LOLA - ECOLI - GREMLIN Contacts

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LOLA - Outer-membrane lipoprotein carrier protein

UniProt:	P61316	Sequences: MKKIAITCALLSSLVASSVWADAASDLKSRLDKVSSFHASFTQKVTDGSGAAVQEGQGDLWVKRPNLFNWHMTQPDESILVSDGKTLWFYNPFVEQATATWLKDATGNTPFMLIARNQSSDWQQYNIKQNGDDFVLTPKASNGNLKQFTINVGRDGTIHQFSAVEQDDQRSSYQLKSQQNGAVDAAKFTFTPPQGVTVDDQRK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12684
Length:	203 (185)
Sequences:	1762 (1406)
Seq/√Len:	103.4

ECOLI - LOLA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
63_K	185_A	5.556	1.00
40_S	177_S	4.970	1.00
38_H	178_Q	3.300	1.00
183_V	187_K	3.280	1.00
18_S	21_A	3.269	1.00
69_N	79_I	3.129	1.00
36_S	180_N	3.033	1.00
86_T	99_A	3.011	1.00
39_A	60_L	2.848	1.00
135_V	147_Q	2.482	1.00
184_D	187_K	2.365	1.00
88_W	190_F	2.332	1.00
63_K	67_L	2.297	1.00
71_H	79_I	2.289	1.00
133_D	151_N	2.192	1.00
61_W	187_K	2.101	1.00
82_S	102_L	2.005	1.00
88_W	97_A	1.986	1.00
25_S	29_S	1.975	1.00
83_D	189_T	1.961	1.00
44_K	174_Q	1.930	1.00
160_Q	172_S	1.929	1.00
80_L	89_F	1.884	1.00
57_Q	74_Q	1.871	1.00
61_W	183_V	1.866	1.00
128_K	135_V	1.822	1.00
135_V	149_T	1.816	1.00
152_V	158_I	1.776	1.00
97_A	192_P	1.750	1.00
40_S	59_D	1.735	1.00
71_H	77_E	1.718	1.00
23_A	31_L	1.650	1.00
41_F	58_G	1.642	1.00
147_Q	164_V	1.607	1.00
36_S	181_G	1.594	1.00
17_S	20_W	1.582	1.00
59_D	71_H	1.574	1.00
26_D	29_S	1.571	1.00
17_S	21_A	1.558	1.00
161_F	175_L	1.536	1.00
160_Q	174_Q	1.525	1.00
90_Y	190_F	1.486	1.00
37_F	60_L	1.431	1.00
9_A	12_S	1.422	1.00
10_L	13_S	1.418	1.00
164_V	170_R	1.363	0.99
36_S	183_V	1.355	0.99
90_Y	97_A	1.343	0.99
78_S	93_F	1.323	0.99
88_W	192_P	1.309	0.99
165_E	173_Y	1.296	0.99
87_L	102_L	1.294	0.99
137_T	147_Q	1.292	0.99
162_S	172_S	1.273	0.99
44_K	55_E	1.269	0.99
165_E	169_Q	1.250	0.99
29_S	33_K	1.241	0.99
91_N	94_V	1.233	0.99
34_V	179_Q	1.217	0.99
16_A	21_A	1.200	0.99
38_H	61_W	1.199	0.99
40_S	73_T	1.194	0.99
8_C	11_L	1.191	0.99
29_S	32_D	1.181	0.99
42_T	55_E	1.174	0.98
45_V	56_G	1.165	0.98
130_N	135_V	1.161	0.98
41_F	70_W	1.148	0.98
149_T	162_S	1.144	0.98
14_L	21_A	1.104	0.98
38_H	59_D	1.101	0.98
39_A	115_A	1.100	0.98
126_N	137_T	1.092	0.98
37_F	62_V	1.088	0.97
178_Q	181_G	1.086	0.97
127_I	136_L	1.082	0.97
126_N	139_K	1.074	0.97
149_T	164_V	1.065	0.97
110_P	114_I	1.060	0.97
57_Q	73_T	1.048	0.97
14_L	18_S	1.046	0.97
180_N	183_V	1.040	0.97
90_Y	193_P	1.033	0.97
7_T	12_S	1.030	0.97
