YGID - ECOLI - GREMLIN Contacts

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YGID - Uncharacterized protein YgiD

UniProt:	P24197	Sequences: MSSTRMPALFLGHGSPMNVLEDNLYTRSWQKLGMTLPRPQAIVVVSAHWFTRGTGVTAMETPPTIHDFGGFPQALYDTHYPAPGSPALAQRLVELLAPIPVTLDKEAWGFDHGSWGVLIKMYPDADIPMVQLSIDSSKPAAWHFEMGRKLAALRDEGIMLVASGNVVHNLRTVKWHGDSSPYPWATSFNEYVKANLTWQGPVEQHPLVNYLDHEGGTLSNPTPEHYLPLLYVLGAWDGQEPITIPVEGIEMGSLSMLSVQIG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11166
Length:	262 (251)
Sequences:	2075 (1445)
Seq/√Len:	91.2

ECOLI - YGID
SULSO - Q97X42 Q97WR5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
91_R	156_E	7.443	1.00
73_Q	77_D	5.649	1.00
38_R	126_D	4.073	1.00
40_Q	157_G	3.327	1.00
203_E	206_P	3.304	1.00
187_S	215_G	3.177	1.00
145_E	148_R	3.044	1.00
141_A	145_E	2.775	1.00
226_Y	230_L	2.684	1.00
41_A	158_I	2.662	1.00
58_A	105_K	2.651	1.00
85_S	130_V	2.625	1.00
22_D	27_R	2.621	1.00
209_N	212_D	2.612	1.00
7_P	154_R	2.533	1.00
65_I	109_G	2.422	1.00
211_L	217_T	2.409	1.00
93_V	105_K	2.302	1.00
139_P	142_W	2.277	1.00
43_V	132_L	2.205	1.00
166_V	192_V	2.190	1.00
42_I	127_I	2.114	1.00
160_L	235_A	2.006	1.00
78_T	119_I	1.975	1.00
172_T	218_L	1.948	1.00
118_L	129_M	1.945	1.00
86_P	89_A	1.904	1.00
45_V	231_Y	1.865	1.00
54_T	135_D	1.852	1.00
194_A	198_W	1.841	1.00
135_D	143_H	1.836	1.00
192_V	226_Y	1.805	1.00
95_L	152_A	1.762	1.00
43_V	160_L	1.755	1.00
162_A	232_V	1.726	1.00
11_L	161_V	1.721	1.00
12_G	165_N	1.681	1.00
144_F	204_Q	1.674	1.00
55_G	106_E	1.662	1.00
43_V	92_L	1.651	1.00
50_F	224_E	1.651	1.00
57_T	131_Q	1.650	1.00
189_N	257_L	1.643	1.00
210_Y	216_G	1.617	1.00
47_A	224_E	1.594	1.00
147_G	234_G	1.579	1.00
56_V	93_V	1.576	1.00
66_H	79_H	1.576	1.00
6_M	122_Y	1.575	1.00
50_F	222_T	1.540	1.00
55_G	104_D	1.520	1.00
74_A	77_D	1.511	1.00
44_V	114_S	1.502	1.00
53_G	135_D	1.499	1.00
134_I	224_E	1.494	1.00
56_V	92_L	1.491	1.00
93_V	103_L	1.470	1.00
8_A	235_A	1.447	0.99
147_G	235_A	1.445	0.99
63_P	108_W	1.437	0.99
91_R	95_L	1.436	0.99
195_N	206_P	1.431	0.99
138_K	142_W	1.430	0.99
110_F	114_S	1.430	0.99
92_L	130_V	1.423	0.99
50_F	136_S	1.422	0.99
90_Q	94_E	1.405	0.99
95_L	153_L	1.391	0.99
191_Y	195_N	1.390	0.99
191_Y	213_H	1.374	0.99
8_A	232_V	1.372	0.99
165_N	256_M	1.352	0.99
44_V	118_L	1.347	0.99
23_N	26_T	1.344	0.99
68_F	115_W	1.343	0.99
31_K	34_M	1.340	0.99
183_P	187_S	1.320	0.99
44_V	161_V	1.297	0.99
90_Q	105_K	1.289	0.99
