YEBC - BACSU - GREMLIN Contacts

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YEBC - Uncharacterized protein YebC

UniProt:	O34341	Sequences: MTEERKETFEEEINQSERIDADEEPLSRMSRKASRQSKQKQKQKQKPRQERGESTVKDKLASVWAAINRYCGFAFSILKSPAKTVVTDGFSHYKYGLISMLIFSIIFSIGNWFQLKASWNRPLGFGERHHAFYDGFLVVLVYLLIFFAVMVFAIWAVSRYMMKQKVTFREAAAVLGSLLVPVIAVSILWLIFAIVNIPMLTVLFTVLILFSIFFIIALYVQRVYQAAQDAPIDYIYCVFAVVAIALLFTAVTWPFISEYITASLIPL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	267 (226)
Sequences:	220 (190)
Seq/√Len:	12.7

BACSU - YEBC YVBI

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
61_A	64_W	4.366	1.00
70_Y	99_S	3.798	0.99
112_W	132_F	3.243	0.98
154_I	171_A	2.825	0.95
136_F	140_L	2.794	0.94
97_L	101_L	2.694	0.93
73_F	77_I	2.619	0.92
77_I	180_V	2.589	0.92
149_V	156_A	2.542	0.91
188_L	240_A	2.421	0.89
108_S	136_F	2.349	0.87
173_A	180_V	2.269	0.85
60_L	70_Y	2.240	0.84
110_G	186_S	2.168	0.82
173_A	176_G	2.132	0.81
167_T	205_T	2.041	0.78
33_A	37_S	2.030	0.78
102_I	183_I	2.021	0.77
64_W	67_I	1.930	0.74
174_V	219_Y	1.864	0.71
132_F	139_V	1.836	0.70
195_V	207_L	1.784	0.68
101_L	153_A	1.781	0.68
75_F	108_S	1.767	0.67
168_F	212_I	1.733	0.65
34_S	37_S	1.727	0.65
145_I	202_V	1.722	0.65
96_G	218_L	1.718	0.65
41_Q	168_F	1.680	0.63
81_P	96_G	1.669	0.62
159_R	250_A	1.667	0.62
65_A	68_N	1.661	0.62
96_G	173_A	1.654	0.62
169_R	184_A	1.615	0.60
102_I	163_K	1.609	0.60
194_I	209_L	1.604	0.59
168_F	260_I	1.556	0.57
70_Y	102_I	1.545	0.56
141_V	194_I	1.524	0.55
106_I	187_I	1.523	0.55
156_A	194_I	1.504	0.54
73_F	103_F	1.492	0.54
34_S	191_I	1.489	0.53
118_S	243_A	1.476	0.53
39_Q	42_K	1.476	0.53
90_F	258_E	1.473	0.53
73_F	186_S	1.472	0.53
108_S	180_V	1.471	0.53
248_F	252_T	1.462	0.52
99_S	183_I	1.461	0.52
81_P	233_D	1.461	0.52
73_F	117_A	1.446	0.51
67_I	168_F	1.435	0.51
188_L	213_F	1.431	0.50
37_S	170_E	1.422	0.50
200_L	217_A	1.391	0.48
143_L	256_I	1.388	0.48
198_P	209_L	1.385	0.48
77_I	171_A	1.373	0.47
143_L	239_F	1.321	0.45
137_L	251_V	1.320	0.45
192_F	262_A	1.301	0.44
170_E	174_V	1.297	0.44
31_R	34_S	1.280	0.43
49_Q	247_L	1.265	0.42
188_L	251_V	1.257	0.42
137_L	151_V	1.255	0.41
138_V	174_V	1.241	0.41
151_V	218_L	1.239	0.41
34_S	43_Q	1.221	0.40
177_S	235_I	1.212	0.39
204_F	215_I	1.192	0.38
234_Y	244_I	1.190	0.38
175_L	218_L	1.182	0.38
35_R	44_K	1.174	0.37
78_L	184_A	1.171	0.37
73_F	131_A	1.167	0.37
182_V	217_A	1.167	0.37
70_Y	93_Y	1.162	0.37
31_R	46_K	1.160	0.37
73_F	179_L	1.155	0.37
119_W	205_T	1.153	0.36
246_L	261_T	1.144	0.36
156_A	201_T	1.143	0.36
171_A	204_F	1.138	0.36
185_V	190_L	1.138	0.36
123_L	204_F	1.124	0.35
33_A	36_Q	1.117	0.35
226_A	260_I	1.116	0.35
155_W	180_V	1.115	0.35
79_K	182_V	1.111	0.34
122_P	128_R	1.110	0.34
112_W	162_M	1.100	0.34
122_P	197_I	1.099	0.34
44_K	137_L	1.087	0.33
106_I	133_Y	1.081	0.33
37_S	40_K	1.079	0.33
122_P	152_F	1.076	0.33
188_L	262_A	1.072	0.33
56_V	248_F	1.070	0.33
82_A	176_G	1.070	0.33
60_L	185_V	1.070	0.33
94_K	173_A	1.069	0.33
