YKGG - ECOLI - GREMLIN Contacts

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YKGG - Uncharacterized protein YkgG

UniProt:	P77433	Sequences: MDNRGEFLNNVAQALGRPLRLEPQAEDAPLNNYANERLTQLNQQQRCDAFIQFASDVMLTRCELTSEAKAAEAAIRLCKELGDQSVVISGDTRLEELGISERLQQECNAVVWDPAKGAENISQAEQAKVGVVYAEYGLTESGGVVLFSAAERGRSLSLLPEYSLFILRKSTILPRVAQLAEKLHQKAQAGERMPSCINIISGPSSTADIELIKVVGVHGPVKAVYLIIEDC	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13584
Length:	231 (205)
Sequences:	2898 (1991)
Seq/√Len:	139.1

ECOLI - YKGG YKGF
BACSU - LUTC LUTB
HALSA - Q9HHI3 Q9HHI4
SULSO - Q97U90

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
54_A	59_L	3.456	1.00
76_R	80_E	3.303	1.00
54_A	225_Y	3.176	1.00
72_E	76_R	3.080	1.00
143_G	199_I	2.924	1.00
51_I	55_S	2.875	1.00
78_C	129_V	2.769	1.00
143_G	201_S	2.679	1.00
83_D	129_V	2.612	1.00
137_G	167_L	2.598	1.00
129_V	164_L	2.533	1.00
132_V	163_S	2.465	1.00
66_S	69_K	2.396	1.00
50_F	137_G	2.387	1.00
175_R	178_Q	2.364	1.00
81_L	222_K	2.308	1.00
84_Q	128_K	2.293	1.00
50_F	225_Y	2.262	1.00
42_N	45_Q	2.258	1.00
65_T	69_K	2.221	1.00
50_F	54_A	2.208	1.00
161_E	221_V	2.186	1.00
59_L	223_A	2.084	1.00
53_F	56_D	2.071	1.00
134_A	137_G	1.977	1.00
54_A	223_A	1.976	1.00
69_K	72_E	1.782	1.00
162_Y	222_K	1.764	1.00
168_R	171_T	1.764	1.00
128_K	161_E	1.736	1.00
86_V	131_V	1.732	1.00
52_Q	55_S	1.726	1.00
62_C	73_A	1.704	1.00
145_V	199_I	1.704	1.00
75_I	102_R	1.683	1.00
73_A	77_L	1.678	1.00
49_A	52_Q	1.673	1.00
162_Y	224_V	1.620	1.00
166_I	228_I	1.598	1.00
85_S	128_K	1.585	1.00
130_G	160_P	1.581	1.00
134_A	171_T	1.576	1.00
134_A	165_F	1.574	1.00
48_D	52_Q	1.562	1.00
180_A	184_H	1.535	1.00
129_V	162_Y	1.521	1.00
134_A	167_L	1.518	1.00
49_A	53_F	1.498	1.00
169_K	227_I	1.495	1.00
122_S	126_Q	1.488	1.00
59_L	225_Y	1.472	1.00
94_L	166_I	1.470	1.00
47_C	172_I	1.465	1.00
145_V	179_L	1.424	1.00
62_C	224_V	1.418	1.00
46_R	174_P	1.389	1.00
68_A	72_E	1.374	1.00
81_L	162_Y	1.372	1.00
28_A	31_N	1.320	1.00
144_V	165_F	1.295	1.00
87_V	127_A	1.284	1.00
167_L	227_I	1.256	1.00
140_E	175_R	1.238	1.00
45_Q	48_D	1.230	1.00
38_L	42_N	1.229	1.00
89_S	152_R	1.227	1.00
83_D	128_K	1.226	1.00
78_C	83_D	1.222	1.00
51_I	63_E	1.216	1.00
179_L	182_K	1.204	1.00
174_P	178_Q	1.199	1.00
136_Y	173_L	1.186	1.00
31_N	35_N	1.185	1.00
29_P	33_Y	1.184	1.00
74_A	226_L	1.179	1.00
75_I	79_K	1.178	1.00
87_V	156_L	1.175	1.00
144_V	223_A	1.171	0.99
73_A	76_R	1.165	0.99
173_L	179_L	1.143	0.99
204_S	208_D	1.139	0.99
11_V	15_L	1.134	0.99
172_I	227_I	1.116	0.99
38_L	46_R	1.111	0.99
136_Y	179_L	1.102	0.99
164_L	226_L	1.092	0.99
90_G	151_E	1.088	0.99
78_C	164_L	1.080	0.99
206_T	209_I	1.078	0.99
130_G	156_L	1.072	0.99
57_V	201_S	1.064	0.99
60_T	224_V	1.059	0.99
