YWQC - BACSU - GREMLIN Contacts

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YWQC - Probable capsular polysaccharide biosynthesis protein YwqC

UniProt:	P96715	Sequences: MGESTSLKEILSTLTKRILLIMIVTAAATAAGGLISFFALTPIYENSTQILVNQSKNERKEVQFNDVQTNLQLINTYNVIIKSPAILDEVIKEMGLSMTSQELNDKITVSSEQDSQVVNISVRDENAETAAHIANTIASVFQDKITSIMNVDNVSILSKAEVSEHPSPVSPKPLLNIAIAFAAGLAGSIGLAFLLEHLDNTIKSEEQLESLLDIPVLGTVSTIANEQKTAKTLQGFQSEKTGSGHFGA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	248 (218)
Sequences:	4719 (4025)
Seq/√Len:	272.6

ECOLI - FEPE ETK WZC WZZE WZZB
BACSU - YWQC YVEK

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
45_E	169_V	3.969	1.00
36_S	176_N	3.564	1.00
15_T	18_I	3.241	1.00
124_D	130_A	3.172	1.00
131_A	162_V	3.127	1.00
131_A	135_N	2.883	1.00
32_G	180_A	2.859	1.00
35_I	40_L	2.666	1.00
28_A	180_A	2.605	1.00
199_D	203_K	2.571	1.00
124_D	129_T	2.434	1.00
33_G	37_F	2.329	1.00
29_T	181_F	2.256	1.00
17_R	195_L	2.211	1.00
6_S	9_E	2.195	1.00
45_E	123_R	2.172	1.00
188_S	192_A	2.113	1.00
106_K	124_D	2.083	1.00
140_V	143_D	2.009	1.00
172_K	175_L	1.977	1.00
122_V	134_A	1.969	1.00
33_G	177_I	1.953	1.00
24_V	28_A	1.952	1.00
84_P	158_S	1.939	1.00
135_N	160_A	1.873	1.00
127_A	134_A	1.866	1.00
49_Q	158_S	1.817	1.00
180_A	184_G	1.807	1.00
88_D	92_K	1.796	1.00
134_A	138_A	1.783	1.00
136_T	140_V	1.782	1.00
45_E	121_S	1.782	1.00
28_A	32_G	1.776	1.00
21_I	25_T	1.768	1.00
122_V	133_I	1.764	1.00
43_I	123_R	1.711	1.00
29_T	177_I	1.687	1.00
128_E	132_H	1.668	1.00
93_E	136_T	1.635	1.00
123_R	170_S	1.613	1.00
129_T	132_H	1.609	1.00
84_P	161_E	1.588	1.00
36_S	177_I	1.541	1.00
87_L	103_L	1.528	1.00
91_I	96_L	1.512	1.00
21_I	192_A	1.508	1.00
13_T	196_E	1.489	1.00
28_A	184_G	1.483	1.00
134_A	160_A	1.452	1.00
18_I	22_M	1.409	1.00
41_T	125_E	1.404	1.00
25_T	185_L	1.390	1.00
17_R	192_A	1.385	1.00
36_S	180_A	1.371	1.00
37_F	173_P	1.370	1.00
25_T	29_T	1.345	1.00
107_I	122_V	1.337	1.00
43_I	170_S	1.337	1.00
106_K	122_V	1.328	1.00
87_L	104_N	1.326	1.00
48_T	138_A	1.316	1.00
34_L	39_A	1.311	1.00
78_N	82_K	1.295	1.00
46_N	163_S	1.285	1.00
25_T	188_S	1.275	1.00
204_S	207_Q	1.272	1.00
47_S	119_N	1.264	1.00
191_L	195_L	1.259	1.00
24_V	188_S	1.257	1.00
127_A	130_A	1.241	1.00
163_S	169_V	1.240	1.00
64_F	68_Q	1.236	1.00
123_R	169_V	1.230	1.00
184_G	188_S	1.223	1.00
73_L	77_Y	1.220	1.00
126_N	129_T	1.216	1.00
122_V	137_I	1.214	1.00
35_I	39_A	1.203	1.00
85_A	158_S	1.193	1.00
79_V	82_K	1.177	1.00
46_N	160_A	1.175	1.00
15_T	19_L	1.153	1.00
117_V	157_L	1.148	1.00
25_T	28_A	1.133	1.00
87_L	137_I	1.129	1.00
32_G	176_N	1.120	1.00
36_S	40_L	1.115	1.00
89_E	140_V	1.109	1.00
93_E	140_V	1.103	1.00
36_S	173_P	1.101	1.00
112_E	115_S	1.098	1.00
17_R	196_E	1.093	1.00
49_Q	119_N	1.085	1.00
31_A	35_I	1.081	1.00
16_K	196_E	1.080	1.00
49_Q	117_V	1.079	1.00
8_K	12_S	1.079	1.00
20_L	195_L	1.078	1.00