40_S	57_Q	1.027	0.96
78_S	100_T	1.023	0.96
109_T	113_L	1.008	0.96
14_L	17_S	1.007	0.96
162_S	170_R	0.995	0.96
36_S	182_A	0.992	0.96
111_F	165_E	0.966	0.95
83_D	86_T	0.965	0.95
64_R	109_T	0.959	0.95
136_L	148_F	0.954	0.95
7_T	10_L	0.945	0.94
154_R	159_H	0.935	0.94
126_N	132_D	0.930	0.94
7_T	18_S	0.929	0.94
34_V	134_F	0.928	0.94
22_D	25_S	0.924	0.94
16_A	20_W	0.922	0.94
79_I	187_K	0.916	0.93
72_M	115_A	0.906	0.93
10_L	15_V	0.901	0.93
76_D	93_F	0.896	0.93
6_I	14_L	0.895	0.93
6_I	13_S	0.895	0.93
154_R	157_T	0.894	0.93
15_V	18_S	0.892	0.92
133_D	139_K	0.890	0.92
69_N	187_K	0.889	0.92
9_A	13_S	0.886	0.92
40_S	176_K	0.875	0.92
111_F	158_I	0.872	0.92
115_A	158_I	0.872	0.92
35_S	63_K	0.866	0.91
39_A	96_Q	0.850	0.91
45_V	54_Q	0.846	0.90
91_N	152_V	0.838	0.90
78_S	94_V	0.828	0.89
125_Y	138_P	0.826	0.89
43_Q	72_M	0.823	0.89
15_V	20_W	0.823	0.89
41_F	72_M	0.822	0.89
30_R	34_V	0.821	0.89
17_S	155_D	0.818	0.89
118_Q	136_L	0.818	0.89
43_Q	58_G	0.810	0.88
45_V	169_Q	0.804	0.88
127_I	134_F	0.802	0.88
143_G	146_K	0.794	0.87
88_W	99_A	0.792	0.87
47_D	169_Q	0.788	0.87
22_D	129_Q	0.788	0.87
42_T	57_Q	0.784	0.87
60_L	150_I	0.782	0.86
30_R	72_M	0.782	0.86
11_L	17_S	0.782	0.86
7_T	13_S	0.774	0.86
24_A	122_W	0.773	0.86
70_W	116_R	0.765	0.85
110_P	113_L	0.765	0.85
97_A	190_F	0.763	0.85
140_A	146_K	0.762	0.85
43_Q	70_W	0.751	0.84
96_Q	190_F	0.751	0.84
111_F	115_A	0.750	0.84
128_K	137_T	0.749	0.84
116_R	145_L	0.749	0.84
8_C	13_S	0.746	0.84
109_T	169_Q	0.745	0.84
31_L	134_F	0.745	0.84
38_H	181_G	0.743	0.84
116_R	163_A	0.738	0.83
82_S	136_L	0.738	0.83
186_A	189_T	0.736	0.83
60_L	158_I	0.736	0.83
9_A	16_A	0.733	0.83
36_S	63_K	0.732	0.83
82_S	167_D	0.730	0.82
9_A	17_S	0.730	0.82
23_A	134_F	0.718	0.81
15_V	29_S	0.718	0.81
60_L	64_R	0.716	0.81
27_L	161_F	0.710	0.81
144_N	165_E	0.709	0.81
23_A	129_Q	0.708	0.81
94_V	100_T	0.702	0.80
7_T	16_A	0.701	0.80
6_I	9_A	0.698	0.80
174_Q	194_Q	0.695	0.79
80_L	173_Y	0.693	0.79
45_V	125_Y	0.692	0.79
72_M	171_S	0.685	0.78
154_R	174_Q	0.680	0.78
14_L	189_T	0.678	0.78
66_N	114_I	0.676	0.77
68_F	167_D	0.675	0.77
121_D	165_E	0.672	0.77
54_Q	89_F	0.667	0.76
35_S	180_N	0.660	0.76
6_I	10_L	0.657	0.75
117_N	121_D	0.657	0.75
109_T	165_E	0.653	0.75
69_N	84_G	0.649	0.74
74_Q	95_E	0.643	0.74
80_L	106_T	0.642	0.74
138_P	145_L	0.638	0.73
11_L	14_L	0.638	0.73
57_Q	186_A	0.638	0.73
27_L	136_L	0.637	0.73
135_V	163_A	0.635	0.73
85_K	189_T	0.633	0.73
