YLBK - BACSU - GREMLIN Contacts

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YLBK - Uncharacterized NTE family protein YlbK

UniProt:	O34731	Sequences: MAKPKIGLALGSGGARGLAHLGVLSSLHKHQIEVDMIAGSSMGALVGSFYAAGHDVATMKKVAKAFKRRLYADYTVPKLGFLKGDRVRQLVHAYTFGKPIEELQIPLGIVACDLQTGEKIVFRKGSVSDAVRASISIPGIFIPQRLDGRLLVDGAVVDRIPVSVVKDMGADIIIASDVSRVRKTETAVHIFDVIMQSMDILQNELVRHQTIAADIMIRPSLETYSSSSFANIEEMISAGEEATNRMISKIRKEIENWEGS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	260 (245)
Sequences:	8887 (6803)
Seq/√Len:	434.6

ECOLI - RSSA YJJU
BACSU - YLBK YQHO COTR

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
113_D	149_R	3.874	1.00
44_A	134_S	3.351	1.00
26_S	244_N	3.273	1.00
26_S	240_E	3.160	1.00
48_S	131_V	3.117	1.00
237_S	241_E	2.962	1.00
246_M	249_K	2.726	1.00
25_S	60_K	2.679	1.00
25_S	240_E	2.643	1.00
111_A	122_F	2.516	1.00
29_K	240_E	2.501	1.00
26_S	29_K	2.483	1.00
145_R	150_L	2.479	1.00
92_H	128_S	2.455	1.00
88_R	129_D	2.437	1.00
231_N	234_E	2.430	1.00
17_G	42_M	2.336	1.00
113_D	120_I	2.248	1.00
10_L	20_H	2.248	1.00
47_G	107_L	2.248	1.00
120_I	151_L	2.110	1.00
26_S	243_T	2.093	1.00
19_A	242_A	2.014	1.00
215_I	219_P	1.995	1.00
38_A	165_V	1.984	1.00
119_K	158_D	1.955	1.00
23_V	176_S	1.836	1.00
26_S	30_H	1.826	1.00
126_S	129_D	1.814	1.00
60_K	64_K	1.807	1.00
160_I	175_A	1.735	1.00
37_I	47_G	1.732	1.00
25_S	57_A	1.704	1.00
42_M	63_A	1.691	1.00
28_H	56_V	1.679	1.00
233_E	237_S	1.668	1.00
12_S	159_R	1.668	1.00
240_E	244_N	1.664	1.00
228_S	231_N	1.664	1.00
55_D	58_T	1.660	1.00
152_V	156_V	1.652	1.00
241_E	245_R	1.646	1.00
64_K	233_E	1.644	1.00
98_K	102_E	1.624	1.00
115_Q	149_R	1.595	1.00
158_D	163_S	1.575	1.00
88_R	132_R	1.562	1.00
7_G	165_V	1.559	1.00
113_D	116_T	1.555	1.00
224_Y	235_M	1.538	1.00
30_H	244_N	1.533	1.00
24_L	50_Y	1.506	1.00
30_H	247_I	1.485	1.00
99_P	102_E	1.482	1.00
129_D	144_Q	1.480	1.00
90_L	94_Y	1.452	1.00
138_P	156_V	1.448	1.00
238_A	241_E	1.446	1.00
111_A	151_L	1.422	1.00
7_G	36_M	1.419	1.00
61_K	65_A	1.400	1.00
214_D	219_P	1.397	1.00
25_S	29_K	1.386	1.00
145_R	148_G	1.384	1.00
242_A	245_R	1.371	1.00
122_F	130_A	1.364	1.00
131_V	134_S	1.351	1.00
177_D	218_R	1.344	1.00
38_A	108_G	1.344	1.00
40_S	110_V	1.334	1.00
225_S	228_S	1.330	1.00
23_V	243_T	1.322	1.00
11_G	160_I	1.317	1.00
110_V	119_K	1.310	1.00
119_K	157_V	1.305	1.00
103_L	127_V	1.303	1.00
243_T	247_I	1.302	1.00
