YMFK - BACSU - GREMLIN Contacts

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YMFK - Uncharacterized protein YmfK

UniProt:	O31769	Sequences: MKGVYHLAKLEWYFEYEIQVNRPGLLGDISSLLGMLSINIVTINGVDLSRRGMLLRCRHIDQIKRLESILKTMETIKVTKLREPRLRDRLAVRHGRYIQRDADDKKTFRFERDELGLLVDFMAELFKKEGHKLIGIRGMPRVGKTESIVASSVCASKRWLFVSSTLLKQTIRSQLIADEYSTENVFIVDGIVSTRRGSERHLQLVREIMRLPATKVVEHPDIFVQNTEYTLDDFDYIIELRNDPDEVITYEHAEEPQMFDQSGFSSFDF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	269 (247)
Sequences:	156 (52)
Seq/√Len:	3.3

BACSU - YMFK

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
158_R	166_L	3.599	0.68
133_L	233_D	3.462	0.65
158_R	167_L	2.565	0.41
92_V	104_D	2.387	0.37
160_L	168_K	2.339	0.36
90_L	247_V	2.326	0.35
168_K	226_N	2.324	0.35
66_L	193_S	2.294	0.35
80_K	108_F	2.263	0.34
55_L	186_F	2.251	0.34
81_L	185_V	2.250	0.34
47_D	99_Q	2.181	0.32
168_K	225_Q	2.152	0.31
53_M	183_E	2.144	0.31
160_L	180_Y	2.131	0.31
173_S	217_V	2.099	0.30
166_L	188_V	2.043	0.29
191_I	197_G	2.033	0.29
149_V	187_I	2.021	0.28
41_V	56_R	2.018	0.28
162_V	186_F	1.911	0.26
62_Q	72_T	1.897	0.26
86_L	187_I	1.890	0.26
193_S	217_V	1.876	0.25
62_Q	185_V	1.840	0.25
17_E	50_R	1.818	0.24
62_Q	111_E	1.816	0.24
196_R	222_I	1.811	0.24
30_S	211_L	1.805	0.24
168_K	195_R	1.754	0.23
9_K	186_F	1.746	0.23
122_M	175_L	1.722	0.23
166_L	185_V	1.716	0.22
66_L	196_R	1.711	0.22
206_R	228_E	1.707	0.22
30_S	180_Y	1.672	0.22
75_T	128_K	1.645	0.21
97_Y	154_C	1.641	0.21
19_Q	77_K	1.638	0.21
123_A	133_L	1.636	0.21
208_I	226_N	1.601	0.20
242_N	246_E	1.596	0.20
62_Q	73_M	1.592	0.20
191_I	222_I	1.591	0.20
115_L	154_C	1.581	0.20
87_R	187_I	1.574	0.20
70_L	197_G	1.568	0.20
180_Y	202_L	1.556	0.20
104_D	117_L	1.554	0.20
72_T	122_M	1.541	0.19
168_K	255_E	1.538	0.19
66_L	70_L	1.529	0.19
65_R	132_K	1.528	0.19
30_S	200_R	1.512	0.19
167_L	227_T	1.505	0.19
160_L	185_V	1.502	0.19
174_Q	186_F	1.498	0.19
245_D	251_E	1.479	0.18
69_I	122_M	1.477	0.18
23_P	156_S	1.475	0.18
64_K	113_D	1.468	0.18
70_L	196_R	1.453	0.18
58_R	122_M	1.452	0.18
75_T	202_L	1.429	0.18
18_I	25_L	1.420	0.17
160_L	176_I	1.418	0.17
167_L	246_E	1.416	0.17
41_V	69_I	1.380	0.17
57_C	78_V	1.377	0.17
69_I	72_T	1.372	0.17
70_L	78_V	1.366	0.17
217_V	244_P	1.356	0.16
123_A	154_C	1.350	0.16
65_R	80_K	1.348	0.16
168_K	180_Y	1.338	0.16
62_Q	75_T	1.332	0.16
136_I	253_A	1.329	0.16
81_L	186_F	1.301	0.16
