COMER - BACSU - GREMLIN Contacts

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COMER - ComE operon protein 4

UniProt:	P39696	Sequences: MKIGFIGTGNMGTILIESFIESKAADPSNMTITNRTIEKALHIKNRYNSINVTESLEKLVSENEMIFICVKPLDIYPLLARALPYLRKDHILISITSPVQTEQLEQYVPCQVARVIPSITNRALAGVSLVTFGTSCGESAKAKINELMQHISHPLQIESDITRVASDIVSCGPAFMSYLIQRFIDAAVSETSVSKQDAILMCKEMLVGMGKLLETELYTLPALQEKVCVKGGVTGEGIKALESGVQDMFHRVFQNTHMKYEEDISAVKKQFHV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	273 (260)
Sequences:	5200 (3876)
Seq/√Len:	240.4

ECOLI - P5CR
BACSU - COMER P5CR1 P5CR3 P5CR2
SULSO - Q97ZT3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
111_Q	140_A	3.231	1.00
75_I	96_T	2.808	1.00
125_A	211_K	2.774	1.00
218_Y	226_K	2.667	1.00
176_M	206_L	2.487	1.00
115_V	128_S	2.458	1.00
179_L	249_F	2.446	1.00
211_K	215_T	2.441	1.00
180_I	213_L	2.408	1.00
153_H	200_L	2.206	1.00
4_G	59_L	2.176	1.00
33_T	56_L	2.165	1.00
177_S	209_M	2.099	1.00
145_N	156_Q	2.085	1.00
105_E	133_G	2.082	1.00
194_S	197_D	2.065	1.00
184_I	199_I	2.019	1.00
127_V	153_H	2.009	1.00
145_N	149_Q	1.967	1.00
207_V	211_K	1.960	1.00
141_K	156_Q	1.937	1.00
155_L	200_L	1.896	1.00
87_R	90_H	1.875	1.00
211_K	214_E	1.860	1.00
172_G	205_M	1.844	1.00
8_T	32_I	1.834	1.00
37_I	41_L	1.822	1.00
222_A	226_K	1.782	1.00
242_E	246_Q	1.763	1.00
183_F	253_F	1.759	1.00
120_T	126_G	1.754	1.00
132_F	141_K	1.750	1.00
149_Q	154_P	1.745	1.00
218_Y	222_A	1.733	1.00
129_L	165_A	1.728	1.00
175_F	237_G	1.727	1.00
179_L	245_V	1.721	1.00
188_V	195_K	1.705	1.00
34_N	39_K	1.625	1.00
15_L	151_I	1.621	1.00
137_G	140_A	1.621	1.00
4_G	63_N	1.607	1.00
41_L	45_N	1.589	1.00
235_G	239_K	1.587	1.00
93_I	144_I	1.579	1.00
259_K	262_E	1.571	1.00
163_R	260_Y	1.556	1.00
130_V	156_Q	1.547	1.00
31_T	51_N	1.542	1.00
203_K	214_E	1.538	1.00
92_L	108_V	1.536	1.00
125_A	207_V	1.519	1.00
222_A	225_E	1.510	1.00
65_M	91_I	1.500	1.00
228_C	235_G	1.481	1.00
31_T	53_T	1.474	1.00
11_M	95_I	1.471	1.00
32_I	50_I	1.471	1.00
245_V	248_M	1.462	1.00
2_K	29_N	1.457	1.00
191_T	254_Q	1.442	1.00
243_S	251_R	1.441	1.00
79_L	108_V	1.440	1.00
35_R	74_D	1.439	1.00
76_Y	107_Y	1.438	1.00
94_S	104_L	1.429	1.00
76_Y	103_Q	1.419	1.00
138_E	142_A	1.414	1.00
55_S	58_K	1.409	1.00
185_D	195_K	1.385	1.00
204_E	207_V	1.369	1.00
180_I	206_L	1.366	1.00
39_K	42_H	1.359	1.00
100_Q	103_Q	1.358	1.00
157_I	162_T	1.354	1.00
240_A	243_S	1.351	1.00
189_S	254_Q	1.348	1.00
254_Q	258_M	1.327	1.00
113_A	144_I	1.321	1.00
176_M	179_L	1.311	1.00
247_D	251_R	1.309	1.00