189_N	255_S	1.288	0.99
64_T	110_F	1.266	0.99
25_Y	248_G	1.249	0.98
91_R	94_E	1.249	0.98
6_M	159_M	1.248	0.98
83_P	86_P	1.222	0.98
135_D	142_W	1.221	0.98
11_L	29_W	1.211	0.98
40_Q	156_E	1.206	0.98
134_I	227_L	1.204	0.98
92_L	95_L	1.195	0.98
195_N	203_E	1.193	0.98
54_T	146_M	1.189	0.98
81_P	125_A	1.166	0.98
148_R	204_Q	1.163	0.98
209_N	213_H	1.160	0.97
189_N	193_K	1.159	0.97
186_T	190_E	1.142	0.97
84_G	89_A	1.141	0.97
144_F	233_L	1.139	0.97
99_I	149_K	1.138	0.97
244_I	257_L	1.112	0.97
193_K	197_T	1.111	0.97
114_S	131_Q	1.097	0.96
205_H	209_N	1.097	0.96
43_V	130_V	1.096	0.96
41_A	88_L	1.093	0.96
70_G	76_Y	1.073	0.96
189_N	247_E	1.071	0.96
19_V	116_G	1.066	0.96
143_H	231_Y	1.058	0.96
64_T	82_A	1.058	0.96
190_E	194_A	1.048	0.95
151_A	237_D	1.047	0.95
110_F	129_M	1.047	0.95
6_M	37_P	1.039	0.95
88_L	92_L	1.032	0.95
144_F	208_V	1.020	0.95
224_E	227_L	1.012	0.94
56_V	105_K	1.011	0.94
87_A	90_Q	1.011	0.94
56_V	132_L	1.010	0.94
88_L	130_V	1.009	0.94
85_S	88_L	1.008	0.94
140_A	210_Y	1.002	0.94
144_F	148_R	1.001	0.94
94_E	98_P	0.999	0.94
69_G	73_Q	0.998	0.94
210_Y	213_H	0.997	0.94
49_W	131_Q	0.994	0.94
45_V	150_L	0.991	0.94
122_Y	159_M	0.990	0.94
172_T	184_W	0.980	0.93
17_M	75_L	0.979	0.93
6_M	157_G	0.974	0.93
141_A	208_V	0.968	0.93
181_P	186_T	0.966	0.93
75_L	115_W	0.962	0.93
71_F	76_Y	0.961	0.93
43_V	158_I	0.949	0.92
39_P	122_Y	0.946	0.92
11_L	117_V	0.941	0.92
29_W	120_K	0.935	0.92
148_R	151_A	0.933	0.92
90_Q	93_V	0.928	0.91
38_R	127_I	0.926	0.91
42_I	80_Y	0.925	0.91
45_V	132_L	0.909	0.91
39_P	127_I	0.899	0.90
85_S	92_L	0.897	0.90
27_R	30_Q	0.883	0.89
19_V	119_I	0.879	0.89
72_P	76_Y	0.878	0.89
12_G	220_N	0.871	0.89
122_Y	126_D	0.864	0.88
30_Q	34_M	0.861	0.88
15_S	18_N	0.857	0.88
204_Q	208_V	0.842	0.87
96_L	149_K	0.841	0.87
73_Q	76_Y	0.841	0.87
138_K	222_T	0.837	0.87
46_S	114_S	0.835	0.87
185_A	249_I	0.835	0.87
26_T	120_K	0.833	0.86
42_I	159_M	0.830	0.86
64_T	79_H	0.830	0.86
19_V	120_K	0.815	0.85
93_V	97_A	0.811	0.85
28_S	258_S	0.807	0.85
244_I	247_E	0.805	0.84
43_V	157_G	0.803	0.84
46_S	57_T	0.803	0.84
68_F	75_L	0.800	0.84
8_A	154_R	0.794	0.84
145_E	149_K	0.792	0.84
19_V	78_T	0.787	0.83
243_T	260_Q	0.782	0.83
166_V	257_L	0.780	0.83
51_T	55_G	0.780	0.83
24_L	248_G	0.773	0.82
142_W	145_E	0.772	0.82
54_T	132_L	0.771	0.82
22_D	26_T	0.764	0.81
249_I	255_S	0.763	0.81
184_W	218_L	0.763	0.81
52_R	137_S	0.761	0.81
188_F	191_Y	0.760	0.81