193_S	196_R	1.299	0.16
10_L	117_L	1.276	0.15
162_V	251_E	1.275	0.15
148_I	187_I	1.273	0.15
101_D	108_F	1.273	0.15
198_S	203_Q	1.263	0.15
38_I	89_R	1.261	0.15
62_Q	103_D	1.253	0.15
80_K	123_A	1.252	0.15
10_L	60_I	1.252	0.15
103_D	154_C	1.249	0.15
151_S	156_S	1.235	0.15
160_L	178_D	1.235	0.15
208_I	252_H	1.228	0.15
87_R	103_D	1.226	0.15
92_V	126_F	1.224	0.15
126_F	216_V	1.209	0.14
117_L	188_V	1.196	0.14
167_L	208_I	1.193	0.14
65_R	69_I	1.187	0.14
171_I	245_D	1.186	0.14
83_E	225_Q	1.181	0.14
43_I	104_D	1.180	0.14
162_V	197_G	1.174	0.14
166_L	240_L	1.165	0.14
158_R	255_E	1.161	0.14
86_L	211_L	1.154	0.14
12_W	228_E	1.152	0.14
70_L	242_N	1.148	0.14
92_V	97_Y	1.130	0.13
10_L	101_D	1.123	0.13
83_E	185_V	1.122	0.13
126_F	154_C	1.121	0.13
193_S	205_V	1.113	0.13
183_E	224_V	1.112	0.13
123_A	217_V	1.102	0.13
21_N	131_H	1.100	0.13
133_L	217_V	1.092	0.13
12_W	97_Y	1.086	0.13
199_E	246_E	1.085	0.13
81_L	243_D	1.084	0.13
14_F	205_V	1.077	0.13
176_I	180_Y	1.076	0.13
101_D	117_L	1.074	0.13
19_Q	132_K	1.061	0.13
126_F	214_T	1.058	0.13
60_I	191_I	1.050	0.12
158_R	162_V	1.049	0.12
30_S	57_C	1.047	0.12
181_S	184_N	1.043	0.12
47_D	186_F	1.041	0.12
70_L	193_S	1.036	0.12
65_R	73_M	1.019	0.12
154_C	214_T	1.012	0.12
30_S	38_I	1.010	0.12
115_L	130_G	1.009	0.12
162_V	168_K	1.008	0.12
18_I	61_D	1.007	0.12
73_M	111_E	1.003	0.12
193_S	202_L	0.996	0.12
9_K	81_L	0.989	0.12
29_I	203_Q	0.982	0.12
61_D	79_T	0.981	0.12
123_A	236_Y	0.980	0.12
19_Q	242_N	0.979	0.12
29_I	78_V	0.977	0.12
57_C	214_T	0.969	0.12
194_T	225_Q	0.967	0.12
60_I	185_V	0.965	0.12
70_L	202_L	0.964	0.12
48_L	104_D	0.961	0.12
108_F	154_C	0.946	0.11
61_D	115_L	0.945	0.11
55_L	85_R	0.944	0.11
57_C	244_P	0.942	0.11
92_V	154_C	0.938	0.11
37_S	72_T	0.934	0.11
87_R	111_E	0.933	0.11
132_K	205_V	0.928	0.11
80_K	111_E	0.922	0.11
85_R	103_D	0.918	0.11
74_E	175_L	0.915	0.11
17_E	92_V	0.914	0.11
63_I	191_I	0.912	0.11
19_Q	176_I	0.907	0.11
108_F	214_T	0.904	0.11
15_E	215_K	0.903	0.11
183_E	244_P	0.901	0.11
167_L	196_R	0.896	0.11
167_L	176_I	0.886	0.11
174_Q	197_G	0.880	0.11
69_I	209_M	0.878	0.11
123_A	233_D	0.877	0.11
158_R	249_T	0.874	0.11
107_T	151_S	0.873	0.11
53_M	85_R	0.872	0.11
180_Y	198_S	0.858	0.10
186_F	251_E	0.857	0.10
74_E	173_S	0.856	0.10
190_G	216_V	0.851	0.10
117_L	200_R	0.850	0.10
174_Q	178_D	0.849	0.10
74_E	216_V	0.849	0.10
154_C	251_E	0.847	0.10
69_I	149_V	0.846	0.10