30_R	156_G	0.632	0.73
91_N	110_P	0.630	0.72
13_S	17_S	0.628	0.72
137_T	194_Q	0.628	0.72
26_D	154_R	0.627	0.72
68_F	90_Y	0.621	0.71
129_Q	134_F	0.621	0.71
48_G	101_W	0.620	0.71
10_L	178_Q	0.620	0.71
47_D	62_V	0.618	0.71
103_K	106_T	0.618	0.71
64_R	158_I	0.617	0.71
34_V	172_S	0.617	0.71
14_L	40_S	0.616	0.71
82_S	161_F	0.615	0.70
146_K	156_G	0.611	0.70
87_L	144_N	0.608	0.70
31_L	152_V	0.607	0.70
27_L	152_V	0.607	0.70
39_A	114_I	0.604	0.69
124_Q	143_G	0.604	0.69
150_I	160_Q	0.603	0.69
28_K	122_W	0.599	0.68
13_S	185_A	0.599	0.68
46_T	53_V	0.597	0.68
39_A	90_Y	0.590	0.67
6_I	11_L	0.589	0.67
56_G	145_L	0.588	0.67
9_A	14_L	0.586	0.67
10_L	17_S	0.585	0.67
141_S	144_N	0.584	0.67
47_D	110_P	0.578	0.66
15_V	19_V	0.576	0.66
68_F	93_F	0.575	0.65
12_S	15_V	0.571	0.65
96_Q	99_A	0.571	0.65
191_T	194_Q	0.569	0.65
6_I	12_S	0.568	0.64
53_V	113_L	0.568	0.64
26_D	134_F	0.565	0.64
13_S	189_T	0.565	0.64
48_G	107_G	0.563	0.64
112_M	134_F	0.558	0.63
133_D	149_T	0.556	0.63
18_S	22_D	0.555	0.63
62_V	115_A	0.553	0.62
37_F	70_W	0.550	0.62
86_T	97_A	0.546	0.61
42_T	176_K	0.545	0.61
98_T	110_P	0.544	0.61
113_L	165_E	0.541	0.61
15_V	22_D	0.541	0.61
31_L	113_L	0.541	0.61
11_L	15_V	0.537	0.60
190_F	193_P	0.535	0.60
151_N	160_Q	0.533	0.60
25_S	28_K	0.528	0.59
67_L	83_D	0.527	0.59
13_S	21_A	0.527	0.59
52_A	166_Q	0.526	0.59
107_G	118_Q	0.526	0.59
145_L	148_F	0.525	0.58
87_L	110_P	0.524	0.58
23_A	128_K	0.521	0.58
70_W	163_A	0.520	0.58
183_V	186_A	0.519	0.58
70_W	125_Y	0.518	0.57
155_D	159_H	0.517	0.57
68_F	78_S	0.516	0.57
65_P	92_P	0.515	0.57
45_V	165_E	0.514	0.57
112_M	169_Q	0.513	0.57
94_V	98_T	0.512	0.57
148_F	163_A	0.512	0.57
48_G	74_Q	0.511	0.56
39_A	89_F	0.509	0.56
7_T	20_W	0.508	0.56
165_E	168_D	0.507	0.56
81_V	192_P	0.506	0.56
66_N	117_N	0.505	0.56
148_F	151_N	0.505	0.56
68_F	72_M	0.503	0.55
39_A	158_I	0.502	0.55
128_K	141_S	0.501	0.55
47_D	51_A	0.500	0.55

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
1iwlA	1	0.8719	100	0.249	Contact Map
2w7qA	1	0.9212	100	0.293	Contact Map
4mxtA	2	0.8522	100	0.422	Contact Map
2yzyA	1	0.7291	99.9	0.545	Contact Map
3buuA	1	0.8719	99.8	0.582	Contact Map
3m4wA	2	0.8768	99.4	0.706	Contact Map
3bk5A	1	0.8768	99.4	0.709	Contact Map
4z48A	1	0.8768	99.4	0.714	Contact Map
4jg9A	2	0.5616	73.8	0.915	Contact Map
3a24A	1	0.6108	65.5	0.92	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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