112_C	157_V	1.302	1.00
123_R	168_M	1.292	1.00
84_G	132_R	1.279	1.00
237_S	240_E	1.278	1.00
5_K	35_D	1.251	1.00
7_G	170_A	1.229	1.00
114_L	152_V	1.219	1.00
29_K	244_N	1.206	1.00
58_T	61_K	1.201	1.00
89_Q	93_A	1.196	1.00
234_E	238_A	1.194	1.00
48_S	107_L	1.193	1.00
164_V	167_D	1.192	1.00
56_V	59_M	1.188	1.00
196_Q	200_I	1.186	1.00
37_I	51_A	1.168	1.00
108_G	121_V	1.165	1.00
80_G	142_I	1.160	1.00
108_G	123_R	1.155	1.00
136_S	144_Q	1.148	1.00
6_I	172_I	1.147	1.00
197_S	201_L	1.129	1.00
44_A	135_I	1.128	1.00
26_S	247_I	1.126	1.00
224_Y	228_S	1.125	1.00
110_V	121_V	1.120	1.00
115_Q	150_L	1.115	1.00
106_P	123_R	1.105	1.00
5_K	171_D	1.102	1.00
51_A	107_L	1.099	1.00
108_G	168_M	1.098	1.00
88_R	92_H	1.094	1.00
164_V	168_M	1.091	1.00
41_S	153_D	1.085	1.00
37_I	105_I	1.076	1.00
108_G	164_V	1.061	1.00
61_K	64_K	1.056	1.00
166_K	173_I	1.056	1.00
204_E	207_R	1.046	1.00
133_A	151_L	1.043	1.00
207_R	210_T	1.038	1.00
121_V	164_V	1.037	1.00
241_E	244_N	1.027	1.00
146_L	151_L	1.024	1.00
217_I	242_A	1.023	1.00
224_Y	227_S	1.021	1.00
226_S	229_F	1.009	1.00
60_K	236_I	1.009	1.00
20_H	46_V	1.000	1.00
8_L	34_V	0.988	1.00
205_L	209_Q	0.988	1.00
57_A	60_K	0.984	1.00
232_I	236_I	0.984	1.00
6_I	34_V	0.983	1.00
122_F	151_L	0.979	1.00
163_S	167_D	0.976	1.00
9_A	165_V	0.971	1.00
207_R	211_I	0.966	1.00
122_F	146_L	0.965	1.00
87_V	135_I	0.953	1.00
21_L	56_V	0.950	1.00
129_D	146_L	0.949	1.00
220_S	242_A	0.945	1.00
85_D	89_Q	0.938	1.00
100_I	103_L	0.937	1.00
36_M	165_V	0.935	1.00
197_S	202_Q	0.934	1.00
201_L	204_E	0.918	1.00
238_A	242_A	0.918	1.00
240_E	243_T	0.917	1.00
205_L	208_H	0.916	1.00
204_E	208_H	0.915	1.00
111_A	130_A	0.913	1.00
90_L	93_A	0.913	1.00
36_M	108_G	0.911	1.00
45_L	91_V	0.910	1.00
28_H	50_Y	0.908	1.00
64_K	236_I	0.901	1.00
132_R	136_S	0.897	1.00
116_T	149_R	0.897	1.00
10_L	47_G	0.885	1.00
198_M	202_Q	0.879	1.00
8_L	24_L	0.874	1.00
198_M	201_L	0.872	1.00
202_Q	205_L	0.872	1.00
70_L	74_Y	0.854	1.00
128_S	132_R	0.848	1.00
38_A	164_V	0.846	1.00
7_G	38_A	0.845	1.00
22_G	239_G	0.843	1.00
36_M	168_M	0.840	1.00
8_L	37_I	0.838	1.00
214_D	217_I	0.838	1.00
208_H	211_I	0.834	1.00
52_A	95_T	0.834	1.00
189_H	192_D	0.832	1.00
239_G	243_T	0.830	1.00
20_H	176_S	0.829	1.00
133_A	146_L	0.826	1.00
28_H	53_G	0.820	1.00
49_F	95_T	0.815	1.00
162_V	175_A	0.812	1.00
30_H	248_S	0.811	1.00
181_V	218_R	0.809	1.00
45_L	135_I	0.808	1.00
