GALE - BACSU - GREMLIN Contacts

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GALE - UDP-glucose 4-epimerase

UniProt:	P55180	Sequences: MAILVTGGAGYIGSHTCVELLNSGYEIVVLDNLSNSSAEALNRVKEITGKDLTFYEADLLDREAVDSVFAENEIEAVIHFAGLKAVGESVAIPLKYYHNNLTGTFILCEAMEKYGVKKIVFSSSATVYGVPETSPITEDFPLGATNPYGQTKLMLEQILRDLHTADNEWSVALLRYFNPFGAHPSGRIGEDPNGIPNNLMPYVAQVAVGKLEQLSVFGNDYPTKDGTGVRDYIHVVDLAEGHVKALEKVLNSTGADAYNLGTGTGYSVLEMVKAFEKVSGKEVPYRFADRRPGDIATCFADPAKAKRELGWEAKRGLEEMCADSWRWQSSNVNGYKSAE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	339 (293)
Sequences:	55433 (38517)
Seq/√Len:	2250.2

ECOLI - GALE RMLB1 GM4D RMLB2 YBJS FCL HLDD YFCH RMLD YEEZ ARNA QOR2 YBJT YRAR
BACSU - GALE YTCB YFNG RMLB YFHF SPSK YTBQ YWNB YHFK YESF YHEG EPSC
HALSA - Q9HSV1 Q9HSU9 Q9HRD1 Q9HSE7 Q9HML4 Q9HS50 Q9HSQ3 Q9HNV3 Q9HPF1 Q9HR86
SULSO - Q97VN5 Q980W1 Q7LXG5 Q7LXE8 Q97XJ9 Q97XG1 Q97UM3 Q7LX44 Q7LXE6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
8_G	29_V	3.335	1.00
2_A	26_E	2.957	1.00
241_G	260_L	2.810	1.00
274_A	318_E	2.789	1.00
19_E	240_E	2.713	1.00
256_D	304_K	2.700	1.00
258_Y	308_E	2.635	1.00
66_D	113_K	2.604	1.00
316_G	319_E	2.569	1.00
98_H	102_T	2.387	1.00
277_K	318_E	2.366	1.00
76_A	246_L	2.288	1.00
122_S	242_H	2.224	1.00
30_L	57_A	2.212	1.00
306_K	312_E	2.208	1.00
92_I	95_K	2.200	1.00
61_D	64_A	2.181	1.00
6_T	79_H	2.169	1.00
118_K	170_S	2.145	1.00
180_F	320_M	2.132	1.00
79_H	121_F	2.107	1.00
19_E	23_S	2.105	1.00
57_A	64_A	2.080	1.00
240_E	314_K	2.063	1.00
23_S	247_E	2.025	1.00
78_I	246_L	2.018	1.00
5_V	17_C	1.957	1.00
19_E	243_V	1.948	1.00
4_L	74_I	1.925	1.00
303_A	307_R	1.917	1.00
278_V	322_A	1.881	1.00
240_E	244_K	1.874	1.00
28_V	53_T	1.874	1.00
269_L	273_K	1.855	1.00
176_Y	242_H	1.837	1.00
236_V	323_D	1.825	1.00
274_A	277_K	1.771	1.00
26_E	53_T	1.771	1.00
28_V	74_I	1.751	1.00
174_L	245_A	1.728	1.00
159_L	171_V	1.715	1.00
60_L	98_H	1.703	1.00
267_S	270_E	1.701	1.00
16_T	239_A	1.697	1.00
16_T	78_I	1.679	1.00
137_T	140_F	1.677	1.00
263_G	306_K	1.623	1.00
209_G	212_E	1.606	1.00
33_L	54_F	1.604	1.00
234_H	323_D	1.592	1.00
205_Q	209_G	1.585	1.00
28_V	55_Y	1.585	1.00
128_Y	259_N	1.557	1.00
270_E	273_K	1.543	1.00
66_D	110_A	1.533	1.00
123_S	127_V	1.532	1.00
322_A	326_R	1.529	1.00
16_T	80_F	1.517	1.00
19_E	22_N	1.515	1.00
