YONS - BACSU - GREMLIN Contacts

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YONS - SPBc2 prophage-derived uncharacterized lipoprotein YonS

UniProt:	O31942	Sequences: MKLFKKLGILLLITSLILLAACKNSEESSSSSEDTNNATDTNTSESQDISVNGPEKVGDVYEIDGGTAKVMAISNKETTVKTGPIQFTVKKVIAAVANEQLPFIDVQIESENTSDEVVRFRPSLAQLATSTGVQIDEPSLLESDRLLDEYVGKVNDSGSIIYVFDNEEDIKDLESIRLRISSPFNEDLKNLGDKLDLKINLEH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	203 (192)
Sequences:	177 (159)
Seq/√Len:	11.5

BACSU - YONS YDHF

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
148_D	158_G	3.759	0.99
19_L	22_C	3.611	0.98
84_P	113_T	3.380	0.98
31_S	164_F	3.240	0.97
177_R	196_D	3.024	0.95
128_A	134_Q	2.873	0.94
123_S	147_L	2.778	0.93
86_Q	111_E	2.662	0.91
74_S	77_E	2.324	0.84
4_F	21_A	2.321	0.83
134_Q	154_V	2.301	0.83
12_L	56_K	2.208	0.80
70_V	93_I	2.206	0.80
186_E	191_L	2.161	0.79
150_Y	156_D	2.085	0.76
124_L	148_D	2.047	0.75
94_A	164_F	2.031	0.74
111_E	155_N	2.019	0.74
54_P	58_G	2.004	0.73
109_E	149_E	1.995	0.73
140_L	143_S	1.929	0.70
54_P	93_I	1.903	0.69
21_A	87_F	1.897	0.69
180_I	183_P	1.894	0.69
21_A	104_I	1.824	0.65
122_P	158_G	1.818	0.65
129_T	173_L	1.806	0.65
96_V	102_P	1.802	0.65
149_E	176_I	1.795	0.64
84_P	115_D	1.743	0.62
30_S	34_D	1.731	0.61
37_N	75_N	1.711	0.60
48_D	164_F	1.706	0.60
58_G	70_V	1.667	0.58
190_N	193_D	1.622	0.56
57_V	89_V	1.609	0.55
123_S	130_S	1.591	0.55
27_E	104_I	1.548	0.52
184_F	190_N	1.526	0.51
93_I	183_P	1.524	0.51
121_R	134_Q	1.518	0.51
7_L	16_L	1.511	0.51
122_P	156_D	1.498	0.50
54_P	70_V	1.454	0.48
138_P	162_Y	1.404	0.45
21_A	97_A	1.400	0.45
57_V	95_A	1.393	0.45
35_T	42_N	1.392	0.45
106_V	110_S	1.383	0.44
58_G	93_I	1.375	0.44
89_V	145_R	1.364	0.43
29_S	48_D	1.359	0.43
68_A	95_A	1.355	0.43
10_L	41_T	1.335	0.42
113_T	155_N	1.334	0.42
6_K	12_L	1.316	0.41
121_R	124_L	1.303	0.41
147_L	156_D	1.301	0.40
5_K	106_V	1.296	0.40
87_F	180_I	1.282	0.40
127_L	164_F	1.273	0.39
155_N	175_S	1.268	0.39
82_T	192_G	1.268	0.39
104_I	176_I	1.265	0.39
128_A	154_V	1.262	0.39
135_I	139_S	1.235	0.37
8_G	21_A	1.235	0.37
17_I	28_S	1.220	0.37
124_L	158_G	1.183	0.35
125_A	158_G	1.180	0.35
58_G	104_I	1.174	0.35
14_T	164_F	1.171	0.34
150_Y	154_V	1.168	0.34
42_N	45_E	1.161	0.34
129_T	133_V	1.155	0.34
12_L	32_S	1.144	0.33
80_V	87_F	1.143	0.33
38_A	44_S	1.113	0.32
15_S	172_D	1.113	0.32
114_S	152_G	1.100	0.31
114_S	174_E	1.098	0.31
7_L	15_S	1.094	0.31
127_L	150_Y	1.092	0.31
117_V	177_R	1.089	0.31
117_V	151_V	1.080	0.31
148_D	156_D	1.078	0.30
6_K	13_I	1.076	0.30