20_H	178_V	0.808	1.00
213_A	216_M	0.803	1.00
225_S	229_F	0.802	1.00
111_A	120_I	0.799	1.00
138_P	154_G	0.793	1.00
92_H	126_S	0.790	1.00
57_A	61_K	0.788	1.00
91_V	95_T	0.785	1.00
47_G	51_A	0.782	1.00
12_S	40_S	0.780	1.00
199_D	202_Q	0.780	1.00
113_D	151_L	0.777	1.00
71_Y	75_T	0.777	1.00
224_Y	229_F	0.776	1.00
27_L	243_T	0.774	1.00
12_S	155_A	0.774	1.00
65_A	93_A	0.773	1.00
59_M	63_A	0.768	1.00
29_K	55_D	0.763	1.00
35_D	106_P	0.762	1.00
234_E	237_S	0.759	1.00
17_G	20_H	0.759	1.00
24_L	28_H	0.759	1.00
34_V	174_I	0.758	1.00
9_A	162_V	0.757	1.00
114_L	143_P	0.756	1.00
21_L	60_K	0.756	1.00
54_H	58_T	0.753	1.00
97_G	126_S	0.750	1.00
49_F	59_M	0.746	1.00
165_V	170_A	0.744	1.00
44_A	131_V	0.744	1.00
89_Q	92_H	0.742	1.00
192_D	195_M	0.737	1.00
33_E	105_I	0.736	1.00
175_A	213_A	0.736	1.00
193_V	197_S	0.735	1.00
216_M	220_S	0.735	1.00
194_I	197_S	0.734	1.00
172_I	176_S	0.732	1.00
56_V	60_K	0.731	1.00
25_S	56_V	0.728	1.00
62_V	66_F	0.725	1.00
120_I	149_R	0.723	1.00
28_H	33_E	0.723	1.00
101_E	124_K	0.718	1.00
14_G	137_I	0.717	1.00
143_P	152_V	0.717	1.00
7_G	173_I	0.717	1.00
36_M	170_A	0.715	1.00
131_V	135_I	0.714	1.00
143_P	150_L	0.713	1.00
213_A	217_I	0.706	1.00
194_I	198_M	0.700	1.00
215_I	218_R	0.695	1.00
44_A	109_I	0.695	1.00
22_G	240_E	0.694	1.00
16_R	179_S	0.692	1.00
200_I	203_N	0.689	1.00
155_A	159_R	0.686	1.00
42_M	178_V	0.683	1.00
11_G	178_V	0.681	1.00
67_K	70_L	0.680	1.00
51_A	103_L	0.680	1.00
201_L	205_L	0.680	1.00
88_R	128_S	0.677	1.00
109_I	122_F	0.676	1.00
189_H	193_V	0.673	1.00
41_S	137_I	0.673	1.00
22_G	243_T	0.671	1.00
11_G	177_D	0.669	1.00
21_L	46_V	0.669	1.00
99_P	103_L	0.662	1.00
217_I	222_E	0.661	1.00
37_I	50_Y	0.661	1.00
49_F	94_Y	0.656	0.99
158_D	164_V	0.653	0.99
57_A	64_K	0.653	0.99
9_A	38_A	0.647	0.99
132_R	144_Q	0.643	0.99
199_D	203_N	0.642	0.99
91_V	128_S	0.641	0.99
244_N	248_S	0.640	0.99
69_R	75_T	0.639	0.99
223_T	238_A	0.639	0.99
15_A	229_F	0.638	0.99
178_V	181_V	0.637	0.99
28_H	55_D	0.637	0.99
193_V	196_Q	0.635	0.99
194_I	201_L	0.634	0.99
201_L	207_R	0.634	0.99
196_Q	199_D	0.632	0.99
216_M	219_P	0.631	0.99
243_T	246_M	0.631	0.99
197_S	204_E	0.630	0.99
65_A	68_R	0.628	0.99
190_I	197_S	0.625	0.99
100_I	127_V	0.623	0.99
106_P	168_M	0.623	0.99
110_V	164_V	0.622	0.99
9_A	160_I	0.621	0.99
111_A	133_A	0.619	0.99
84_G	88_R	0.618	0.99
18_L	42_M	0.618	0.99
82_L	140_I	0.614	0.99