106_I	219_Y	1.066	0.32
159_R	252_T	1.065	0.32
56_V	243_A	1.062	0.32
152_F	210_F	1.058	0.32
146_F	188_L	1.053	0.32
58_D	62_S	1.048	0.32
150_M	180_V	1.047	0.32
73_F	154_I	1.042	0.31
101_L	248_F	1.026	0.31
146_F	155_W	1.024	0.31
43_Q	229_D	1.021	0.30
71_C	75_F	1.018	0.30
73_F	180_V	1.017	0.30
174_V	238_V	1.015	0.30
95_Y	176_G	1.014	0.30
154_I	184_A	1.014	0.30
196_N	244_I	1.010	0.30
146_F	167_T	1.004	0.30
71_C	103_F	1.002	0.30
106_I	141_V	1.001	0.30
145_I	235_I	1.000	0.29
142_Y	248_F	0.999	0.29
163_K	197_I	0.999	0.29
143_L	168_F	0.994	0.29
41_Q	45_Q	0.994	0.29
56_V	61_A	0.991	0.29
77_I	173_A	0.990	0.29
112_W	191_I	0.989	0.29
93_Y	169_R	0.989	0.29
175_L	236_Y	0.981	0.29
89_G	183_I	0.980	0.29
154_I	158_S	0.980	0.29
185_V	205_T	0.978	0.29
99_S	162_M	0.977	0.29
181_P	217_A	0.966	0.28
103_F	176_G	0.966	0.28
156_A	243_A	0.965	0.28
179_L	186_S	0.962	0.28
152_F	184_A	0.960	0.28
113_F	254_P	0.957	0.28
57_K	61_A	0.951	0.27
73_F	177_S	0.946	0.27
175_L	232_I	0.945	0.27
73_F	162_M	0.944	0.27
132_F	176_G	0.940	0.27
34_S	247_L	0.938	0.27
39_Q	99_S	0.935	0.27
99_S	237_C	0.934	0.27
148_A	218_L	0.925	0.26
222_R	233_D	0.924	0.26
48_R	203_L	0.923	0.26
171_A	180_V	0.919	0.26
168_F	193_A	0.917	0.26
69_R	80_S	0.915	0.26
101_L	172_A	0.909	0.26
173_A	184_A	0.905	0.26
103_F	177_S	0.900	0.25
32_K	35_R	0.899	0.25
37_S	141_V	0.893	0.25
108_S	184_A	0.893	0.25
199_M	206_V	0.889	0.25
57_K	64_W	0.889	0.25
58_D	247_L	0.889	0.25
80_S	193_A	0.887	0.25
138_V	144_L	0.886	0.25
204_F	208_I	0.885	0.25
178_L	237_C	0.878	0.25
62_S	67_I	0.877	0.25
106_I	201_T	0.870	0.24
72_G	175_L	0.867	0.24
112_W	176_G	0.865	0.24
105_I	209_L	0.859	0.24
36_Q	40_K	0.856	0.24
140_L	244_I	0.856	0.24
31_R	172_A	0.853	0.24
51_R	244_I	0.850	0.23
108_S	146_F	0.847	0.23
101_L	235_I	0.845	0.23
34_S	187_I	0.842	0.23
231_P	238_V	0.840	0.23
202_V	206_V	0.837	0.23
44_K	138_V	0.832	0.23
137_L	184_A	0.827	0.23
71_C	233_D	0.825	0.23
50_E	260_I	0.825	0.23
244_I	251_V	0.816	0.22
77_I	235_I	0.815	0.22
99_S	236_Y	0.814	0.22
97_L	236_Y	0.808	0.22
161_M	237_C	0.797	0.22
152_F	187_I	0.795	0.22
37_S	45_Q	0.789	0.21
106_I	243_A	0.788	0.21
145_I	150_M	0.780	0.21
240_A	249_T	0.773	0.21
103_F	179_L	0.773	0.21
220_V	239_F	0.771	0.21
108_S	173_A	0.770	0.21
80_S	157_V	0.769	0.21
158_S	175_L	0.761	0.20
44_K	185_V	0.760	0.20
57_K	60_L	0.760	0.20
78_L	206_V	0.755	0.20
191_I	206_V	0.751	0.20
171_A	234_Y	0.746	0.20
143_L	190_L	0.744	0.20
137_L	260_I	0.743	0.20
130_H	137_L	0.738	0.20
85_V	200_L	0.737	0.20
105_I	234_Y	0.736	0.20
77_I	184_A	0.736	0.20
176_G	225_Q	0.735	0.19
100_M	255_F	0.735	0.19
75_F	79_K	0.734	0.19
182_V	215_I	0.732	0.19
226_A	232_I	0.731	0.19
97_L	117_A	0.731	0.19
72_G	187_I	0.720	0.19
108_S	139_V	0.720	0.19
148_A	232_I	0.717	0.19
93_Y	96_G	0.715	0.19
58_D	163_K	0.714	0.19
136_F	183_I	0.710	0.19
100_M	104_S	0.709	0.19
212_I	244_I	0.706	0.19
74_A	154_I	0.701	0.18
243_A	251_V	0.701	0.18
152_F	247_L	0.700	0.18
155_W	171_A	0.700	0.18