28_S	31_K	0.759	0.81
113_G	131_Q	0.758	0.81
211_L	223_P	0.756	0.81
26_T	30_Q	0.755	0.80
82_A	110_F	0.752	0.80
96_L	146_M	0.745	0.80
116_G	119_I	0.736	0.79
182_Y	253_S	0.734	0.79
13_H	16_P	0.731	0.78
152_A	155_D	0.728	0.78
245_P	248_G	0.725	0.78
96_L	101_V	0.719	0.77
223_P	227_L	0.717	0.77
20_L	75_L	0.716	0.77
255_S	258_S	0.715	0.77
57_T	110_F	0.713	0.77
42_I	166_V	0.712	0.76
69_G	76_Y	0.711	0.76
191_Y	214_E	0.710	0.76
50_F	134_I	0.708	0.76
43_V	153_L	0.706	0.76
33_G	122_Y	0.702	0.75
59_M	110_F	0.702	0.75
21_E	74_A	0.701	0.75
19_V	75_L	0.699	0.75
139_P	143_H	0.698	0.75
135_D	138_K	0.697	0.75
9_L	35_T	0.697	0.75
184_W	219_S	0.694	0.75
62_P	110_F	0.693	0.75
9_L	32_L	0.687	0.74
82_A	125_A	0.686	0.74
167_V	220_N	0.683	0.73
230_L	233_L	0.675	0.73
68_F	167_V	0.674	0.72
210_Y	223_P	0.672	0.72
167_V	219_S	0.672	0.72
192_V	229_L	0.672	0.72
193_K	244_I	0.672	0.72
92_L	132_L	0.670	0.72
244_I	259_V	0.668	0.72
20_L	74_A	0.665	0.71
61_T	81_P	0.664	0.71
183_P	186_T	0.661	0.71
17_M	21_E	0.660	0.71
213_H	216_G	0.660	0.71
35_T	260_Q	0.658	0.71
144_F	230_L	0.656	0.70
9_L	121_M	0.652	0.70
247_E	257_L	0.649	0.70
58_A	93_V	0.647	0.69
47_A	50_F	0.646	0.69
143_H	227_L	0.645	0.69
54_T	143_H	0.643	0.69
249_I	257_L	0.642	0.69
9_L	260_Q	0.641	0.69
237_D	240_E	0.640	0.69
124_D	145_E	0.638	0.68
49_W	108_W	0.638	0.68
18_N	116_G	0.637	0.68
63_P	107_A	0.635	0.68
229_L	259_V	0.632	0.68
40_Q	85_S	0.631	0.67
10_F	14_G	0.630	0.67
47_A	163_S	0.630	0.67
33_G	36_L	0.629	0.67
64_T	131_Q	0.628	0.67
39_P	42_I	0.628	0.67
187_S	190_E	0.628	0.67
131_Q	163_S	0.627	0.67
12_G	18_N	0.624	0.67
90_Q	148_R	0.624	0.67
140_A	226_Y	0.623	0.66
65_I	115_W	0.623	0.66
185_A	219_S	0.623	0.66
206_P	209_N	0.620	0.66
64_T	81_P	0.620	0.66
238_G	241_P	0.620	0.66
36_L	121_M	0.617	0.66
57_T	130_V	0.613	0.65
203_E	207_L	0.612	0.65
50_F	223_P	0.610	0.65
62_P	81_P	0.607	0.64
69_G	72_P	0.606	0.64
67_D	71_F	0.605	0.64
154_R	157_G	0.605	0.64
13_H	163_S	0.603	0.64
66_H	115_W	0.600	0.64
51_T	133_S	0.600	0.64
80_Y	123_P	0.600	0.64
11_L	121_M	0.599	0.63
166_V	255_S	0.599	0.63
151_A	238_G	0.599	0.63
100_P	145_E	0.598	0.63
54_T	134_I	0.597	0.63
17_M	72_P	0.597	0.63
60_E	86_P	0.596	0.63
64_T	115_W	0.595	0.63
31_K	35_T	0.595	0.63
204_Q	233_L	0.595	0.63
140_A	223_P	0.593	0.63
95_L	158_I	0.593	0.63
95_L	156_E	0.593	0.63
18_N	165_N	0.593	0.63
140_A	227_L	0.590	0.62
207_L	233_L	0.588	0.62
193_K	257_L	0.586	0.62
