GALE - ECOLI - GREMLIN Contacts

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GALE - UDP-glucose 4-epimerase

UniProt:	P09147	Sequences: MRVLVTGGSGYIGSHTCVQLLQNGHDVIILDNLCNSKRSVLPVIERLGGKHPTFVEGDIRNEALMTEILHDHAIDTVIHFAGLKAVGESVQKPLEYYDNNVNGTLRLISAMRAANVKNFIFSSSATVYGDQPKIPYVESFPTGTPQSPYGKSKLMVEQILTDLQKAQPDWSIALLRYFNPVGAHPSGDMGEDPQGIPNNLMPYIAQVAVGRRDSLAIFGNDYPTEDGTGVRDYIHVMDLADGHVVAMEKLANKPGVHIYNLGAGVGNSVLDVVNAFSKACGKPVNYHFAPRREGDLPAYWADASKADRELNWRVTRTLDEMAQDTWHWQSRHPQGYPD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10362
Length:	338 (293)
Sequences:	55321 (38421)
Seq/√Len:	2244.6

ECOLI - GALE RMLB1 RMLB2 GM4D YBJS HLDD FCL YFCH RMLD YEEZ QOR2 ARNA YBJT YRAR
BACSU - GALE YTCB YFNG RMLB YFHF SPSK YTBQ YWNB YHFK YESF YHEG EPSC
HALSA - Q9HSV1 Q9HSU9 Q9HRD1 Q9HSE7 Q9HML4 Q9HS50 Q9HPF1 Q9HSQ3 Q9HNV3 Q9HR86
SULSO - Q97VN5 Q980W1 Q7LXG5 Q7LXE8 Q97XJ9 Q97XG1 Q97UM3 Q7LX44 Q7LXE6 Q97XF9

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_I	3.184	1.00
275_A	319_D	2.856	1.00
242_G	261_L	2.711	1.00
2_R	26_D	2.706	1.00
257_H	305_K	2.623	1.00
19_Q	241_D	2.623	1.00
259_Y	309_E	2.481	1.00
66_T	113_A	2.449	1.00
98_D	102_N	2.448	1.00
122_S	243_H	2.269	1.00
76_T	247_M	2.248	1.00
92_K	95_E	2.220	1.00
317_T	320_E	2.187	1.00
278_K	319_D	2.171	1.00
79_H	121_F	2.125	1.00
30_L	57_G	2.122	1.00
118_N	171_S	2.097	1.00
6_T	79_H	2.085	1.00
241_D	315_T	2.065	1.00
19_Q	23_N	2.054	1.00
279_A	323_Q	2.035	1.00
307_D	313_R	1.992	1.00
61_N	64_L	1.986	1.00
19_Q	244_V	1.976	1.00
181_V	321_M	1.975	1.00
137_V	140_F	1.966	1.00
78_I	247_M	1.950	1.00
304_S	308_R	1.947	1.00
177_Y	243_H	1.937	1.00
57_G	64_L	1.913	1.00
28_I	53_T	1.870	1.00
270_L	274_N	1.863	1.00
23_N	248_E	1.838	1.00
241_D	245_V	1.833	1.00
4_L	74_I	1.823	1.00
237_M	324_D	1.822	1.00
275_A	278_K	1.818	1.00
160_L	172_I	1.784	1.00
5_V	17_C	1.778	1.00
28_I	74_I	1.773	1.00
175_L	246_A	1.754	1.00
26_D	53_T	1.743	1.00
60_R	98_D	1.701	1.00
268_S	271_D	1.696	1.00
264_G	307_D	1.678	1.00
28_I	55_V	1.676	1.00
214_S	287_H	1.651	1.00
16_T	240_A	1.631	1.00
16_T	78_I	1.607	1.00
66_T	110_A	1.584	1.00
2_R	28_I	1.579	1.00
235_H	324_D	1.577	1.00
33_L	54_F	1.552	1.00
62_E	109_S	1.549	1.00
105_L	159_I	1.538	1.00
19_Q	22_Q	1.522	1.00
23_N	244_V	1.522	1.00
206_Q	210_G	1.520	1.00
306_A	310_L	1.509	1.00
102_N	105_L	1.501	1.00
303_A	307_D	1.491	1.00
210_G	213_D	1.489	1.00