193_D	198_K	1.065	0.30
84_P	118_V	1.064	0.30
15_S	20_A	1.060	0.30
81_K	88_T	1.058	0.30
152_G	185_N	1.049	0.29
182_S	190_N	1.048	0.29
41_T	46_S	1.045	0.29
190_N	198_K	1.032	0.29
14_T	39_T	1.031	0.29
21_A	24_N	1.025	0.28
25_S	176_I	1.024	0.28
105_D	122_P	1.021	0.28
109_E	157_S	1.021	0.28
32_S	42_N	1.021	0.28
34_D	178_L	1.005	0.28
104_I	159_S	0.996	0.27
42_N	48_D	0.993	0.27
12_L	15_S	0.978	0.26
126_Q	156_D	0.976	0.26
56_K	166_N	0.969	0.26
131_T	180_I	0.958	0.26
23_K	121_R	0.946	0.25
13_I	34_D	0.945	0.25
87_F	106_V	0.944	0.25
30_S	178_L	0.926	0.25
152_G	179_R	0.925	0.24
78_T	130_S	0.921	0.24
122_P	162_Y	0.918	0.24
68_A	136_D	0.915	0.24
158_G	174_E	0.914	0.24
104_I	110_S	0.907	0.24
70_V	73_I	0.905	0.24
58_G	66_G	0.901	0.24
127_L	135_I	0.900	0.24
24_N	171_K	0.900	0.24
94_A	168_E	0.892	0.23
74_S	111_E	0.885	0.23
128_A	189_K	0.877	0.23
171_K	187_D	0.877	0.23
4_F	7_L	0.874	0.23
39_T	44_S	0.864	0.22
92_V	190_N	0.863	0.22
74_S	92_V	0.858	0.22
119_R	149_E	0.852	0.22
87_F	118_V	0.851	0.22
186_E	189_K	0.849	0.22
71_M	78_T	0.848	0.22
101_L	183_P	0.847	0.22
52_N	68_A	0.847	0.22
122_P	148_D	0.829	0.21
53_G	127_L	0.829	0.21
11_L	82_T	0.825	0.21
124_L	147_L	0.818	0.21
143_S	180_I	0.814	0.21
86_Q	127_L	0.811	0.21
26_E	79_T	0.807	0.20
52_N	109_E	0.804	0.20
13_I	130_S	0.803	0.20
91_K	124_L	0.801	0.20
120_F	180_I	0.800	0.20
63_I	164_F	0.796	0.20
39_T	64_D	0.796	0.20
16_L	33_E	0.791	0.20
57_V	182_S	0.789	0.20
54_P	183_P	0.785	0.20
126_Q	134_Q	0.784	0.20
96_V	149_E	0.784	0.20
27_E	33_E	0.781	0.20
17_I	30_S	0.777	0.20
85_I	191_L	0.769	0.19
117_V	175_S	0.767	0.19
102_P	133_V	0.765	0.19
23_K	95_A	0.763	0.19
85_I	120_F	0.762	0.19
61_Y	103_F	0.757	0.19
38_A	42_N	0.755	0.19
16_L	21_A	0.752	0.19
4_F	16_L	0.752	0.19
22_C	120_F	0.749	0.19
17_I	85_I	0.747	0.19
40_D	46_S	0.747	0.19
13_I	16_L	0.745	0.19
149_E	189_K	0.742	0.18
12_L	33_E	0.742	0.18
105_D	163_V	0.728	0.18
127_L	152_G	0.726	0.18
109_E	168_E	0.723	0.18
65_G	125_A	0.722	0.18
146_L	182_S	0.717	0.18
54_P	59_D	0.714	0.18
66_G	165_D	0.705	0.17
167_E	176_I	0.700	0.17
101_L	159_S	0.695	0.17
110_S	146_L	0.691	0.17
58_G	84_P	0.686	0.17
58_G	105_D	0.681	0.17
19_L	114_S	0.680	0.17
90_K	109_E	0.678	0.17
176_I	190_N	0.675	0.17
20_A	34_D	0.672	0.16
14_T	17_I	0.670	0.16
85_I	150_Y	0.668	0.16
70_V	161_I	0.666	0.16
117_V	186_E	0.665	0.16
15_S	31_S	0.660	0.16
54_P	161_I	0.659	0.16
33_E	51_V	0.657	0.16
93_I	180_I	0.654	0.16
37_N	139_S	0.654	0.16
83_G	146_L	0.650	0.16
139_S	163_V	0.646	0.16
8_G	51_V	0.640	0.16
120_F	152_G	0.639	0.16