47_P	194_I	0.698	0.18
74_A	157_V	0.694	0.18
63_V	186_S	0.694	0.18
149_V	161_M	0.689	0.18
70_Y	177_S	0.688	0.18
68_N	102_I	0.688	0.18
77_I	177_S	0.682	0.18
220_V	248_F	0.679	0.18
180_V	233_D	0.672	0.18
72_G	207_L	0.670	0.17
103_F	154_I	0.669	0.17
105_I	168_F	0.667	0.17
71_C	85_V	0.665	0.17
50_E	205_T	0.663	0.17
82_A	181_P	0.661	0.17
95_Y	119_W	0.660	0.17
31_R	35_R	0.660	0.17
42_K	45_Q	0.658	0.17
70_Y	181_P	0.656	0.17
243_A	250_A	0.651	0.17
133_Y	258_E	0.650	0.17
60_L	95_Y	0.650	0.17
134_D	145_I	0.649	0.17
203_L	212_I	0.646	0.17
101_L	113_F	0.646	0.17
53_E	248_F	0.645	0.17
82_A	233_D	0.643	0.17
100_M	236_Y	0.631	0.16
73_F	173_A	0.630	0.16
78_L	215_I	0.624	0.16
105_I	247_L	0.622	0.16
76_S	95_Y	0.618	0.16
107_F	125_F	0.614	0.16
155_W	205_T	0.609	0.16
85_V	231_P	0.609	0.16
98_I	179_L	0.606	0.16
145_I	239_F	0.605	0.16
111_N	260_I	0.605	0.16
145_I	205_T	0.604	0.16
173_A	237_C	0.602	0.16
105_I	206_V	0.601	0.16
101_L	206_V	0.600	0.15
72_G	104_S	0.596	0.15
32_K	38_K	0.594	0.15
47_P	53_E	0.592	0.15
58_D	109_I	0.592	0.15
77_I	255_F	0.591	0.15
50_E	133_Y	0.590	0.15
63_V	79_K	0.586	0.15
156_A	185_V	0.586	0.15
210_F	244_I	0.585	0.15
130_H	214_F	0.585	0.15
85_V	241_V	0.584	0.15
149_V	214_F	0.583	0.15
126_G	188_L	0.582	0.15
77_I	95_Y	0.581	0.15
32_K	240_A	0.577	0.15
140_L	251_V	0.577	0.15
132_F	179_L	0.575	0.15
60_L	247_L	0.574	0.15
101_L	185_V	0.574	0.15
72_G	185_V	0.574	0.15
176_G	233_D	0.572	0.15
67_I	145_I	0.572	0.15
179_L	215_I	0.571	0.15
145_I	167_T	0.571	0.15
108_S	174_V	0.569	0.15
186_S	190_L	0.569	0.15
118_S	150_M	0.567	0.15
63_V	116_K	0.566	0.15
97_L	213_F	0.562	0.14
195_V	257_S	0.556	0.14
101_L	188_L	0.554	0.14
141_V	260_I	0.553	0.14
247_L	251_V	0.551	0.14
41_Q	140_L	0.547	0.14
181_P	201_T	0.546	0.14
80_S	145_I	0.546	0.14
77_I	234_Y	0.545	0.14
195_V	237_C	0.539	0.14
140_L	191_I	0.536	0.14
117_A	172_A	0.535	0.14
72_G	237_C	0.535	0.14
89_G	176_G	0.528	0.14
92_H	170_E	0.527	0.14
191_I	234_Y	0.527	0.14
168_F	237_C	0.526	0.14
252_T	260_I	0.526	0.14
63_V	109_I	0.524	0.14
53_E	167_T	0.523	0.14
214_F	217_A	0.523	0.14
69_R	108_S	0.523	0.14
146_F	179_L	0.520	0.13
41_Q	44_K	0.520	0.13
101_L	109_I	0.515	0.13
107_F	201_T	0.514	0.13
73_F	255_F	0.514	0.13
39_Q	83_K	0.514	0.13
59_K	73_F	0.514	0.13
32_K	106_I	0.510	0.13
35_R	39_Q	0.506	0.13
103_F	180_V	0.506	0.13
78_L	180_V	0.505	0.13
97_L	167_T	0.505	0.13
157_V	219_Y	0.503	0.13
85_V	215_I	0.502	0.13
149_V	249_T	0.500	0.13

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
4febA	3	0.0712	66.2	0.925	Contact Map
5a63B	1	0.3895	43.1	0.935	Contact Map
3wdoA	1	0.2547	36.2	0.938	Contact Map
4l3aA	1	0.0225	20.7	0.945	Contact Map
4ui9I	1	0.0449	20.2	0.945	Contact Map
3wqtA	2	0	11.3	0.951	Contact Map
3wu2Z	1	0.2247	8.8	0.953	Contact Map
4pj3A	1	0	7.9	0.954	Contact Map
3m0cC	1	0.0112	5.5	0.958	Contact Map
3syjA	2	0.015	5.4	0.958	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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