60_T	222_K	1.056	0.99
52_Q	56_D	1.044	0.99
99_I	103_L	1.043	0.99
138_L	179_L	1.038	0.99
9_N	13_Q	1.034	0.99
179_L	184_H	1.031	0.99
47_C	51_I	1.021	0.99
89_S	153_G	1.013	0.99
169_K	229_E	0.995	0.98
208_D	220_P	0.992	0.98
110_V	114_P	0.991	0.98
33_Y	36_E	0.976	0.98
93_R	228_I	0.967	0.98
102_R	105_Q	0.966	0.98
77_L	162_Y	0.957	0.98
204_S	210_E	0.952	0.98
167_L	225_Y	0.949	0.98
15_L	19_L	0.937	0.98
67_E	168_R	0.934	0.97
80_E	222_K	0.927	0.97
85_S	126_Q	0.914	0.97
97_L	166_I	0.913	0.97
85_S	123_Q	0.912	0.97
28_A	32_N	0.912	0.97
202_G	219_G	0.911	0.97
73_A	226_L	0.902	0.97
133_Y	168_R	0.897	0.97
124_A	159_L	0.896	0.97
32_N	36_E	0.894	0.97
42_N	46_R	0.887	0.97
37_R	40_Q	0.886	0.97
101_E	104_Q	0.872	0.96
50_F	53_F	0.869	0.96
15_L	20_R	0.868	0.96
183_L	197_I	0.867	0.96
61_R	64_L	0.863	0.96
109_A	113_D	0.860	0.96
143_G	176_V	0.857	0.96
31_N	34_A	0.856	0.96
95_E	100_S	0.852	0.96
98_G	101_E	0.850	0.96
47_C	227_I	0.850	0.96
64_L	229_E	0.848	0.96
57_V	202_G	0.843	0.95
125_E	159_L	0.840	0.95
112_W	116_K	0.837	0.95
157_S	200_I	0.836	0.95
204_S	209_I	0.831	0.95
114_P	118_A	0.829	0.95
47_C	63_E	0.826	0.95
58_M	64_L	0.826	0.95
154_R	157_S	0.825	0.95
83_D	162_Y	0.820	0.95
89_S	156_L	0.815	0.94
135_E	147_F	0.811	0.94
135_E	152_R	0.810	0.94
39_T	46_R	0.809	0.94
51_I	61_R	0.806	0.94
64_L	226_L	0.805	0.94
133_Y	151_E	0.804	0.94
132_V	157_S	0.800	0.94
70_A	228_I	0.799	0.94
57_V	205_S	0.797	0.94
101_E	105_Q	0.791	0.94
69_K	73_A	0.788	0.93
58_M	62_C	0.787	0.93
73_A	224_V	0.785	0.93
176_V	199_I	0.785	0.93
74_A	166_I	0.775	0.93
93_R	167_L	0.769	0.93
29_P	32_N	0.768	0.93
21_L	24_Q	0.767	0.93
59_L	62_C	0.764	0.92
18_P	22_E	0.763	0.92
205_S	220_P	0.762	0.92
94_L	131_V	0.757	0.92
58_M	61_R	0.756	0.92
92_T	95_E	0.746	0.91
74_A	164_L	0.744	0.91
64_L	73_A	0.742	0.91
44_Q	63_E	0.734	0.91
123_Q	126_Q	0.729	0.91
116_K	120_N	0.728	0.90
89_S	132_V	0.727	0.90
50_F	172_I	0.727	0.90
113_D	116_K	0.726	0.90
155_S	158_L	0.724	0.90
89_S	130_G	0.720	0.90
136_Y	182_K	0.716	0.90
157_S	163_S	0.714	0.90
111_V	114_P	0.712	0.89
179_L	199_I	0.711	0.89
144_V	167_L	0.709	0.89
206_T	210_E	0.709	0.89
30_L	33_Y	0.706	0.89
208_D	219_G	0.706	0.89
173_L	182_K	0.705	0.89
57_V	60_T	0.704	0.89
86_V	129_V	0.696	0.88
68_A	71_A	0.694	0.88
110_V	113_D	0.693	0.88
47_C	169_K	0.690	0.88
70_A	97_L	0.685	0.88
59_L	64_L	0.680	0.87
205_S	208_D	0.678	0.87
70_A	74_A	0.678	0.87
64_L	70_A	0.678	0.87
90_G	150_A	0.677	0.87
43_Q	47_C	0.677	0.87
17_R	21_L	0.675	0.87
138_L	173_L	0.672	0.87
153_G	196_C	0.661	0.86
148_S	198_N	0.661	0.86
32_N	35_N	0.661	0.86
122_S	125_E	0.660	0.86
61_R	65_T	0.660	0.86
140_E	177_A	0.660	0.86
41_L	45_Q	0.656	0.85
75_I	78_C	0.655	0.85
145_V	197_I	0.654	0.85
