YLOC - BACSU - GREMLIN Contacts

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YLOC - UPF0701 protein YloC

UniProt:	O34441	Sequences: MIRSMTGFGSASKTQDDLSVSVELKSVNYRFKEVNARLPRPLLYFEDKLKQTILQHIQRGRIELFVSVDSDMLVEKRLEIDWPLLDEFVAAARDMKKRYQLSAEPDVMDFFKLDHVVQVHEEQTQNDKLEALIIDAAEEAVKGLCEMREKEGLLLAKDCLMHIDQLEELVRETELLAADVVSRYRERLYARIKEWTEDVLDESRLVTECAIFADRSDITEEITRLKSHFAQFRDILASGGAVGRKLDFLVQELNREANTIGSKANDHQITKLVVEMKSSIEKIKEQVQNIE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	291 (288)
Sequences:	2345 (1772)
Seq/√Len:	104.4

ECOLI - YICC
BACSU - YLOC

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
167_E	233_R	4.666	1.00
56_H	142_K	3.918	1.00
174_E	226_K	3.773	1.00
186_E	190_A	3.366	1.00
52_T	138_E	3.336	1.00
261_G	273_V	3.224	1.00
82_W	94_D	3.166	1.00
86_D	98_R	3.071	1.00
3_R	149_E	2.888	1.00
57_I	62_I	2.784	1.00
26_S	144_L	2.769	1.00
49_L	137_A	2.753	1.00
176_L	266_D	2.519	1.00
164_D	233_R	2.487	1.00
81_D	118_Q	2.451	1.00
22_V	66_V	2.402	1.00
156_A	160_L	2.391	1.00
57_I	144_L	2.389	1.00
162_H	279_S	2.316	1.00
166_L	276_M	2.275	1.00
156_A	237_A	2.180	1.00
11_A	136_A	2.157	1.00
182_S	186_E	2.141	1.00
257_A	276_M	2.118	1.00
106_D	109_D	2.076	1.00
257_A	280_I	2.026	1.00
163_I	232_F	1.931	1.00
36_A	49_L	1.914	1.00
53_I	64_L	1.891	1.00
56_H	145_C	1.889	1.00
160_L	233_R	1.886	1.00
167_E	230_A	1.859	1.00
158_D	162_H	1.854	1.00
158_D	223_T	1.831	1.00
85_L	95_M	1.814	1.00
169_L	272_L	1.800	1.00
159_C	283_I	1.792	1.00
190_A	194_E	1.788	1.00
162_H	219_T	1.782	1.00
82_W	98_R	1.764	1.00
185_R	189_Y	1.759	1.00
154_L	227_S	1.741	1.00
53_I	141_V	1.739	1.00
149_E	153_L	1.722	1.00
3_R	145_C	1.710	1.00
96_K	103_A	1.689	1.00
13_K	136_A	1.682	1.00
173_T	269_I	1.661	1.00
218_I	260_I	1.648	1.00
134_I	138_E	1.638	1.00
172_E	272_L	1.630	1.00
147_M	231_Q	1.595	1.00
167_E	171_R	1.590	1.00
189_Y	193_K	1.587	1.00
89_V	93_R	1.583	1.00
130_E	134_I	1.574	1.00
143_G	146_E	1.554	1.00
26_S	62_I	1.554	1.00
171_R	174_E	1.553	1.00
89_V	99_Y	1.546	1.00
171_R	226_K	1.527	1.00
29_Y	61_R	1.521	1.00
22_V	136_A	1.505	1.00
225_L	253_L	1.491	1.00
176_L	183_R	1.481	1.00
250_V	283_I	1.478	1.00
56_H	138_E	1.461	1.00
174_E	222_I	1.453	1.00
86_D	99_Y	1.450	1.00
279_S	282_K	1.430	1.00
168_E	172_E	1.430	1.00
146_E	150_K	1.418	1.00
235_I	249_L	1.416	1.00
166_L	229_F	1.413	1.00
138_E	142_K	1.411	1.00
179_D	182_S	1.397	1.00
35_N	61_R	1.388	1.00
146_E	149_E	1.380	1.00
13_K	139_E	1.350	0.99
42_L	68_V	1.348	0.99
11_A	140_A	1.343	0.99
273_V	280_I	1.338	0.99
34_V	53_I	1.337	0.99
232_F	253_L	1.335	0.99
173_T	272_L	1.330	0.99
165_Q	279_S	1.329	0.99
53_I	137_A	1.323	0.99
176_L	268_Q	1.317	0.99
160_L	164_D	1.306	0.99
19_S	69_D	1.306	0.99
212_F	216_S	1.284	0.99
165_Q	168_E	1.280	0.99
48_K	130_E	1.272	0.99
