YOGA - BACSU - GREMLIN Contacts

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YOGA - Uncharacterized zinc-type alcohol dehydrogenase-like protein YogA

UniProt:	O35017	Sequences: MKAVIHNGKAGLLGLSVQDVPSTKPGYGEVKVKLKSAGLNHRDLFLMKNKSEQDPHMILGSDGAGIIEEIGEGVKNVTVQTEVVIFPTLNWDLTENVPPVPEILGGPSDGTLAEYVIIPSQNAIKKPAYLSWEEAGVLPLSALTAYRALFTKGQLKKGEHLLIPGIGSGVATYALFMAKAIGATVSVTSRSEEKRKKALKLGADYAFDSYSNWDEQLQGKKIDVVLDSIGPALFSEYFRHVKPNGRIVSFGASSGDNLSFPVRSLFFPQVNVLGTSMGSGEEFQAMLAFIDKHKLRPVIDRIYPLEKACEAYKRMQEGRQFGNIGIVME	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	329 (298)
Sequences:	52877 (36390)
Seq/√Len:	2108.0

ECOLI - YBDR RSPB YGGP ADHP YAHK AHR YPHC YDJL TDH GATD FRMA YJJN YDJJ ACUI IDND QOR1 CURA YCJQ
BACSU - YOGA ADHB YJMD ADHA YYCR DHSO BDHA YHFP TDH YFMJ
HALSA - Q9HP38 Q9HMB6 Q9HR85 GLCDH Q9HQS8
SULSO - Q7LXK1 ADH Q97VW0 Q97YT7 Q97VV5 Q97ZV3 Q97V32 Q97XR4 Q97WA1 GLCD2 GLCD1 Q97YM2 GLCD3 Q97TZ4 Q97W06 Q97UW5 Q97VB8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
35_K	132_W	2.976	1.00
33_K	68_E	2.937	1.00
307_K	310_E	2.896	1.00
35_K	66_I	2.840	1.00
7_N	18_Q	2.677	1.00
31_K	68_E	2.639	1.00
160_H	184_T	2.617	1.00
30_V	123_A	2.492	1.00
82_E	126_K	2.478	1.00
78_T	81_T	2.449	1.00
131_S	134_E	2.447	1.00
81_T	125_K	2.407	1.00
179_K	204_D	2.392	1.00
303_Y	314_R	2.366	1.00
166_I	187_V	2.360	1.00
33_K	66_I	2.269	1.00
22_S	115_Y	2.267	1.00
33_K	115_Y	2.200	1.00
133_E	302_I	2.165	1.00
161_L	178_A	2.159	1.00
7_N	16_S	2.153	1.00
195_R	199_L	2.116	1.00
184_T	205_Y	2.108	1.00
156_K	159_E	2.092	1.00
5_I	18_Q	2.080	1.00
63_G	111_T	2.056	1.00
63_G	85_I	2.050	1.00
26_G	29_E	2.048	1.00
301_R	314_R	2.035	1.00
27_Y	72_E	2.029	1.00
76_N	120_S	2.016	1.00
288_A	292_K	2.014	1.00
175_L	203_A	2.001	1.00
304_P	307_K	1.996	1.00
129_Y	291_D	1.984	1.00
27_Y	73_G	1.956	1.00
196_K	200_K	1.918	1.00
28_G	73_G	1.913	1.00
64_A	132_W	1.888	1.00
82_E	132_W	1.886	1.00
31_K	117_I	1.885	1.00
313_K	317_E	1.876	1.00
142_A	173_Y	1.870	1.00
48_K	316_Q	1.861	1.00
68_E	115_Y	1.861	1.00
162_L	188_T	1.794	1.00
180_A	294_K	1.775	1.00
162_L	222_I	1.753	1.00
186_S	222_I	1.751	1.00
246_R	271_N	1.728	1.00
314_R	319_R	1.710	1.00
196_K	199_L	1.708	1.00
310_E	313_K	1.702	1.00
223_D	242_K	1.700	1.00
189_S	195_R	1.693	1.00
24_K	69_E	1.679	1.00
126_K	132_W	1.673	1.00
303_Y	311_A	1.649	1.00
195_R	206_A	1.644	1.00