144_K	147_S	1.069	1.00
89_E	93_E	1.067	1.00
76_T	116_Q	1.063	1.00
84_P	104_N	1.059	1.00
170_S	173_P	1.055	1.00
27_A	31_A	1.052	1.00
25_T	181_F	1.050	1.00
32_G	184_G	1.048	1.00
102_E	106_K	1.042	1.00
5_T	10_I	1.042	1.00
120_I	134_A	1.037	1.00
13_T	193_F	1.018	1.00
51_L	76_T	1.010	1.00
40_L	43_I	1.005	1.00
43_I	125_E	0.995	1.00
131_A	160_A	0.994	1.00
164_E	167_S	0.991	1.00
28_A	187_G	0.984	1.00
43_I	169_V	0.977	1.00
173_P	177_I	0.975	1.00
205_E	219_T	0.975	1.00
110_S	119_N	0.974	1.00
17_R	20_L	0.969	1.00
182_A	186_A	0.968	1.00
89_E	92_K	0.964	1.00
132_H	136_T	0.961	1.00
136_T	139_S	0.960	1.00
59_R	62_V	0.960	1.00
183_A	190_G	0.957	1.00
20_L	24_V	0.957	1.00
205_E	209_E	0.955	1.00
88_D	100_S	0.942	1.00
193_F	197_H	0.939	1.00
128_E	131_A	0.937	1.00
13_T	192_A	0.935	1.00
23_I	30_A	0.930	1.00
146_T	152_D	0.920	1.00
130_A	134_A	0.916	1.00
163_S	168_P	0.914	1.00
81_I	86_I	0.909	1.00
168_P	173_P	0.908	1.00
86_I	140_V	0.897	1.00
14_L	193_F	0.897	1.00
84_P	88_D	0.895	1.00
83_S	158_S	0.894	1.00
107_I	137_I	0.891	1.00
47_S	121_S	0.888	1.00
202_I	211_L	0.883	1.00
130_A	133_I	0.882	1.00
90_V	137_I	0.881	1.00
131_A	134_A	0.880	1.00
48_T	156_I	0.875	1.00
170_S	176_N	0.875	1.00
139_S	142_Q	0.872	1.00
175_L	179_I	0.862	1.00
173_P	176_N	0.862	1.00
142_Q	145_I	0.857	1.00
148_I	153_N	0.856	1.00
32_G	36_S	0.852	1.00
207_Q	210_S	0.848	1.00
88_D	161_E	0.847	1.00
48_T	134_A	0.845	1.00
120_I	138_A	0.831	0.99
194_L	198_L	0.825	0.99
21_I	188_S	0.824	0.99
176_N	179_I	0.824	0.99
91_I	103_L	0.822	0.99
205_E	216_V	0.817	0.99
178_A	186_A	0.816	0.99
138_A	142_Q	0.812	0.99
98_M	102_E	0.810	0.99
85_A	159_K	0.809	0.99
127_A	163_S	0.808	0.99
37_F	177_I	0.806	0.99
216_V	219_T	0.806	0.99
81_I	120_I	0.802	0.99
42_P	168_P	0.802	0.99
90_V	94_M	0.800	0.99
13_T	17_R	0.793	0.99
77_Y	80_I	0.791	0.99
145_I	148_I	0.790	0.99
46_N	131_A	0.785	0.99
149_M	152_D	0.783	0.99
17_R	199_D	0.773	0.99
80_I	157_L	0.762	0.99
50_I	120_I	0.761	0.99
49_Q	79_V	0.760	0.99
75_N	111_S	0.751	0.99
6_S	10_I	0.744	0.99
91_I	100_S	0.739	0.99
63_Q	66_D	0.737	0.99
80_I	83_S	0.731	0.99
127_A	131_A	0.731	0.99
171_P	176_N	0.731	0.99
222_T	225_N	0.730	0.99
42_P	173_P	0.729	0.99
195_L	199_D	0.728	0.99
40_L	170_S	0.724	0.99
77_Y	141_F	0.723	0.99
90_V	133_I	0.722	0.99
35_I	176_N	0.718	0.99
110_S	121_S	0.717	0.99
20_L	192_A	0.715	0.98
149_M	153_N	0.714	0.98
21_I	189_I	0.714	0.98
108_T	123_R	0.712	0.98
138_A	156_I	0.706	0.98
46_N	162_V	0.706	0.98
11_L	15_T	0.705	0.98
99_T	102_E	0.705	0.98
103_L	122_V	0.704	0.98
79_V	117_V	0.703	0.98
79_V	112_E	0.703	0.98
139_S	143_D	0.700	0.98
20_L	191_L	0.697	0.98
220_V	223_I	0.692	0.98
29_T	180_A	0.689	0.98
22_M	26_A	0.687	0.98
24_V	191_L	0.687	0.98
190_G	194_L	0.686	0.98
74_I	77_Y	0.673	0.98
83_S	157_L	0.670	0.98
48_T	160_A	0.668	0.98
66_D	69_T	0.667	0.98
36_S	39_A	0.665	0.98
50_I	138_A	0.663	0.98