9_G	140_A	1.268	0.99
229_F	253_L	1.266	0.99
157_K	161_M	1.259	0.99
86_D	90_A	1.258	0.99
189_Y	202_E	1.253	0.99
190_A	193_K	1.237	0.99
169_L	172_E	1.236	0.99
167_E	226_K	1.236	0.99
163_I	229_F	1.233	0.99
218_I	269_I	1.226	0.99
20_V	136_A	1.205	0.99
172_E	175_L	1.205	0.99
11_A	139_E	1.204	0.99
267_H	270_T	1.201	0.99
22_V	137_A	1.188	0.99
153_L	156_A	1.160	0.98
159_C	287_V	1.156	0.98
53_I	57_I	1.142	0.98
88_F	113_L	1.141	0.98
182_S	185_R	1.134	0.98
200_L	205_L	1.126	0.98
52_T	137_A	1.120	0.98
153_L	157_K	1.115	0.98
52_T	134_I	1.113	0.98
55_Q	138_E	1.112	0.98
81_D	84_L	1.111	0.98
12_S	21_S	1.111	0.98
176_L	179_D	1.110	0.98
103_A	106_D	1.106	0.98
48_K	134_I	1.102	0.98
161_M	165_Q	1.100	0.98
51_Q	55_Q	1.083	0.98
85_L	116_V	1.082	0.97
125_Q	128_K	1.080	0.97
222_I	226_K	1.078	0.97
254_N	262_S	1.076	0.97
76_K	81_D	1.075	0.97
165_Q	169_L	1.075	0.97
150_K	234_D	1.073	0.97
95_M	110_F	1.069	0.97
82_W	86_D	1.066	0.97
180_V	269_I	1.062	0.97
230_A	234_D	1.062	0.97
232_F	246_L	1.060	0.97
164_D	167_E	1.057	0.97
257_A	273_V	1.055	0.97
154_L	157_K	1.052	0.97
58_Q	241_A	1.049	0.97
165_Q	275_E	1.046	0.97
169_L	275_E	1.040	0.97
132_L	135_D	1.038	0.97
92_A	111_F	1.038	0.97
249_L	254_N	1.036	0.97
164_D	168_E	1.031	0.97
24_L	64_L	1.027	0.97
261_G	274_V	1.022	0.96
30_R	250_V	1.022	0.96
12_S	19_S	1.015	0.96
160_L	237_A	1.001	0.96
160_L	236_L	0.991	0.96
267_H	271_K	0.991	0.96
162_H	217_D	0.988	0.96
90_A	94_D	0.983	0.96
163_I	253_L	0.978	0.95
24_L	53_I	0.977	0.95
170_V	222_I	0.977	0.95
13_K	132_L	0.970	0.95
241_A	244_R	0.952	0.95
168_E	171_R	0.948	0.95
240_G	244_R	0.947	0.95
247_D	288_Q	0.932	0.94
262_S	270_T	0.930	0.94
200_L	206_V	0.929	0.94
229_F	233_R	0.926	0.94
227_S	231_Q	0.925	0.94
23_E	244_R	0.924	0.94
184_Y	216_S	0.920	0.94
10_S	21_S	0.916	0.94
159_C	232_F	0.912	0.93
34_V	50_K	0.908	0.93
163_I	233_R	0.906	0.93
253_L	280_I	0.903	0.93
202_E	206_V	0.903	0.93
166_L	253_L	0.901	0.93
32_K	62_I	0.897	0.93
175_L	179_D	0.894	0.93
204_R	207_T	0.890	0.93
138_E	141_V	0.884	0.92
42_L	280_I	0.883	0.92
147_M	227_S	0.883	0.92
170_V	226_K	0.880	0.92
247_D	254_N	0.877	0.92
187_R	191_R	0.875	0.92
35_N	63_E	0.873	0.92
20_V	133_I	0.864	0.91
167_E	229_F	0.859	0.91
192_I	205_L	0.857	0.91
177_A	180_V	0.856	0.91
113_L	116_V	0.852	0.91
186_E	189_Y	0.846	0.91
147_M	245_K	0.846	0.91
2_I	242_V	0.844	0.90
214_D	278_S	0.838	0.90
274_V	278_S	0.838	0.90
191_R	194_E	0.837	0.90
219_T	223_T	0.836	0.90
14_T	19_S	0.835	0.90
52_T	55_Q	0.834	0.90
155_L	286_Q	0.834	0.90
231_Q	234_D	0.834	0.90
87_E	91_A	0.826	0.89
234_D	238_S	0.823	0.89
10_S	23_E	0.820	0.89
139_E	143_G	0.810	0.89
137_A	141_V	0.809	0.89
135_D	139_E	0.808	0.88
15_Q	132_L	0.807	0.88
192_I	209_C	0.806	0.88
219_T	282_K	0.801	0.88
223_T	282_K	0.797	0.88