305_A	309_L	1.497	1.00
213_Q	286_R	1.491	1.00
62_R	109_E	1.489	1.00
12_I	179_P	1.485	1.00
2_A	28_V	1.483	1.00
75_E	117_K	1.483	1.00
105_F	109_E	1.469	1.00
148_Y	152_K	1.462	1.00
79_H	104_T	1.455	1.00
174_L	242_H	1.437	1.00
274_A	278_V	1.430	1.00
138_E	304_K	1.426	1.00
78_I	242_H	1.421	1.00
234_H	320_M	1.420	1.00
23_S	243_V	1.418	1.00
302_P	306_K	1.417	1.00
105_F	158_I	1.406	1.00
102_T	105_F	1.399	1.00
18_V	183_H	1.394	1.00
176_Y	238_L	1.381	1.00
142_L	153_L	1.366	1.00
243_V	247_E	1.359	1.00
25_Y	247_E	1.354	1.00
177_F	300_A	1.345	1.00
97_Y	154_M	1.342	1.00
235_V	239_A	1.334	1.00
19_E	239_A	1.334	1.00
100_N	151_T	1.329	1.00
17_C	29_V	1.327	1.00
66_D	114_Y	1.323	1.00
319_E	322_A	1.321	1.00
3_I	25_Y	1.320	1.00
94_L	98_H	1.320	1.00
118_K	172_A	1.320	1.00
77_V	111_M	1.317	1.00
153_L	157_Q	1.309	1.00
231_D	263_G	1.304	1.00
269_L	287_F	1.291	1.00
104_T	155_L	1.288	1.00
80_F	122_S	1.285	1.00
107_L	119_I	1.282	1.00
233_I	238_L	1.278	1.00
64_A	67_S	1.275	1.00
215_S	286_R	1.266	1.00
244_K	248_K	1.261	1.00
62_R	106_I	1.260	1.00
206_V	212_E	1.251	1.00
122_S	176_Y	1.237	1.00
137_T	301_D	1.231	1.00
157_Q	160_R	1.223	1.00
108_C	162_L	1.213	1.00
8_G	17_C	1.197	1.00
109_E	113_K	1.196	1.00
69_F	77_V	1.195	1.00
302_P	313_A	1.194	1.00
109_E	112_E	1.193	1.00
319_E	323_D	1.187	1.00
315_R	323_D	1.184	1.00
67_S	70_A	1.172	1.00
20_L	243_V	1.166	1.00
256_D	308_E	1.163	1.00
59_L	103_G	1.145	1.00
175_R	257_A	1.142	1.00
163_H	171_V	1.136	1.00
241_G	305_A	1.128	1.00
9_A	31_D	1.127	1.00
21_L	52_L	1.109	1.00
133_T	137_T	1.103	1.00
229_V	265_G	1.100	1.00
111_M	119_I	1.096	1.00
213_Q	284_P	1.087	1.00
69_F	74_I	1.084	1.00
121_F	155_L	1.077	1.00
266_Y	317_L	1.075	1.00
227_T	269_L	1.072	1.00
62_R	66_D	1.071	1.00
240_E	311_W	1.063	1.00
160_R	257_A	1.062	1.00
160_R	173_L	1.062	1.00
133_T	140_F	1.058	1.00
18_V	22_N	1.057	1.00
14_S	183_H	1.057	1.00
70_A	114_Y	1.056	1.00
175_R	259_N	1.054	1.00
237_D	262_T	1.054	1.00
15_H	236_V	1.054	1.00
3_I	20_L	1.051	1.00
80_F	242_H	1.046	1.00
304_K	308_E	1.041	1.00
150_Q	154_M	1.040	1.00
59_L	81_A	1.039	1.00
156_E	175_R	1.034	1.00
234_H	315_R	1.031	1.00
19_E	236_V	1.021	1.00
29_V	52_L	1.019	1.00
139_D	304_K	1.018	1.00
276_E	282_E	1.015	1.00
121_F	159_L	1.015	1.00
21_L	51_D	1.014	1.00
111_M	116_V	1.013	1.00
99_N	103_G	1.012	1.00