182_A	190_G	0.661	0.97
98_M	106_K	0.659	0.97
139_S	159_K	0.655	0.97
81_I	138_A	0.650	0.97
14_L	189_I	0.649	0.97
182_A	189_I	0.645	0.97
144_K	148_I	0.644	0.97
50_I	81_I	0.644	0.97
174_L	177_I	0.642	0.97
29_T	36_S	0.642	0.97
127_A	133_I	0.641	0.97
211_L	214_I	0.639	0.97
46_N	130_A	0.636	0.97
51_L	54_Q	0.635	0.97
76_T	115_S	0.633	0.97
77_Y	154_V	0.630	0.97
128_E	162_V	0.630	0.97
189_I	192_A	0.628	0.97
163_S	167_S	0.626	0.97
10_I	13_T	0.623	0.96
45_E	164_E	0.620	0.96
22_M	25_T	0.619	0.96
100_S	104_N	0.618	0.96
74_I	78_N	0.618	0.96
51_L	77_Y	0.617	0.96
134_A	140_V	0.616	0.96
137_I	140_V	0.613	0.96
85_A	89_E	0.612	0.96
112_E	119_N	0.611	0.96
54_Q	70_N	0.611	0.96
81_I	141_F	0.606	0.96
7_L	11_L	0.601	0.96
213_D	216_V	0.601	0.96
182_A	185_L	0.600	0.96
75_N	78_N	0.596	0.95
19_L	30_A	0.594	0.95
9_E	210_S	0.592	0.95
174_L	178_A	0.592	0.95
175_L	178_A	0.592	0.95
202_I	207_Q	0.590	0.95
156_I	160_A	0.586	0.95
60_K	63_Q	0.582	0.95
59_R	63_Q	0.582	0.95
8_K	198_L	0.581	0.95
19_L	23_I	0.579	0.95
8_K	17_R	0.577	0.95
87_L	100_S	0.575	0.94
206_E	209_E	0.574	0.94
96_L	100_S	0.572	0.94
61_E	66_D	0.564	0.94
185_L	188_S	0.563	0.94
141_F	145_I	0.558	0.94
129_T	133_I	0.555	0.93
120_I	124_D	0.554	0.93
20_L	31_A	0.551	0.93
77_Y	86_I	0.551	0.93
146_T	149_M	0.550	0.93
94_M	133_I	0.548	0.93
29_T	184_G	0.544	0.93
135_N	159_K	0.544	0.93
207_Q	211_L	0.542	0.93
85_A	88_D	0.541	0.92
131_A	163_S	0.541	0.92
72_Q	75_N	0.539	0.92
47_S	84_P	0.537	0.92
29_T	33_G	0.535	0.92
65_N	68_Q	0.535	0.92
181_F	184_G	0.535	0.92
73_L	76_T	0.534	0.92
94_M	136_T	0.534	0.92
16_K	19_L	0.533	0.92
167_S	174_L	0.532	0.92
102_E	105_D	0.531	0.92
91_I	94_M	0.529	0.92
30_A	34_L	0.529	0.92
70_N	73_L	0.529	0.92
206_E	210_S	0.529	0.92
105_D	109_V	0.528	0.92
181_F	188_S	0.527	0.91
209_E	213_D	0.526	0.91
103_L	107_I	0.526	0.91
138_A	160_A	0.526	0.91
40_L	171_P	0.525	0.91
52_V	154_V	0.524	0.91
90_V	140_V	0.524	0.91
197_H	200_N	0.523	0.91
129_T	134_A	0.522	0.91
31_A	34_L	0.519	0.91
115_S	118_V	0.516	0.91
18_I	30_A	0.514	0.90
200_N	205_E	0.513	0.90
40_L	176_N	0.513	0.90
124_D	133_I	0.512	0.90
79_V	115_S	0.510	0.90
68_Q	72_Q	0.509	0.90
45_E	163_S	0.508	0.90
20_L	23_I	0.508	0.90
210_S	214_I	0.506	0.90
146_T	153_N	0.505	0.90
21_I	28_A	0.504	0.90
147_S	151_V	0.504	0.90
68_Q	71_L	0.503	0.89
141_F	144_K	0.500	0.89

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
4wl1A	3	0.504	100	0.472	Contact Map
3cioA	2	0.1774	95.9	0.871	Contact Map
3la6A	4	0.1774	94.3	0.883	Contact Map
4jlvA	1	0.1613	93	0.889	Contact Map
4jmpA	1	0.1411	92.5	0.891	Contact Map
4jimA	3	0.2379	40.5	0.931	Contact Map
3b8mA	3	0.6694	24.3	0.939	Contact Map
3b8oA	3	0.5847	20	0.941	Contact Map
2ww9B	1	0.2419	17.4	0.943	Contact Map
4w252	1	0.25	15.6	0.944	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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