189_S	250_H	1.309	1.00
42_H	46_R	1.306	1.00
127_V	204_E	1.304	1.00
181_Q	224_Q	1.302	1.00
13_T	39_K	1.302	1.00
171_C	233_V	1.289	1.00
245_V	249_F	1.287	1.00
219_T	222_A	1.286	1.00
17_E	46_R	1.265	1.00
5_F	12_G	1.258	1.00
257_H	261_E	1.256	1.00
185_D	246_Q	1.256	1.00
75_I	99_V	1.248	1.00
96_T	99_V	1.219	1.00
103_Q	107_Y	1.212	1.00
69_C	95_I	1.209	1.00
86_L	92_L	1.207	1.00
167_D	253_F	1.206	1.00
5_F	16_I	1.197	1.00
130_V	154_P	1.193	1.00
181_Q	221_P	1.190	1.00
41_L	44_K	1.184	1.00
26_D	29_N	1.161	1.00
36_T	39_K	1.160	1.00
237_G	252_V	1.160	1.00
105_E	134_T	1.157	1.00
145_N	154_P	1.156	1.00
31_T	62_E	1.147	1.00
142_A	146_E	1.143	1.00
121_N	126_G	1.140	1.00
105_E	135_S	1.137	1.00
59_L	63_N	1.137	1.00
125_A	204_E	1.136	1.00
158_E	161_I	1.130	1.00
15_L	19_F	1.116	1.00
239_K	243_S	1.115	1.00
12_G	16_I	1.114	1.00
241_L	252_V	1.113	1.00
65_M	143_K	1.112	1.00
157_I	165_A	1.111	1.00
101_T	131_T	1.105	1.00
102_E	106_Q	1.101	1.00
187_A	193_V	1.098	1.00
236_E	239_K	1.097	1.00
5_F	67_F	1.076	1.00
130_V	148_M	1.075	1.00
91_I	140_A	1.075	1.00
127_V	155_L	1.075	1.00
228_C	238_I	1.072	1.00
191_T	257_H	1.064	1.00
180_I	202_C	1.061	1.00
101_T	112_V	1.055	1.00
130_V	145_N	1.047	1.00
163_R	261_E	1.040	1.00
224_Q	228_C	1.036	1.00
70_V	96_T	1.031	1.00
65_M	93_I	1.024	1.00
168_I	253_F	1.021	1.00
15_L	95_I	1.017	1.00
132_F	156_Q	1.017	1.00
207_V	214_E	1.012	1.00
57_E	81_R	1.008	1.00
115_V	148_M	1.007	1.00
241_L	249_F	1.006	1.00
10_N	226_K	1.004	1.00
68_I	75_I	1.001	1.00
240_A	251_R	0.999	1.00
34_N	40_A	0.997	1.00
40_A	54_E	0.997	1.00
155_L	197_D	0.995	1.00
13_T	47_Y	0.993	1.00
40_A	52_V	0.989	1.00
21_E	124_L	0.988	1.00
101_T	104_L	0.987	1.00
19_F	147_L	0.985	1.00
169_V	201_M	0.983	1.00
178_Y	238_I	0.983	1.00
74_D	77_P	0.976	1.00
17_E	47_Y	0.974	1.00
131_T	162_T	0.972	1.00
74_D	78_L	0.969	1.00
165_A	201_M	0.968	1.00
153_H	204_E	0.968	1.00
240_A	255_N	0.965	1.00
58_K	62_E	0.950	1.00
16_I	32_I	0.949	1.00
66_I	90_H	0.949	1.00
136_C	140_A	0.943	1.00
76_Y	80_A	0.942	1.00
165_A	169_V	0.936	1.00
236_E	259_K	0.935	1.00
18_S	151_I	0.932	1.00
177_S	212_L	0.931	1.00
213_L	220_L	0.917	1.00
57_E	61_S	0.917	1.00
244_G	247_D	0.917	1.00
164_V	193_V	0.915	1.00
39_K	43_I	0.915	1.00
99_V	103_Q	0.913	1.00
67_F	93_I	0.910	1.00
103_Q	106_Q	0.904	1.00
203_K	210_G	0.901	1.00
244_G	248_M	0.900	1.00
178_Y	242_E	0.900	1.00
13_T	46_R	0.895	1.00
104_L	112_V	0.895	1.00
33_T	53_T	0.891	1.00
185_D	188_V	0.888	1.00
255_N	258_M	0.882	0.99
196_Q	200_L	0.882	0.99
8_T	43_I	0.877	0.99