11_Y	181_G	1.009	1.00
4_L	30_L	1.008	1.00
108_C	119_I	1.001	1.00
180_F	234_H	1.000	1.00
66_D	70_A	0.999	1.00
234_H	237_D	0.989	1.00
261_G	300_A	0.986	1.00
110_A	114_Y	0.969	1.00
136_I	140_F	0.969	1.00
318_E	322_A	0.965	1.00
170_S	254_G	0.964	1.00
30_L	65_V	0.961	1.00
160_R	171_V	0.958	1.00
121_F	173_L	0.954	1.00
63_E	67_S	0.949	1.00
258_Y	304_K	0.946	1.00
123_S	156_E	0.945	1.00
265_G	297_T	0.943	1.00
11_Y	235_V	0.940	1.00
2_A	74_I	0.937	1.00
288_A	291_R	0.936	1.00
278_V	321_C	0.935	1.00
63_E	66_D	0.935	1.00
55_Y	68_V	0.931	1.00
158_I	161_D	0.929	1.00
278_V	325_W	0.927	1.00
273_K	276_E	0.925	1.00
3_I	76_A	0.922	1.00
64_A	68_V	0.918	1.00
244_K	309_L	0.916	1.00
119_I	159_L	0.913	1.00
241_G	311_W	0.912	1.00
179_P	238_L	0.908	1.00
199_L	203_V	0.906	1.00
279_S	325_W	0.904	1.00
112_E	167_N	0.902	1.00
83_L	99_N	0.901	1.00
253_T	256_D	0.898	1.00
248_K	252_S	0.894	1.00
28_V	73_E	0.892	1.00
108_C	158_I	0.888	1.00
65_V	110_A	0.886	1.00
206_V	209_G	0.886	1.00
227_T	267_S	0.884	1.00
112_E	169_W	0.881	1.00
6_T	81_A	0.880	1.00
32_N	58_D	0.877	1.00
108_C	159_L	0.877	1.00
2_A	25_Y	0.876	1.00
172_A	245_A	0.876	1.00
179_P	233_I	0.873	1.00
265_G	299_F	0.873	1.00
21_L	27_I	0.871	1.00
120_V	174_L	0.870	1.00
30_L	68_V	0.869	1.00
261_G	302_P	0.867	1.00
102_T	106_I	0.863	1.00
211_L	214_L	0.858	1.00
88_E	92_I	0.857	1.00
198_N	201_P	0.857	1.00
323_D	326_R	0.846	1.00
15_H	235_V	0.846	1.00
16_T	20_L	0.842	1.00
240_E	315_R	0.839	1.00
174_L	260_L	0.835	1.00
266_Y	270_E	0.834	1.00
69_F	114_Y	0.833	1.00
17_C	27_I	0.825	1.00
160_R	164_T	0.825	1.00
278_V	318_E	0.820	1.00
2_A	75_E	0.817	1.00
173_L	257_A	0.817	1.00
226_G	269_L	0.815	1.00
245_A	305_A	0.813	1.00
245_A	309_L	0.811	1.00
69_F	111_M	0.805	1.00
30_L	64_A	0.804	1.00
110_A	113_K	0.803	1.00
33_L	36_S	0.799	1.00
3_I	78_I	0.799	1.00
260_L	305_A	0.799	1.00
62_R	113_K	0.798	1.00
69_F	110_A	0.797	1.00
106_I	109_E	0.797	1.00
244_K	247_E	0.796	1.00
97_Y	101_L	0.796	1.00
127_V	156_E	0.794	1.00
109_E	162_L	0.793	1.00
34_S	56_E	0.791	1.00
273_K	277_K	0.791	1.00
263_G	302_P	0.788	1.00
229_V	267_S	0.785	1.00
264_T	316_G	0.783	1.00
276_E	281_K	0.781	1.00
236_V	315_R	0.776	1.00
103_G	106_I	0.775	1.00
229_V	297_T	0.765	1.00
25_Y	75_E	0.764	1.00
125_A	177_F	0.762	1.00
324_S	327_W	0.761	1.00
205_Q	208_V	0.760	1.00