197_K	200_K	1.638	1.00
310_E	314_R	1.623	1.00
246_R	273_L	1.623	1.00
192_E	196_K	1.620	1.00
159_E	246_R	1.603	1.00
164_P	237_Y	1.571	1.00
4_V	308_A	1.557	1.00
241_V	247_I	1.532	1.00
241_V	270_V	1.527	1.00
126_K	135_A	1.524	1.00
31_K	115_Y	1.523	1.00
71_G	74_V	1.519	1.00
153_G	224_V	1.516	1.00
184_T	204_D	1.512	1.00
77_V	125_K	1.510	1.00
211_S	216_Q	1.499	1.00
70_I	79_V	1.496	1.00
69_E	79_V	1.489	1.00
300_D	314_R	1.488	1.00
66_I	82_E	1.486	1.00
29_E	119_P	1.476	1.00
112_L	312_Y	1.475	1.00
77_V	81_T	1.472	1.00
34_L	63_G	1.462	1.00
241_V	245_G	1.457	1.00
25_P	117_I	1.424	1.00
225_V	241_V	1.423	1.00
28_G	119_P	1.423	1.00
309_C	313_K	1.421	1.00
82_E	128_A	1.396	1.00
29_E	117_I	1.385	1.00
31_K	69_E	1.382	1.00
25_P	31_K	1.381	1.00
212_N	215_E	1.378	1.00
225_V	237_Y	1.366	1.00
36_S	133_E	1.362	1.00
192_E	208_D	1.358	1.00
47_M	312_Y	1.321	1.00
160_H	186_S	1.320	1.00
67_I	77_V	1.317	1.00
30_V	77_V	1.314	1.00
175_L	187_V	1.310	1.00
66_I	132_W	1.297	1.00
180_A	289_F	1.284	1.00
288_A	291_D	1.280	1.00
174_A	226_L	1.279	1.00
164_P	188_T	1.276	1.00
4_V	17_V	1.262	1.00
190_R	209_S	1.246	1.00
35_K	82_E	1.215	1.00
151_T	282_E	1.201	1.00
192_E	195_R	1.187	1.00
77_V	123_A	1.183	1.00
22_S	31_K	1.181	1.00
34_L	116_V	1.165	1.00
199_L	206_A	1.164	1.00
160_H	223_D	1.162	1.00
155_L	183_A	1.159	1.00
212_N	216_Q	1.142	1.00
28_G	120_S	1.134	1.00
11_G	14_G	1.118	1.00
195_R	208_D	1.115	1.00
151_T	285_A	1.105	1.00
280_G	284_Q	1.103	1.00
118_I	123_A	1.101	1.00
176_F	296_R	1.093	1.00
285_A	288_A	1.088	1.00
159_E	223_D	1.083	1.00
239_R	264_S	1.081	1.00
147_R	282_E	1.077	1.00
289_F	294_K	1.060	1.00
4_V	305_L	1.054	1.00
39_L	311_A	1.053	1.00
153_G	248_V	1.053	1.00
186_S	205_Y	1.048	1.00
5_I	20_V	1.043	1.00
152_K	271_N	1.042	1.00
199_L	205_Y	1.041	1.00
32_V	65_G	1.040	1.00
197_K	321_F	1.038	1.00
68_E	79_V	1.036	1.00
145_A	174_A	1.036	1.00
47_M	316_Q	1.034	1.00
229_I	233_L	1.031	1.00
17_V	306_E	1.030	1.00
187_V	203_A	1.026	1.00
37_A	112_L	1.022	1.00
32_V	83_V	1.019	1.00
134_E	296_R	1.016	1.00
155_L	159_E	1.014	1.00
308_A	326_I	1.010	1.00
145_A	177_M	1.010	1.00
130_L	135_A	1.010	1.00
36_S	132_W	1.006	1.00
284_Q	288_A	0.996	1.00
178_A	183_A	0.986	1.00
186_S	207_F	0.985	1.00
25_P	29_E	0.985	1.00
214_D	239_R	0.976	1.00
148_A	250_F	0.969	1.00
166_I	189_S	0.967	1.00
40_N	62_D	0.960	1.00
35_K	64_A	0.953	1.00