197_D	200_L	0.874	0.99
219_T	225_E	0.873	0.99
3_I	19_F	0.870	0.99
60_V	66_I	0.862	0.99
184_I	188_V	0.862	0.99
37_I	40_A	0.861	0.99
17_E	122_R	0.854	0.99
38_E	41_L	0.852	0.99
168_I	187_A	0.846	0.99
191_T	253_F	0.845	0.99
113_A	132_F	0.836	0.99
225_E	235_G	0.835	0.99
258_M	262_E	0.830	0.99
40_A	44_K	0.830	0.99
61_S	85_Y	0.828	0.99
75_I	79_L	0.826	0.99
57_E	85_Y	0.826	0.99
6_I	78_L	0.826	0.99
20_I	27_P	0.824	0.99
127_V	201_M	0.822	0.99
42_H	45_N	0.820	0.99
199_I	203_K	0.817	0.99
4_G	33_T	0.816	0.99
80_A	107_Y	0.815	0.99
221_P	225_E	0.814	0.99
80_A	83_L	0.808	0.99
182_R	246_Q	0.807	0.99
2_K	31_T	0.802	0.99
91_I	144_I	0.799	0.99
233_V	260_Y	0.798	0.99
139_S	142_A	0.796	0.99
167_D	257_H	0.787	0.99
236_E	240_A	0.784	0.99
121_N	151_I	0.782	0.99
64_E	90_H	0.781	0.99
13_T	42_H	0.781	0.99
237_G	240_A	0.779	0.99
136_C	141_K	0.767	0.99
238_I	242_E	0.764	0.98
207_V	210_G	0.762	0.98
10_N	229_V	0.762	0.98
75_I	94_S	0.761	0.98
34_N	37_I	0.759	0.98
187_A	202_C	0.759	0.98
43_I	47_Y	0.759	0.98
31_T	63_N	0.754	0.98
132_F	138_E	0.747	0.98
76_Y	99_V	0.743	0.98
237_G	256_T	0.737	0.98
25_A	29_N	0.737	0.98
181_Q	185_D	0.733	0.98
239_K	251_R	0.731	0.98
189_S	239_K	0.728	0.98
83_L	109_P	0.727	0.98
2_K	62_E	0.726	0.98
114_R	159_S	0.725	0.98
178_Y	246_Q	0.723	0.98
60_V	82_A	0.720	0.98
44_K	52_V	0.718	0.98
16_I	30_M	0.718	0.98
132_F	136_C	0.717	0.98
123_A	211_K	0.714	0.98
12_G	69_C	0.712	0.98
56_L	81_R	0.709	0.98
166_S	260_Y	0.709	0.98
203_K	213_L	0.708	0.98
95_I	115_V	0.708	0.98
193_V	201_M	0.707	0.98
142_A	145_N	0.707	0.98
163_R	264_I	0.705	0.97
185_D	189_S	0.705	0.97
51_N	62_E	0.702	0.97
79_L	96_T	0.702	0.97
258_M	261_E	0.697	0.97
146_E	149_Q	0.697	0.97
133_G	136_C	0.696	0.97
116_I	170_S	0.695	0.97
169_V	205_M	0.693	0.97
171_C	256_T	0.693	0.97
13_T	17_E	0.691	0.97
58_K	61_S	0.690	0.97
101_T	133_G	0.690	0.97
161_I	164_V	0.687	0.97
97_S	233_V	0.685	0.97
66_I	92_L	0.684	0.97
129_L	162_T	0.683	0.97
166_S	172_G	0.682	0.97
127_V	200_L	0.680	0.97
3_I	25_A	0.677	0.97
77_P	80_A	0.676	0.97
162_T	260_Y	0.674	0.97
111_Q	136_C	0.669	0.97
97_S	263_D	0.666	0.96
16_I	43_I	0.665	0.96
195_K	199_I	0.664	0.96
16_I	50_I	0.664	0.96
37_I	54_E	0.659	0.96
187_A	198_A	0.658	0.96
239_K	242_E	0.655	0.96
101_T	105_E	0.654	0.96
77_P	81_R	0.650	0.96
125_A	153_H	0.646	0.96
100_Q	264_I	0.645	0.96
221_P	224_Q	0.644	0.96
113_A	136_C	0.643	0.96
143_K	146_E	0.640	0.96
111_Q	133_G	0.636	0.95
184_I	202_C	0.634	0.95
67_F	148_M	0.633	0.95
56_L	60_V	0.632	0.95
184_I	220_L	0.630	0.95