182_A	323_D	0.760	1.00
31_D	54_F	0.758	1.00
161_D	165_A	0.757	1.00
3_I	246_L	0.755	1.00
6_T	107_L	0.751	1.00
266_Y	271_M	0.750	1.00
15_H	19_E	0.747	1.00
97_Y	102_T	0.744	1.00
15_H	239_A	0.744	1.00
15_H	18_V	0.743	1.00
144_A	149_G	0.739	1.00
60_L	99_N	0.737	1.00
20_L	246_L	0.734	1.00
4_L	57_A	0.734	1.00
97_Y	151_T	0.733	1.00
33_L	56_E	0.730	1.00
303_A	306_K	0.727	1.00
154_M	157_Q	0.726	1.00
304_K	307_R	0.723	1.00
96_Y	151_T	0.722	1.00
12_I	238_L	0.721	1.00
177_F	261_G	0.721	1.00
101_L	154_M	0.716	1.00
117_K	170_S	0.709	1.00
244_K	310_G	0.709	1.00
244_K	311_W	0.707	1.00
138_E	305_A	0.707	1.00
271_M	317_L	0.704	1.00
70_A	73_E	0.699	1.00
202_Y	205_Q	0.696	1.00
282_E	285_Y	0.695	1.00
315_R	319_E	0.695	1.00
16_T	242_H	0.693	1.00
4_L	77_V	0.693	1.00
274_A	317_L	0.693	1.00
237_D	314_K	0.693	1.00
106_I	110_A	0.689	1.00
104_T	159_L	0.687	1.00
95_K	98_H	0.686	1.00
90_V	147_P	0.685	1.00
61_D	65_V	0.682	1.00
58_D	61_D	0.679	1.00
79_H	107_L	0.679	1.00
83_L	100_N	0.678	1.00
104_T	108_C	0.674	1.00
204_A	208_V	0.674	1.00
49_G	52_L	0.670	1.00
77_V	119_I	0.666	1.00
77_V	107_L	0.665	1.00
83_L	96_Y	0.664	1.00
155_L	159_L	0.662	1.00
157_Q	161_D	0.660	1.00
218_G	226_G	0.660	1.00
93_P	150_Q	0.656	1.00
112_E	162_L	0.656	1.00
76_A	118_K	0.655	1.00
100_N	148_Y	0.653	1.00
253_T	308_E	0.652	1.00
65_V	106_I	0.651	1.00
240_E	243_V	0.649	1.00
278_V	326_R	0.649	1.00
182_A	234_H	0.648	1.00
127_V	142_L	0.647	1.00
162_L	167_N	0.645	1.00
124_S	152_K	0.644	1.00
95_K	99_N	0.644	1.00
82_G	100_N	0.643	1.00
14_S	18_V	0.643	1.00
174_L	241_G	0.643	1.00
134_S	140_F	0.642	1.00
315_R	320_M	0.642	1.00
89_S	96_Y	0.640	1.00
202_Y	206_V	0.639	1.00
138_E	259_N	0.638	1.00
38_A	56_E	0.636	1.00
159_L	173_L	0.635	1.00
248_K	253_T	0.635	1.00
276_E	283_V	0.635	1.00
2_A	73_E	0.633	1.00
285_Y	288_A	0.632	1.00
131_P	136_I	0.629	1.00
124_S	127_V	0.627	1.00
28_V	68_V	0.624	1.00
171_V	255_A	0.623	1.00
215_S	288_A	0.622	1.00
83_L	95_K	0.621	1.00
239_A	243_V	0.618	1.00
178_N	230_R	0.616	1.00
125_A	300_A	0.616	1.00
23_S	240_E	0.614	1.00
120_V	246_L	0.610	1.00
207_A	214_L	0.608	1.00
264_T	318_E	0.608	1.00
146_N	149_G	0.607	1.00
270_E	274_A	0.606	1.00
26_E	51_D	0.606	1.00
154_M	158_I	0.605	1.00
68_V	74_I	0.603	1.00
112_E	165_A	0.602	1.00
25_Y	76_A	0.601	1.00
132_E	140_F	0.600	1.00