314_R	324_I	0.951	1.00
236_E	239_R	0.946	1.00
313_K	316_Q	0.944	1.00
74_V	120_S	0.944	1.00
227_D	230_G	0.943	1.00
146_Y	285_A	0.943	1.00
190_R	210_Y	0.937	1.00
142_A	286_M	0.935	1.00
112_L	308_A	0.934	1.00
40_N	61_S	0.932	1.00
37_A	111_T	0.931	1.00
235_S	239_R	0.924	1.00
44_L	315_M	0.923	1.00
190_R	195_R	0.922	1.00
57_M	109_D	0.917	1.00
175_L	185_V	0.912	1.00
148_A	226_L	0.908	1.00
191_S	194_K	0.904	1.00
4_V	15_L	0.896	1.00
264_S	268_P	0.896	1.00
22_S	69_E	0.896	1.00
75_K	120_S	0.895	1.00
33_K	114_E	0.891	1.00
164_P	225_V	0.891	1.00
5_I	58_I	0.889	1.00
36_S	325_G	0.885	1.00
172_T	197_K	0.885	1.00
70_I	74_V	0.884	1.00
163_I	178_A	0.882	1.00
303_Y	307_K	0.881	1.00
187_V	198_A	0.881	1.00
285_A	289_F	0.879	1.00
162_L	240_H	0.878	1.00
7_N	14_G	0.877	1.00
188_T	209_S	0.877	1.00
84_V	287_L	0.874	1.00
163_I	174_A	0.872	1.00
214_D	236_E	0.869	1.00
166_I	175_L	0.869	1.00
166_I	198_A	0.863	1.00
244_N	269_Q	0.858	1.00
193_E	196_K	0.854	1.00
194_K	321_F	0.853	1.00
159_E	224_V	0.852	1.00
177_M	286_M	0.850	1.00
63_G	116_V	0.847	1.00
138_L	290_I	0.847	1.00
189_S	206_A	0.839	1.00
78_T	125_K	0.838	1.00
22_S	68_E	0.830	1.00
20_V	109_D	0.829	1.00
112_L	326_I	0.828	1.00
149_L	178_A	0.826	1.00
38_G	62_D	0.824	1.00
152_K	273_L	0.823	1.00
24_K	31_K	0.820	1.00
217_L	222_I	0.817	1.00
143_L	282_E	0.815	1.00
28_G	71_G	0.813	1.00
191_S	208_D	0.812	1.00
160_H	222_I	0.812	1.00
281_E	285_A	0.811	1.00
301_R	310_E	0.809	1.00
320_Q	324_I	0.803	1.00
40_N	43_D	0.802	1.00
200_K	298_V	0.801	1.00
178_A	185_V	0.796	1.00
198_A	203_A	0.792	1.00
237_Y	247_I	0.792	1.00
70_I	78_T	0.790	1.00
161_L	183_A	0.786	1.00
39_L	315_M	0.786	1.00
128_A	291_D	0.783	1.00
265_L	272_V	0.781	1.00
148_A	174_A	0.779	1.00
281_E	284_Q	0.778	1.00
225_V	247_I	0.774	1.00
177_M	289_F	0.774	1.00
145_A	173_Y	0.768	1.00
200_K	296_R	0.767	1.00
85_I	118_I	0.762	1.00
124_I	284_Q	0.759	1.00
30_V	120_S	0.754	1.00
154_Q	246_R	0.754	1.00
289_F	292_K	0.754	1.00
315_M	324_I	0.753	1.00
42_R	61_S	0.751	1.00
17_V	305_L	0.751	1.00
26_G	117_I	0.749	1.00
181_I	285_A	0.747	1.00
228_S	250_F	0.746	1.00
212_N	236_E	0.746	1.00
20_V	58_I	0.743	1.00
299_I	302_I	0.736	1.00
261_P	264_S	0.735	1.00
25_P	69_E	0.735	1.00
84_V	126_K	0.733	1.00
145_A	170_V	0.733	1.00
111_T	116_V	0.733	1.00
28_G	72_E	0.732	1.00
163_I	187_V	0.731	1.00
164_P	233_L	0.729	1.00
186_S	217_L	0.728	1.00