56_L	59_L	0.624	0.95
91_I	113_A	0.623	0.95
140_A	143_K	0.619	0.95
33_T	55_S	0.618	0.95
247_D	250_H	0.618	0.95
186_A	253_F	0.618	0.95
164_V	191_T	0.617	0.95
177_S	223_L	0.615	0.94
53_T	59_L	0.612	0.94
14_I	18_S	0.610	0.94
105_E	112_V	0.606	0.94
168_I	183_F	0.605	0.94
254_Q	257_H	0.605	0.94
4_G	66_I	0.604	0.94
253_F	256_T	0.602	0.94
71_K	229_V	0.598	0.94
65_M	147_L	0.595	0.93
235_G	238_I	0.595	0.93
129_L	155_L	0.594	0.93
78_L	81_R	0.594	0.93
31_T	59_L	0.591	0.93
161_I	197_D	0.591	0.93
43_I	46_R	0.590	0.93
54_E	58_K	0.586	0.93
128_S	151_I	0.586	0.93
4_G	31_T	0.584	0.93
32_I	43_I	0.584	0.93
112_V	133_G	0.583	0.93
2_K	64_E	0.580	0.93
177_S	213_L	0.579	0.93
180_I	220_L	0.579	0.93
174_A	234_T	0.578	0.92
33_T	59_L	0.576	0.92
153_H	214_E	0.576	0.92
120_T	173_P	0.576	0.92
172_G	256_T	0.575	0.92
166_S	171_C	0.573	0.92
249_F	253_F	0.571	0.92
229_V	233_V	0.569	0.92
128_S	152_S	0.566	0.92
113_A	141_K	0.565	0.92
60_V	90_H	0.564	0.92
34_N	95_I	0.561	0.91
161_I	194_S	0.560	0.91
131_T	159_S	0.558	0.91
129_L	169_V	0.557	0.91
174_A	237_G	0.553	0.91
162_T	165_A	0.550	0.91
172_G	253_F	0.549	0.90
68_I	82_A	0.547	0.90
206_L	245_V	0.545	0.90
124_L	151_I	0.542	0.90
119_I	226_K	0.542	0.90
10_N	71_K	0.542	0.90
175_F	256_T	0.541	0.90
123_A	212_L	0.541	0.90
68_I	96_T	0.540	0.90
86_L	108_V	0.540	0.90
241_L	245_V	0.539	0.90
6_I	33_T	0.538	0.90
164_V	187_A	0.536	0.89
186_A	250_H	0.536	0.89
35_R	40_A	0.535	0.89
92_L	110_C	0.531	0.89
116_I	162_T	0.531	0.89
22_S	124_L	0.530	0.89
85_Y	90_H	0.528	0.89
82_A	86_L	0.527	0.89
138_E	141_K	0.526	0.89
15_L	148_M	0.525	0.88
60_V	85_Y	0.524	0.88
157_I	161_I	0.521	0.88
118_S	170_S	0.514	0.87
91_I	111_Q	0.514	0.87
108_V	112_V	0.511	0.87
239_K	250_H	0.510	0.87
60_V	63_N	0.508	0.87
70_V	78_L	0.507	0.87
184_I	195_K	0.507	0.87
170_S	233_V	0.506	0.87
121_N	128_S	0.506	0.87
91_I	143_K	0.506	0.87
184_I	187_A	0.505	0.86
100_Q	104_L	0.504	0.86
149_Q	153_H	0.504	0.86
63_N	90_H	0.500	0.86
180_I	210_G	0.500	0.86

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
2izzA	5	0.978	100	0.382	Contact Map
2rcyA	5	0.9341	100	0.399	Contact Map
1yqgA	2	0.9487	100	0.409	Contact Map
2ahrA	5	0.9267	100	0.411	Contact Map
3triA	2	0.9707	100	0.422	Contact Map
3gt0A	3	0.7802	100	0.46	Contact Map
4kqwA	2	0.956	100	0.475	Contact Map
4wjiA	2	0.9524	100	0.516	Contact Map
3fr7A	2	0.9414	100	0.531	Contact Map
2i76A	2	0.8462	100	0.571	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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