323_Q	327_H	1.483	1.00
123_S	127_V	1.482	1.00
105_L	109_S	1.476	1.00
16_T	80_F	1.468	1.00
244_V	248_E	1.441	1.00
154_L	158_Q	1.433	1.00
235_H	321_M	1.423	1.00
75_D	117_K	1.421	1.00
97_Y	155_M	1.408	1.00
138_E	305_K	1.399	1.00
177_Y	239_L	1.385	1.00
104_T	156_V	1.382	1.00
149_Y	153_K	1.377	1.00
3_V	25_H	1.376	1.00
216_A	287_H	1.369	1.00
18_V	184_H	1.366	1.00
12_I	180_P	1.364	1.00
271_D	274_N	1.360	1.00
275_A	279_A	1.360	1.00
64_L	67_E	1.353	1.00
128_Y	260_N	1.352	1.00
94_L	98_D	1.350	1.00
118_N	173_A	1.348	1.00
19_Q	240_A	1.336	1.00
78_I	243_H	1.327	1.00
245_V	249_K	1.327	1.00
178_F	301_A	1.324	1.00
270_L	288_F	1.324	1.00
142_T	154_L	1.317	1.00
79_H	104_T	1.308	1.00
25_H	248_E	1.302	1.00
17_C	29_I	1.297	1.00
66_T	114_A	1.288	1.00
100_N	152_S	1.285	1.00
236_V	240_A	1.283	1.00
80_F	122_S	1.279	1.00
232_D	264_G	1.278	1.00
320_E	323_Q	1.271	1.00
175_L	243_H	1.270	1.00
158_Q	161_T	1.266	1.00
62_E	66_T	1.252	1.00
62_E	106_R	1.250	1.00
316_R	324_D	1.243	1.00
8_G	17_C	1.235	1.00
122_S	177_Y	1.235	1.00
77_V	111_M	1.235	1.00
230_V	266_G	1.233	1.00
207_V	213_D	1.222	1.00
320_E	324_D	1.190	1.00
257_H	309_E	1.188	1.00
214_S	285_N	1.188	1.00
164_Q	172_I	1.186	1.00
121_F	156_V	1.180	1.00
108_I	163_L	1.179	1.00
234_I	239_L	1.174	1.00
59_I	103_G	1.157	1.00
109_S	112_R	1.157	1.00
137_V	302_D	1.152	1.00
70_H	114_A	1.139	1.00
107_L	119_F	1.137	1.00
136_Y	140_F	1.137	1.00
109_S	113_A	1.120	1.00
303_A	314_V	1.120	1.00
69_L	74_I	1.117	1.00
111_M	119_F	1.112	1.00
9_S	31_D	1.110	1.00
267_N	318_L	1.108	1.00
20_L	244_V	1.106	1.00
139_S	305_K	1.103	1.00
305_K	309_E	1.103	1.00
176_R	258_I	1.097	1.00
161_T	174_L	1.092	1.00
69_L	77_V	1.089	1.00
4_L	30_L	1.088	1.00
67_E	70_H	1.087	1.00
3_V	20_L	1.086	1.00
59_I	81_A	1.080	1.00
228_T	270_L	1.074	1.00
29_I	52_P	1.073	1.00
18_V	22_Q	1.067	1.00
151_K	155_M	1.055	1.00
277_S	283_P	1.053	1.00
242_G	306_A	1.048	1.00
121_F	160_L	1.035	1.00
15_H	237_M	1.033	1.00
159_I	162_D	1.031	1.00
66_T	70_H	1.027	1.00
19_Q	237_M	1.026	1.00
262_G	301_A	1.024	1.00
274_N	277_S	1.024	1.00
121_F	174_L	1.022	1.00
21_L	52_P	1.014	1.00
133_K	137_V	1.014	1.00
161_T	258_I	1.013	1.00
108_I	119_F	1.012	1.00
14_S	184_H	1.010	1.00
88_E	92_K	1.006	1.00
289_A	292_R	1.000	1.00
171_S	255_G	0.996	1.00
235_H	316_R	0.992	1.00
176_R	260_N	0.989	1.00
80_F	243_H	0.988	1.00
228_T	268_S	0.985	1.00
