	0.522	0.29
104_V	159_N	0.522	0.29
32_Q	37_E	0.520	0.29
79_Y	99_V	0.519	0.29
63_I	85_L	0.514	0.28
51_Q	133_D	0.514	0.28
100_S	108_V	0.512	0.28
41_L	141_P	0.509	0.28
218_I	225_Y	0.508	0.28
91_L	97_S	0.505	0.28
200_A	212_P	0.503	0.28
215_P	249_P	0.501	0.27
97_S	184_L	0.500	0.27

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
4u04A	2	0.3346	99.5	0.729	Contact Map
4l9pA	1	0.4684	99.4	0.749	Contact Map
2pziA	1	0.8662	99.4	0.751	Contact Map
2vsyA	1	0.4647	99.3	0.753	Contact Map
3urzA	1	0.4647	99.3	0.756	Contact Map
4ja7A	1	0.3494	99.3	0.758	Contact Map
4i2zA	1	0.4684	99.3	0.758	Contact Map
2c2lA	1	0.342	99.3	0.759	Contact Map
1dceA	1	0.5465	99.3	0.759	Contact Map
4gywA	2	0.4684	99.3	0.762	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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