142_K	146_E	0.793	0.87
184_Y	212_F	0.792	0.87
127_D	131_A	0.791	0.87
109_D	112_K	0.787	0.87
10_S	244_R	0.785	0.87
271_K	275_E	0.782	0.87
175_L	178_A	0.779	0.87
57_I	145_C	0.779	0.87
13_K	135_D	0.778	0.86
155_L	159_C	0.774	0.86
43_L	63_E	0.771	0.86
14_T	71_D	0.768	0.86
13_K	20_V	0.768	0.86
90_A	93_R	0.766	0.86
195_W	206_V	0.755	0.85
204_R	208_E	0.755	0.85
232_F	283_I	0.753	0.85
11_A	143_G	0.750	0.84
33_E	204_R	0.743	0.84
158_D	282_K	0.743	0.84
20_V	68_V	0.741	0.84
150_K	153_L	0.737	0.83
206_V	209_C	0.735	0.83
267_H	274_V	0.731	0.83
170_V	225_L	0.726	0.82
45_F	133_I	0.725	0.82
185_R	206_V	0.723	0.82
29_Y	63_E	0.722	0.82
232_F	273_V	0.719	0.82
30_R	281_E	0.718	0.82
79_E	120_H	0.717	0.82
178_A	181_V	0.715	0.82
238_S	242_V	0.714	0.81
214_D	282_K	0.713	0.81
20_V	132_L	0.713	0.81
64_L	140_A	0.712	0.81
133_I	136_A	0.711	0.81
166_L	170_V	0.709	0.81
206_V	210_A	0.709	0.81
150_K	231_Q	0.706	0.81
253_L	257_A	0.705	0.81
246_L	287_V	0.705	0.81
83_P	86_D	0.702	0.80
80_I	91_A	0.700	0.80
254_N	270_T	0.698	0.80
38_L	49_L	0.694	0.80
38_L	66_V	0.694	0.80
181_V	185_R	0.694	0.80
27_V	63_E	0.692	0.79
182_S	189_Y	0.690	0.79
139_E	142_K	0.689	0.79
176_L	180_V	0.685	0.79
181_V	213_A	0.683	0.78
22_V	25_K	0.678	0.78
78_L	84_L	0.678	0.78
95_M	107_V	0.677	0.78
44_Y	130_E	0.676	0.78
84_L	88_F	0.676	0.78
89_V	105_P	0.675	0.78
200_L	209_C	0.674	0.78
145_C	149_E	0.673	0.77
216_S	270_T	0.671	0.77
92_A	113_L	0.671	0.77
65_F	244_R	0.670	0.77
169_L	279_S	0.668	0.77
177_A	216_S	0.668	0.77
52_T	141_V	0.666	0.77
207_T	211_I	0.665	0.77
29_Y	35_N	0.663	0.76
9_G	214_D	0.662	0.76
188_L	209_C	0.660	0.76
39_P	133_I	0.657	0.76
170_V	229_F	0.657	0.76
80_I	117_V	0.656	0.76
159_C	290_I	0.656	0.76
180_V	265_N	0.655	0.76
50_K	54_L	0.655	0.76
2_I	156_A	0.655	0.76
205_L	211_I	0.651	0.75
36_A	53_I	0.650	0.75
8_F	23_E	0.650	0.75
110_F	116_V	0.650	0.75
158_D	227_S	0.649	0.75
94_D	97_K	0.646	0.75
225_L	280_I	0.644	0.74
171_R	175_L	0.643	0.74
85_L	99_Y	0.642	0.74
89_V	101_L	0.641	0.74
250_V	284_K	0.639	0.74
96_K	104_E	0.638	0.74
93_R	96_K	0.636	0.73
16_D	128_K	0.636	0.73
92_A	105_P	0.635	0.73
114_D	162_H	0.635	0.73
223_T	279_S	0.634	0.73
2_I	290_I	0.633	0.73
215_R	267_H	0.632	0.73
64_L	137_A	0.629	0.73
179_D	266_D	0.628	0.72
22_V	140_A	0.626	0.72
68_V	133_I	0.625	0.72
92_A	107_V	0.622	0.72
180_V	216_S	0.622	0.72
247_D	278_S	0.621	0.72
29_Y	33_E	0.621	0.72
58_Q	240_G	0.619	0.71
188_L	211_I	0.617	0.71
169_L	276_M	0.617	0.71
205_L	209_C	0.617	0.71
31_F	61_R	0.612	0.71
61_R	254_N	0.610	0.70
109_D	113_L	0.610	0.70
96_K	107_V	0.610	0.70
104_E	108_M	0.610	0.70
103_A	107_V	0.609	0.70
232_F	250_V	0.607	0.70
138_E	153_L	0.606	0.70
9_G	40_R	0.606	0.70
226_K	230_A	0.606	0.70
177_A	181_V	0.604	0.70
235_I	246_L	0.604	0.70