94_A	177_R	0.636	0.16
150_Y	153_K	0.634	0.15
18_L	61_Y	0.633	0.15
70_V	76_K	0.632	0.15
132_G	187_D	0.629	0.15
59_D	86_Q	0.625	0.15
45_E	92_V	0.624	0.15
132_G	186_E	0.620	0.15
13_I	19_L	0.620	0.15
188_L	192_G	0.620	0.15
183_P	191_L	0.616	0.15
114_S	157_S	0.613	0.15
108_I	146_L	0.611	0.15
92_V	140_L	0.611	0.15
87_F	120_F	0.606	0.15
117_V	121_R	0.606	0.15
79_T	152_G	0.604	0.15
29_S	46_S	0.604	0.15
12_L	153_K	0.602	0.15
90_K	163_V	0.602	0.15
83_G	184_F	0.601	0.15
13_I	64_D	0.600	0.15
128_A	188_L	0.599	0.15
93_I	124_L	0.597	0.15
92_V	198_K	0.596	0.15
106_V	165_D	0.596	0.15
184_F	188_L	0.595	0.15
25_S	31_S	0.595	0.15
117_V	184_F	0.595	0.15
4_F	8_G	0.593	0.14
153_K	177_R	0.592	0.14
129_T	148_D	0.592	0.14
52_N	63_I	0.590	0.14
59_D	92_V	0.588	0.14
95_A	161_I	0.584	0.14
81_K	189_K	0.583	0.14
24_N	185_N	0.582	0.14
133_V	159_S	0.582	0.14
22_C	66_G	0.581	0.14
130_S	150_Y	0.574	0.14
141_L	191_L	0.573	0.14
113_T	175_S	0.573	0.14
105_D	123_S	0.573	0.14
7_L	11_L	0.572	0.14
124_L	134_Q	0.571	0.14
121_R	148_D	0.567	0.14
105_D	142_E	0.566	0.14
11_L	177_R	0.565	0.14
23_K	59_D	0.565	0.14
175_S	200_N	0.561	0.14
5_K	19_L	0.558	0.14
194_K	199_I	0.554	0.14
56_K	87_F	0.551	0.13
101_L	151_V	0.551	0.13
146_L	156_D	0.547	0.13
62_E	67_T	0.547	0.13
94_A	160_I	0.546	0.13
155_N	165_D	0.543	0.13
32_S	49_I	0.542	0.13
38_A	41_T	0.541	0.13
143_S	146_L	0.539	0.13
166_N	179_R	0.536	0.13
53_G	104_I	0.536	0.13
103_F	160_I	0.536	0.13
105_D	173_L	0.534	0.13
59_D	155_N	0.533	0.13
92_V	186_E	0.533	0.13
83_G	197_L	0.528	0.13
147_L	188_L	0.528	0.13
133_V	165_D	0.528	0.13
87_F	135_I	0.525	0.13
132_G	135_I	0.522	0.13
42_N	116_E	0.522	0.13
110_S	153_K	0.519	0.13
121_R	147_L	0.518	0.13
20_A	26_E	0.517	0.13
15_S	130_S	0.514	0.13
121_R	180_I	0.513	0.13
51_V	91_K	0.511	0.13
69_K	115_D	0.509	0.13
111_E	132_G	0.509	0.13
103_F	176_I	0.508	0.13
83_G	183_P	0.507	0.12
94_A	178_L	0.504	0.12
120_F	183_P	0.504	0.12
120_F	158_G	0.502	0.12
113_T	133_V	0.500	0.12
26_E	40_D	0.500	0.12

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
3cfuA	1	0.6059	98.7	0.809	Contact Map
4lesA	1	0.5911	98.3	0.83	Contact Map
4r4gA	1	0.5764	98.2	0.833	Contact Map
4eaeA	2	0.7635	97.1	0.868	Contact Map
3ucpA	1	0.5813	95.7	0.886	Contact Map
3pmqA	1	0.5419	95.2	0.89	Contact Map
2llgA	1	0.6404	94.6	0.894	Contact Map
5bxgA	1	0.6946	92.9	0.901	Contact Map
3qfgA	2	0.6059	92.3	0.903	Contact Map
4peuA	1	0.4631	92.3	0.903	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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