218_R	222_E	0.612	0.99
198_M	205_L	0.611	0.99
134_S	154_G	0.608	0.99
118_E	149_R	0.607	0.99
36_M	106_P	0.602	0.99
216_M	221_L	0.600	0.99
47_G	109_I	0.597	0.99
33_E	53_G	0.596	0.99
51_A	105_I	0.595	0.99
219_P	222_E	0.593	0.99
188_V	193_V	0.592	0.99
86_R	89_Q	0.585	0.99
27_L	34_V	0.584	0.99
214_D	218_R	0.583	0.99
192_D	196_Q	0.582	0.99
46_V	63_A	0.582	0.99
163_S	209_Q	0.582	0.99
194_I	202_Q	0.581	0.99
6_I	9_A	0.581	0.99
137_I	140_I	0.581	0.99
215_I	221_L	0.579	0.99
22_G	26_S	0.577	0.99
197_S	205_L	0.577	0.99
191_F	195_M	0.573	0.99
84_G	142_I	0.572	0.99
217_I	243_T	0.572	0.99
5_K	170_A	0.571	0.99
27_L	174_I	0.570	0.99
213_A	218_R	0.568	0.99
223_T	229_F	0.568	0.99
193_V	198_M	0.567	0.99
239_G	242_A	0.566	0.99
245_R	248_S	0.566	0.99
121_V	158_D	0.563	0.98
69_R	74_Y	0.562	0.98
92_H	97_G	0.562	0.98
99_P	126_S	0.560	0.98
10_L	37_I	0.558	0.98
24_L	27_L	0.554	0.98
137_I	152_V	0.553	0.98
109_I	124_K	0.553	0.98
73_D	83_K	0.552	0.98
15_A	67_K	0.551	0.98
206_V	209_Q	0.550	0.98
242_A	246_M	0.547	0.98
69_R	72_A	0.547	0.98
48_S	109_I	0.545	0.98
165_V	173_I	0.543	0.98
217_I	221_L	0.540	0.98
18_L	63_A	0.539	0.98
217_I	220_S	0.538	0.98
71_Y	74_Y	0.535	0.98
66_F	70_L	0.534	0.98
165_V	168_M	0.533	0.98
39_G	43_G	0.531	0.98
64_K	67_K	0.530	0.98
190_I	198_M	0.530	0.98
194_I	203_N	0.528	0.98
221_L	238_A	0.527	0.98
97_G	128_S	0.526	0.98
201_L	208_H	0.524	0.98
117_G	196_Q	0.524	0.98
204_E	209_Q	0.521	0.97
189_H	194_I	0.520	0.97
191_F	198_M	0.518	0.97
224_Y	231_N	0.518	0.97
120_I	147_D	0.515	0.97
245_R	249_K	0.514	0.97
107_L	131_V	0.514	0.97
188_V	192_D	0.513	0.97
193_V	200_I	0.513	0.97
112_C	117_G	0.512	0.97
63_A	66_F	0.508	0.97
11_G	159_R	0.507	0.97
18_L	22_G	0.507	0.97
233_E	236_I	0.507	0.97
129_D	132_R	0.506	0.97
85_D	88_R	0.502	0.97
28_H	57_A	0.502	0.97
169_G	172_I	0.502	0.97
25_S	28_H	0.500	0.97

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
4akfA	2	0.9808	100	0.263	Contact Map
4qmkA	2	0.7615	100	0.268	Contact Map
3tu3B	1	0.8385	100	0.284	Contact Map
4pk9A	2	0.9923	100	0.308	Contact Map
1cjyA	1	0.8231	99.4	0.753	Contact Map
3k89A	1	0.9269	83.4	0.92	Contact Map
4c23A	1	0.2962	68.4	0.93	Contact Map
2itmA	2	0.3846	66.1	0.931	Contact Map
3tqeA	1	0.9154	66	0.931	Contact Map
2uytA	1	0.3423	65.7	0.931	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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