83_V	123_A	0.728	1.00
185_V	204_D	0.726	1.00
4_V	309_C	0.725	1.00
213_W	236_E	0.725	1.00
160_H	220_K	0.724	1.00
289_F	293_H	0.722	1.00
147_R	269_Q	0.720	1.00
314_R	317_E	0.720	1.00
62_D	140_L	0.718	1.00
130_L	290_I	0.717	1.00
167_G	198_A	0.712	1.00
303_Y	324_I	0.712	1.00
183_A	224_V	0.706	1.00
155_L	224_V	0.704	1.00
127_P	291_D	0.701	1.00
40_N	140_L	0.698	1.00
146_Y	286_M	0.698	1.00
249_S	272_V	0.696	1.00
36_S	302_I	0.691	1.00
189_S	198_A	0.690	1.00
303_Y	326_I	0.690	1.00
154_Q	271_N	0.689	1.00
124_I	283_F	0.685	1.00
235_S	257_N	0.684	1.00
234_F	247_I	0.682	1.00
146_Y	289_F	0.679	1.00
222_I	225_V	0.679	1.00
224_V	248_V	0.678	1.00
287_L	291_D	0.677	1.00
154_Q	273_L	0.677	1.00
145_A	149_L	0.671	1.00
84_V	139_P	0.670	1.00
13_L	313_K	0.669	1.00
6_H	14_G	0.669	1.00
214_D	240_H	0.668	1.00
61_S	140_L	0.667	1.00
64_A	136_G	0.667	1.00
28_G	121_Q	0.666	1.00
301_R	324_I	0.664	1.00
235_S	264_S	0.662	1.00
167_G	189_S	0.662	1.00
25_P	71_G	0.660	1.00
23_T	117_I	0.659	1.00
265_L	274_G	0.659	1.00
265_L	270_V	0.658	1.00
144_T	170_V	0.658	1.00
172_T	298_V	0.658	1.00
34_L	37_A	0.654	1.00
81_T	128_A	0.653	1.00
64_A	126_K	0.653	1.00
232_A	235_S	0.651	1.00
220_K	242_K	0.650	1.00
137_V	325_G	0.650	1.00
36_S	64_A	0.649	1.00
30_V	67_I	0.649	1.00
195_R	198_A	0.647	1.00
39_L	112_L	0.645	1.00
222_I	240_H	0.643	1.00
197_K	201_L	0.643	1.00
177_M	181_I	0.642	1.00
227_D	247_I	0.642	1.00
40_N	141_S	0.639	1.00
82_E	129_Y	0.638	1.00
53_Q	57_M	0.635	1.00
124_I	287_L	0.633	1.00
146_Y	282_E	0.632	1.00
141_S	169_G	0.628	1.00
243_P	268_P	0.628	1.00
197_K	298_V	0.627	1.00
54_D	57_M	0.626	1.00
175_L	201_L	0.625	1.00
44_L	316_Q	0.624	1.00
42_R	46_L	0.624	1.00
269_Q	279_S	0.623	1.00
64_A	82_E	0.621	1.00
41_H	45_F	0.620	1.00
32_V	85_I	0.620	1.00
76_N	280_G	0.620	1.00
205_Y	216_Q	0.619	1.00
174_A	250_F	0.618	1.00
176_F	201_L	0.618	1.00
179_K	185_V	0.617	1.00
312_Y	316_Q	0.615	1.00
213_W	217_L	0.614	1.00
86_F	124_I	0.614	1.00
45_F	50_K	0.613	1.00
151_T	181_I	0.611	1.00
224_V	246_R	0.609	1.00
157_K	182_G	0.608	1.00
85_I	123_A	0.605	1.00
203_A	206_A	0.603	1.00
141_S	173_Y	0.603	1.00
235_S	259_S	0.598	1.00
140_L	144_T	0.596	1.00
153_G	246_R	0.595	1.00
144_T	250_F	0.591	1.00
256_D	259_S	0.588	1.00
233_L	237_Y	0.588	1.00
12_L	313_K	0.588	1.00
314_R	320_Q	0.585	1.00
148_A	275_T	0.585	1.00
290_I	297_P	0.584	1.00