161_D	164_T	0.599	1.00
237_D	240_E	0.598	1.00
231_D	262_T	0.594	1.00
80_F	176_Y	0.588	1.00
274_A	321_C	0.587	1.00
15_H	183_H	0.587	1.00
112_E	168_E	0.584	1.00
306_K	313_A	0.582	1.00
314_K	319_E	0.582	1.00
150_Q	157_Q	0.580	1.00
97_Y	150_Q	0.579	1.00
104_T	121_F	0.575	1.00
126_T	149_G	0.575	1.00
204_A	325_W	0.572	1.00
4_L	68_V	0.571	1.00
158_I	162_L	0.568	1.00
33_L	38_A	0.567	1.00
142_L	157_Q	0.567	1.00
76_A	120_V	0.566	1.00
211_L	215_S	0.566	1.00
207_A	276_E	0.564	1.00
182_A	236_V	0.562	1.00
144_A	153_L	0.560	1.00
76_A	117_K	0.560	1.00
9_A	33_L	0.559	1.00
4_L	69_F	0.557	1.00
198_N	202_Y	0.555	1.00
20_L	78_I	0.554	1.00
228_G	268_V	0.554	1.00
150_Q	161_D	0.554	1.00
180_F	262_T	0.551	1.00
151_T	155_L	0.551	1.00
120_V	245_A	0.550	1.00
135_P	301_D	0.550	1.00
276_E	279_S	0.549	1.00
16_T	243_V	0.548	1.00
5_V	29_V	0.548	1.00
201_P	205_Q	0.545	1.00
18_V	236_V	0.543	1.00
48_T	52_L	0.540	1.00
204_A	275_F	0.540	1.00
147_P	151_T	0.537	1.00
200_M	271_M	0.537	1.00
229_V	299_F	0.532	1.00
23_S	244_K	0.532	1.00
176_Y	179_P	0.529	1.00
57_A	68_V	0.529	1.00
211_L	281_K	0.528	1.00
123_S	175_R	0.526	1.00
238_L	260_L	0.525	1.00
79_H	119_I	0.525	1.00
127_V	175_R	0.524	1.00
295_I	298_C	0.523	1.00
55_Y	64_A	0.521	1.00
137_T	303_A	0.517	1.00
275_F	325_W	0.516	1.00
258_Y	305_A	0.516	1.00
78_I	243_V	0.514	1.00
231_D	265_G	0.514	1.00
286_R	289_D	0.513	1.00
17_C	21_L	0.510	1.00
65_V	69_F	0.510	1.00
216_V	287_F	0.509	1.00
148_Y	151_T	0.509	1.00
207_A	275_F	0.508	1.00
218_G	225_D	0.508	1.00
286_R	290_R	0.506	1.00
89_S	147_P	0.506	1.00
163_H	255_A	0.505	1.00
120_V	242_H	0.504	1.00
5_V	20_L	0.504	1.00
111_M	114_Y	0.504	1.00
108_C	112_E	0.503	1.00
29_V	54_F	0.502	1.00
147_P	150_Q	0.502	1.00
177_F	231_D	0.501	1.00
275_F	321_C	0.501	1.00
184_P	198_N	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
1udbA	2	0.9941	100	0.19	Contact Map
1sb8A	2	0.9322	100	0.203	Contact Map
3enkA	2	0.9912	100	0.204	Contact Map
2c20A	2	0.9676	100	0.205	Contact Map
3rufA	2	0.9263	100	0.207	Contact Map
1ek6A	2	0.9941	100	0.211	Contact Map
4lisA	2	0.9941	100	0.214	Contact Map
1oc2A	2	0.9292	100	0.219	Contact Map
1gy8A	2	0.9853	100	0.222	Contact Map
1r6dA	2	0.9263	100	0.222	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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