138_K	143_H	0.583	0.61
33_G	167_V	0.583	0.61
62_P	84_G	0.581	0.61
193_K	247_E	0.580	0.61
57_T	64_T	0.578	0.61
141_A	205_H	0.576	0.60
210_Y	217_T	0.575	0.60
24_L	28_S	0.574	0.60
208_V	230_L	0.573	0.60
101_V	146_M	0.568	0.59
30_Q	120_K	0.567	0.59
69_G	79_H	0.567	0.59
243_T	259_V	0.563	0.59
97_A	102_T	0.563	0.59
97_A	101_V	0.562	0.59
226_Y	240_E	0.562	0.59
29_W	191_Y	0.562	0.59
101_V	149_K	0.562	0.59
61_T	83_P	0.561	0.58
167_V	170_L	0.561	0.58
198_W	203_E	0.560	0.58
188_F	216_G	0.558	0.58
185_A	253_S	0.557	0.58
167_V	184_W	0.557	0.58
115_W	167_V	0.554	0.58
16_P	71_F	0.553	0.57
181_P	184_W	0.553	0.57
56_V	130_V	0.553	0.57
49_W	134_I	0.553	0.57
17_M	20_L	0.553	0.57
52_R	104_D	0.552	0.57
196_L	259_V	0.552	0.57
210_Y	226_Y	0.551	0.57
178_D	181_P	0.551	0.57
220_N	224_E	0.550	0.57
194_A	197_T	0.549	0.57
129_M	159_M	0.549	0.57
190_E	193_K	0.547	0.57
166_V	196_L	0.547	0.57
65_I	170_L	0.546	0.56
12_G	167_V	0.546	0.56
195_N	198_W	0.546	0.56
44_V	162_A	0.544	0.56
42_I	121_M	0.544	0.56
169_N	172_T	0.542	0.56
90_Q	190_E	0.541	0.56
29_W	189_N	0.541	0.56
41_A	153_L	0.541	0.56
79_H	119_I	0.540	0.56
98_P	149_K	0.537	0.55
204_Q	236_W	0.536	0.55
165_N	245_P	0.536	0.55
32_L	36_L	0.535	0.55
12_G	166_V	0.534	0.55
62_P	143_H	0.534	0.55
223_P	230_L	0.533	0.55
117_V	120_K	0.533	0.55
59_M	131_Q	0.527	0.54
217_T	223_P	0.527	0.54
8_A	157_G	0.526	0.54
47_A	225_H	0.520	0.53
215_G	218_L	0.519	0.53
68_F	184_W	0.518	0.53
154_R	240_E	0.517	0.52
153_L	158_I	0.514	0.52
194_A	206_P	0.514	0.52
199_Q	236_W	0.513	0.52
82_A	123_P	0.513	0.52
10_F	13_H	0.512	0.52
67_D	70_G	0.512	0.52
27_R	31_K	0.508	0.51
140_A	234_G	0.507	0.51
253_S	257_L	0.506	0.51
214_E	249_I	0.506	0.51
248_G	251_M	0.505	0.51
89_A	105_K	0.505	0.51
37_P	157_G	0.505	0.51
48_H	168_H	0.503	0.51
11_L	32_L	0.502	0.50
83_P	89_A	0.501	0.50
30_Q	148_R	0.501	0.50
149_K	152_A	0.501	0.50
134_I	234_G	0.500	0.50

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
2pw6A	2	0.9313	100	0.243	Contact Map
1b4uB	2	0.9198	100	0.541	Contact Map
3wraA	2	0.9084	100	0.546	Contact Map
3vsjA	1	0.958	100	0.564	Contact Map
3vsjB	2	0.9504	100	0.589	Contact Map
3bczA	1	0.8969	100	0.664	Contact Map
3hxkA	3	0.6565	80.4	0.954	Contact Map
4lqcA	2	0.4962	66.4	0.959	Contact Map
3bjrA	2	0.6565	64.9	0.959	Contact Map
1fj2A	2	0.6794	63.1	0.96	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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