49_S	128_K	0.846	0.10
66_L	73_M	0.846	0.10
65_R	217_V	0.845	0.10
117_L	134_I	0.839	0.10
56_R	73_M	0.837	0.10
44_N	131_H	0.833	0.10
80_K	87_R	0.831	0.10
193_S	246_E	0.831	0.10
73_M	244_P	0.830	0.10
11_E	102_A	0.828	0.10
208_I	213_A	0.822	0.10
14_F	193_S	0.820	0.10
37_S	149_V	0.815	0.10
178_D	222_I	0.815	0.10
122_M	151_S	0.815	0.10
114_E	246_E	0.814	0.10
18_I	174_Q	0.813	0.10
148_I	254_E	0.813	0.10
53_M	60_I	0.813	0.10
21_N	44_N	0.809	0.10
19_Q	227_T	0.803	0.10
229_Y	233_D	0.802	0.10
58_R	75_T	0.797	0.10
82_R	88_D	0.795	0.10
9_K	92_V	0.794	0.10
195_R	217_V	0.793	0.10
43_I	53_M	0.792	0.10
66_L	194_T	0.790	0.10
178_D	191_I	0.784	0.10
17_E	98_I	0.778	0.10
154_C	187_I	0.777	0.10
55_L	111_E	0.777	0.10
81_L	193_S	0.774	0.10
15_E	139_M	0.773	0.10
65_R	209_M	0.771	0.10
53_M	200_R	0.769	0.10
85_R	154_C	0.768	0.10
87_R	149_V	0.768	0.10
80_K	98_I	0.765	0.10
38_I	194_T	0.757	0.09
225_Q	254_E	0.746	0.09
92_V	123_A	0.745	0.09
156_S	178_D	0.745	0.09
178_D	214_T	0.744	0.09
67_E	128_K	0.741	0.09
160_L	226_N	0.740	0.09
104_D	173_S	0.739	0.09
90_L	101_D	0.738	0.09
73_M	85_R	0.737	0.09
47_D	188_V	0.736	0.09
92_V	109_R	0.735	0.09
73_M	193_S	0.732	0.09
123_A	149_V	0.729	0.09
73_M	205_V	0.729	0.09
56_R	176_I	0.728	0.09
64_K	67_E	0.724	0.09
122_M	173_S	0.721	0.09
149_V	205_V	0.714	0.09
64_K	128_K	0.713	0.09
59_H	214_T	0.713	0.09
158_R	184_N	0.708	0.09
75_T	242_N	0.708	0.09
39_N	79_T	0.707	0.09
86_L	107_T	0.707	0.09
12_W	215_K	0.705	0.09
81_L	244_P	0.704	0.09
74_E	245_D	0.703	0.09
62_Q	83_E	0.702	0.09
17_E	212_P	0.701	0.09
77_K	226_N	0.701	0.09
158_R	188_V	0.700	0.09
38_I	166_L	0.694	0.09
92_V	107_T	0.694	0.09
134_I	208_I	0.694	0.09
160_L	191_I	0.691	0.09
132_K	185_V	0.690	0.09
39_N	222_I	0.689	0.09
47_D	206_R	0.689	0.09
19_Q	184_N	0.688	0.09
132_K	198_S	0.688	0.09
62_Q	80_K	0.685	0.09
179_E	215_K	0.685	0.09
22_R	28_D	0.681	0.09
177_A	208_I	0.677	0.09
37_S	208_I	0.673	0.09
83_E	245_D	0.673	0.09
87_R	109_R	0.670	0.09
15_E	43_I	0.666	0.09
152_S	187_I	0.662	0.09
56_R	202_L	0.661	0.09
50_R	123_A	0.661	0.09
97_Y	101_D	0.661	0.09
225_Q	255_E	0.660	0.09
62_Q	87_R	0.658	0.09
196_R	255_E	0.657	0.09
199_E	228_E	0.655	0.09
22_R	124_E	0.652	0.09
122_M	182_T	0.647	0.09
36_L	52_G	0.645	0.09
167_L	213_A	0.645	0.09
22_R	31_S	0.639	0.08
109_R	233_D	0.639	0.08
86_L	115_L	0.636	0.08
217_V	233_D	0.634	0.08
168_K	191_I	0.630	0.08
74_E	109_R	0.628	0.08