254_N	284_K	0.603	0.69
218_I	222_I	0.601	0.69
45_F	48_K	0.600	0.69
15_Q	135_D	0.598	0.69
45_F	66_V	0.596	0.69
136_A	205_L	0.596	0.69
158_D	161_M	0.595	0.68
34_V	62_I	0.591	0.68
43_L	61_R	0.588	0.67
203_S	207_T	0.587	0.67
78_L	91_A	0.587	0.67
77_R	122_E	0.586	0.67
206_V	214_D	0.585	0.67
247_D	287_V	0.584	0.67
264_A	282_K	0.582	0.67
178_A	266_D	0.581	0.67
247_D	270_T	0.581	0.67
33_E	232_F	0.578	0.66
36_A	46_E	0.576	0.66
24_L	141_V	0.575	0.66
266_D	271_K	0.573	0.66
96_K	101_L	0.572	0.65
166_L	283_I	0.572	0.65
29_Y	37_R	0.571	0.65
146_E	153_L	0.570	0.65
42_L	129_L	0.569	0.65
239_G	242_V	0.568	0.65
88_F	282_K	0.567	0.65
254_N	290_I	0.567	0.65
105_P	111_F	0.567	0.65
84_L	116_V	0.566	0.65
229_F	276_M	0.565	0.64
36_A	50_K	0.565	0.64
217_D	260_I	0.564	0.64
34_V	46_E	0.564	0.64
36_A	64_L	0.564	0.64
257_A	260_I	0.563	0.64
52_T	56_H	0.562	0.64
92_A	110_F	0.561	0.64
173_T	260_I	0.559	0.64
85_L	110_F	0.553	0.63
97_K	168_E	0.552	0.63
94_D	98_R	0.551	0.63
72_M	78_L	0.550	0.62
87_E	90_A	0.549	0.62
216_S	265_N	0.549	0.62
264_A	270_T	0.549	0.62
214_D	273_V	0.547	0.62
56_H	141_V	0.547	0.62
124_T	174_E	0.547	0.62
219_T	280_I	0.546	0.62
136_A	140_A	0.546	0.62
245_K	278_S	0.545	0.62
91_A	117_V	0.543	0.61
181_V	209_C	0.542	0.61
260_I	280_I	0.542	0.61
200_L	213_A	0.540	0.61
262_S	283_I	0.539	0.61
63_E	261_G	0.539	0.61
76_K	115_H	0.537	0.61
161_M	164_D	0.537	0.61
30_R	254_N	0.536	0.60
33_E	286_Q	0.535	0.60
270_T	274_V	0.533	0.60
188_L	214_D	0.531	0.60
29_Y	191_R	0.530	0.60
15_Q	18_L	0.529	0.59
249_L	278_S	0.529	0.59
186_E	193_K	0.528	0.59
2_I	239_G	0.527	0.59
210_A	249_L	0.525	0.59
22_V	113_L	0.521	0.58
18_L	68_V	0.521	0.58
96_K	99_Y	0.520	0.58
254_N	280_I	0.520	0.58
250_V	287_V	0.519	0.58
183_R	266_D	0.518	0.58
245_K	275_E	0.518	0.58
2_I	187_R	0.513	0.57
264_A	269_I	0.513	0.57
101_L	104_E	0.513	0.57
40_R	43_L	0.512	0.57
182_S	199_V	0.511	0.57
169_L	173_T	0.510	0.57
53_I	188_L	0.509	0.57
37_R	48_K	0.508	0.56
79_E	118_Q	0.508	0.56
269_I	273_V	0.507	0.56
180_V	209_C	0.506	0.56
280_I	283_I	0.506	0.56
81_D	116_V	0.505	0.56
29_Y	34_V	0.504	0.56
181_V	191_R	0.504	0.56
173_T	276_M	0.503	0.56
8_F	71_D	0.502	0.56
37_R	65_F	0.502	0.56
84_L	112_K	0.501	0.55
51_Q	54_L	0.500	0.55

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
4ll8A	1	0.1375	83.4	0.952	Contact Map
3al0B	1	0.8419	36.6	0.965	Contact Map
2qywA	1	0.3265	30.4	0.967	Contact Map
4cg4A	2	0.3643	22.1	0.969	Contact Map
4wj3B	2	0.8591	18.1	0.97	Contact Map
3h0lB	1	0.8625	16.5	0.971	Contact Map
3kfuF	2	0.8385	14.6	0.971	Contact Map
3onjA	1	0.323	14.4	0.971	Contact Map
3nmdA	2	0.1856	14.1	0.971	Contact Map
1nfnA	1	0.4192	13.7	0.972	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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