189_S	209_S	0.583	1.00
283_F	287_L	0.582	1.00
131_S	135_A	0.582	1.00
161_L	224_V	0.579	1.00
227_D	251_G	0.578	1.00
257_N	261_P	0.576	1.00
137_V	297_P	0.575	1.00
189_S	208_D	0.575	1.00
124_I	280_G	0.572	1.00
76_N	79_V	0.572	1.00
213_W	216_Q	0.571	1.00
37_A	326_I	0.571	1.00
217_L	240_H	0.569	1.00
42_R	45_F	0.568	1.00
188_T	207_F	0.567	1.00
77_V	120_S	0.565	1.00
70_I	81_T	0.563	1.00
149_L	177_M	0.563	1.00
23_T	115_Y	0.562	1.00
75_K	78_T	0.561	1.00
225_V	240_H	0.560	1.00
32_V	123_A	0.559	1.00
301_R	307_K	0.559	1.00
44_L	48_K	0.559	1.00
167_G	194_K	0.557	1.00
60_G	112_L	0.556	1.00
175_L	198_A	0.556	1.00
195_R	209_S	0.556	1.00
151_T	154_Q	0.556	1.00
162_L	225_V	0.553	1.00
21_P	24_K	0.552	1.00
264_S	267_F	0.552	1.00
15_L	312_Y	0.545	1.00
258_L	261_P	0.544	1.00
148_A	248_V	0.543	1.00
56_H	60_G	0.543	1.00
22_S	117_I	0.543	1.00
248_V	275_T	0.542	1.00
282_E	285_A	0.542	1.00
157_K	181_I	0.540	1.00
189_S	194_K	0.540	1.00
190_R	208_D	0.539	1.00
160_H	221_K	0.538	1.00
23_T	31_K	0.537	1.00
46_L	51_S	0.537	1.00
58_I	110_G	0.536	1.00
40_N	323_N	0.536	1.00
207_F	216_Q	0.535	1.00
172_T	201_L	0.533	1.00
64_A	135_A	0.531	1.00
34_L	85_I	0.528	1.00
179_K	203_A	0.527	1.00
173_Y	177_M	0.527	1.00
14_G	47_M	0.526	1.00
39_L	326_I	0.526	1.00
14_G	309_C	0.525	1.00
119_P	122_N	0.524	1.00
85_I	111_T	0.521	1.00
163_I	175_L	0.521	1.00
256_D	261_P	0.520	1.00
146_Y	181_I	0.520	1.00
6_H	47_M	0.519	1.00
151_T	281_E	0.517	1.00
23_T	29_E	0.514	1.00
120_S	123_A	0.514	1.00
221_K	242_K	0.513	1.00
62_D	323_N	0.513	1.00
173_Y	295_L	0.512	1.00
293_H	296_R	0.512	1.00
218_Q	221_K	0.511	1.00
198_A	206_A	0.509	1.00
173_Y	176_F	0.508	1.00
262_V	265_L	0.507	1.00
160_H	205_Y	0.507	1.00
149_L	174_A	0.507	1.00
46_L	53_Q	0.506	1.00
25_P	73_G	0.505	1.00
34_L	111_T	0.503	1.00
235_S	261_P	0.502	1.00
193_E	319_R	0.500	1.00

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
4gi2A	2	1	100	0.133	Contact Map
2eihA	4	1	100	0.15	Contact Map
1f8fA	4	0.9818	100	0.159	Contact Map
3jv7A	4	0.9787	100	0.16	Contact Map
4c4oA	4	0.9696	100	0.161	Contact Map
4oh1A	4	0.9848	100	0.162	Contact Map
4oaqA	2	0.9909	100	0.163	Contact Map
1h2bA	4	0.9787	100	0.163	Contact Map
4ej6A	1	0.9757	100	0.165	Contact Map
3ukoA	4	0.9848	100	0.165	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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