141_S	201_S	0.647	0.84
92_T	96_E	0.646	0.84
77_L	224_V	0.644	0.84
154_R	158_L	0.643	0.84
127_A	160_P	0.638	0.84
19_L	22_E	0.636	0.83
54_A	137_G	0.635	0.83
30_L	34_A	0.635	0.83
141_S	199_I	0.635	0.83
120_N	123_Q	0.632	0.83
185_Q	197_I	0.631	0.83
135_E	149_A	0.631	0.83
147_F	152_R	0.631	0.83
29_P	36_E	0.630	0.83
43_Q	46_R	0.627	0.83
99_I	131_V	0.625	0.82
88_I	95_E	0.624	0.82
63_E	169_K	0.624	0.82
138_L	176_V	0.622	0.82
205_S	221_V	0.620	0.82
141_S	145_V	0.618	0.82
109_A	112_W	0.617	0.82
209_I	219_G	0.616	0.81
158_L	196_C	0.612	0.81
72_E	102_R	0.610	0.81
28_A	33_Y	0.609	0.81
46_R	172_I	0.609	0.81
204_S	221_V	0.607	0.81
51_I	227_I	0.604	0.80
71_A	74_A	0.602	0.80
201_S	205_S	0.601	0.80
202_G	220_P	0.598	0.80
91_D	94_L	0.595	0.79
117_G	120_N	0.594	0.79
19_L	23_P	0.585	0.78
204_S	219_G	0.585	0.78
135_E	151_E	0.585	0.78
12_A	19_L	0.585	0.78
9_N	19_L	0.584	0.78
204_S	207_A	0.583	0.78
137_G	227_I	0.582	0.78
124_A	127_A	0.579	0.77
76_R	79_K	0.576	0.77
158_L	208_D	0.576	0.77
70_A	166_I	0.576	0.77
200_I	204_S	0.574	0.77
65_T	73_A	0.573	0.77
130_G	157_S	0.570	0.76
49_A	139_T	0.569	0.76
138_L	175_R	0.569	0.76
100_S	103_L	0.568	0.76
83_D	164_L	0.567	0.76
37_R	41_L	0.566	0.76
62_C	77_L	0.564	0.76
179_L	183_L	0.562	0.75
165_F	225_Y	0.560	0.75
55_S	60_T	0.558	0.75
113_D	119_E	0.557	0.75
18_P	23_P	0.555	0.74
67_E	71_A	0.554	0.74
18_P	21_L	0.553	0.74
137_G	171_T	0.553	0.74
96_E	101_E	0.549	0.74
136_Y	145_V	0.547	0.73
148_S	153_G	0.547	0.73
49_A	174_P	0.546	0.73
144_V	157_S	0.545	0.73
202_G	207_A	0.543	0.73
153_G	198_N	0.543	0.73
131_V	166_I	0.540	0.72
119_E	122_S	0.540	0.72
48_D	51_I	0.538	0.72
112_W	115_A	0.536	0.72
50_F	223_A	0.536	0.72
74_A	97_L	0.534	0.72
154_R	200_I	0.534	0.72
176_V	180_A	0.533	0.71
15_L	203_P	0.532	0.71
44_Q	48_D	0.531	0.71
143_G	197_I	0.528	0.71
205_S	210_E	0.524	0.70
77_L	80_E	0.521	0.70
15_L	18_P	0.519	0.69
11_V	16_G	0.517	0.69
48_D	55_S	0.516	0.69
135_E	171_T	0.515	0.69
40_Q	46_R	0.514	0.69
149_A	171_T	0.513	0.69
78_C	102_R	0.513	0.69
206_T	219_G	0.512	0.68
157_S	160_P	0.512	0.68
46_R	139_T	0.511	0.68
71_A	228_I	0.507	0.68
160_P	207_A	0.507	0.68
82_G	105_Q	0.504	0.67
206_T	220_P	0.500	0.67

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
2g40A	2	0.7056	100	0.258	Contact Map
3cf4A	2	0.8615	95.5	0.9	Contact Map
1yksA	1	0.3853	53.5	0.941	Contact Map
3brcA	4	0.6061	45.4	0.944	Contact Map
3cl6A	3	0.3377	25.6	0.951	Contact Map
4ct4B	1	0.5541	24.6	0.951	Contact Map
4qbnA	2	0.3377	19.8	0.953	Contact Map
2zj8A	2	0.5152	19.5	0.953	Contact Map
2v6iA	1	0.3203	17.7	0.954	Contact Map
2z83A	1	0.3463	17	0.954	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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