81_L	160_L	0.627	0.08
124_E	240_L	0.611	0.08
117_L	125_L	0.610	0.08
73_M	202_L	0.609	0.08
78_V	92_V	0.607	0.08
37_S	58_R	0.603	0.08
202_L	205_V	0.602	0.08
62_Q	202_L	0.598	0.08
29_I	32_L	0.597	0.08
68_S	183_E	0.597	0.08
227_T	244_P	0.593	0.08
83_E	132_K	0.593	0.08
117_L	207_E	0.592	0.08
38_I	215_K	0.591	0.08
14_F	49_S	0.590	0.08
101_D	105_K	0.589	0.08
131_H	209_M	0.587	0.08
30_S	53_M	0.584	0.08
17_E	123_A	0.583	0.08
74_E	208_I	0.583	0.08
41_V	205_V	0.583	0.08
117_L	209_M	0.582	0.08
11_E	131_H	0.582	0.08
65_R	214_T	0.581	0.08
39_N	174_Q	0.581	0.08
12_W	63_I	0.580	0.08
56_R	205_V	0.580	0.08
56_R	252_H	0.578	0.08
102_A	253_A	0.576	0.08
99_Q	195_R	0.574	0.08
42_T	172_R	0.573	0.08
37_S	63_I	0.572	0.08
191_I	194_T	0.566	0.08
128_K	136_I	0.566	0.08
61_D	198_S	0.564	0.08
174_Q	191_I	0.563	0.08
62_Q	104_D	0.563	0.08
58_R	62_Q	0.561	0.08
20_V	193_S	0.560	0.08
43_I	108_F	0.559	0.08
100_R	199_E	0.557	0.08
89_R	213_A	0.554	0.08
60_I	101_D	0.554	0.08
37_S	191_I	0.549	0.08
193_S	232_D	0.545	0.08
177_A	222_I	0.544	0.08
111_E	151_S	0.542	0.08
174_Q	242_N	0.540	0.08
60_I	173_S	0.540	0.08
87_R	98_I	0.539	0.08
133_L	154_C	0.539	0.08
39_N	196_R	0.538	0.08
229_Y	249_T	0.537	0.08
100_R	167_L	0.532	0.08
55_L	222_I	0.531	0.08
154_C	236_Y	0.531	0.08
11_E	78_V	0.528	0.08
57_C	103_D	0.527	0.08
162_V	233_D	0.526	0.08
17_E	108_F	0.525	0.08
75_T	162_V	0.521	0.08
43_I	154_C	0.521	0.08
65_R	108_F	0.521	0.08
139_M	215_K	0.517	0.08
108_F	236_Y	0.517	0.08
83_E	160_L	0.516	0.08
132_K	180_Y	0.516	0.08
61_D	213_A	0.514	0.08
180_Y	225_Q	0.513	0.07
126_F	231_L	0.513	0.07
9_K	200_R	0.511	0.07
55_L	217_V	0.511	0.07
56_R	125_L	0.510	0.07
162_V	210_R	0.509	0.07
74_E	252_H	0.509	0.07
53_M	73_M	0.506	0.07
9_K	18_I	0.505	0.07
19_Q	177_A	0.505	0.07
41_V	254_E	0.504	0.07
92_V	101_D	0.501	0.07
148_I	180_Y	0.500	0.07

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
3lw7A	2	0.4387	95.7	0.956	Contact Map
1qf9A	1	0.487	94.3	0.959	Contact Map
2lvwA	2	0.3457	94.2	0.96	Contact Map
4nu0A	1	0.4164	93.8	0.96	Contact Map
4qbgB	1	0.4164	93.3	0.961	Contact Map
1nksA	5	0.4684	93.1	0.961	Contact Map
2xb4A	4	0.4164	93.1	0.961	Contact Map
4xrpA	2	0.4981	93.1	0.961	Contact Map
2ko1A	2	0.3048	91.8	0.963	Contact Map
1ly1A	2	0.4349	91.7	0.963	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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