319_D	323_Q	0.982	1.00
241_D	312_W	0.982	1.00
157_E	176_R	0.971	1.00
238_D	263_A	0.970	1.00
280_C	326_W	0.965	1.00
3_V	76_T	0.963	1.00
161_T	172_I	0.958	1.00
111_M	116_V	0.958	1.00
55_V	68_I	0.957	1.00
120_I	175_L	0.952	1.00
266_G	298_A	0.951	1.00
99_N	103_G	0.951	1.00
83_L	99_N	0.948	1.00
279_A	326_W	0.948	1.00
63_A	66_T	0.947	1.00
21_L	51_H	0.940	1.00
63_A	67_E	0.939	1.00
266_G	300_W	0.939	1.00
64_L	68_I	0.933	1.00
65_M	110_A	0.930	1.00
119_F	160_L	0.927	1.00
133_K	140_F	0.926	1.00
180_P	239_L	0.924	1.00
11_Y	236_V	0.920	1.00
30_L	68_I	0.919	1.00
181_V	235_H	0.915	1.00
110_A	114_A	0.915	1.00
11_Y	182_G	0.911	1.00
259_Y	305_K	0.911	1.00
48_G	52_P	0.905	1.00
102_N	106_R	0.899	1.00
267_N	271_D	0.898	1.00
62_E	113_A	0.895	1.00
200_L	204_I	0.892	1.00
15_H	236_V	0.892	1.00
112_R	168_P	0.889	1.00
235_H	238_D	0.888	1.00
33_L	36_S	0.884	1.00
262_G	303_A	0.882	1.00
180_P	234_I	0.882	1.00
230_V	298_A	0.882	1.00
324_D	327_H	0.881	1.00
2_R	74_I	0.880	1.00
173_A	246_A	0.878	1.00
108_I	160_L	0.878	1.00
241_D	316_R	0.876	1.00
2_R	25_H	0.874	1.00
30_L	65_M	0.874	1.00
69_L	110_A	0.871	1.00
112_R	170_W	0.870	1.00
245_V	248_E	0.868	1.00
249_K	253_K	0.866	1.00
34_C	56_E	0.862	1.00
30_L	64_L	0.861	1.00
106_R	109_S	0.858	1.00
28_I	73_A	0.857	1.00
237_M	316_R	0.855	1.00
162_D	166_A	0.855	1.00
279_A	319_D	0.852	1.00
32_N	58_D	0.851	1.00
245_V	310_L	0.851	1.00
161_T	165_K	0.848	1.00
110_A	113_A	0.848	1.00
242_G	312_W	0.848	1.00
97_Y	101_V	0.847	1.00
123_S	157_E	0.846	1.00
174_L	258_I	0.845	1.00
6_T	107_L	0.843	1.00
109_S	163_L	0.836	1.00
175_L	261_L	0.830	1.00
254_P	257_H	0.828	1.00
17_C	27_V	0.827	1.00
279_A	322_A	0.824	1.00
134_I	140_F	0.822	1.00
230_V	268_S	0.820	1.00
101_V	155_M	0.820	1.00
33_L	56_E	0.813	1.00
246_A	310_L	0.813	1.00
212_R	215_L	0.807	1.00
69_L	114_A	0.807	1.00
76_T	118_N	0.807	1.00
108_I	159_I	0.806	1.00
3_V	78_I	0.804	1.00
21_L	27_V	0.804	1.00
16_T	20_L	0.803	1.00
97_Y	102_N	0.803	1.00
2_R	75_D	0.799	1.00
6_T	81_A	0.799	1.00
31_D	54_F	0.797	1.00
207_V	210_G	0.794	1.00
227_G	270_L	0.793	1.00
112_R	166_A	0.791	1.00
304_S	307_D	0.788	1.00
183_A	324_D	0.786	1.00
125_A	178_F	0.784	1.00
15_H	18_V	0.778	1.00
264_G	303_A	0.775	1.00
15_H	19_Q	0.771	1.00
274_N	278_K	0.769	1.00
203_Y	206_Q	0.768	1.00
277_S	282_K	0.764	1.00
206_Q	209_V	0.764	1.00
265_V	317_T	0.762	1.00
69_L	111_M	0.758	1.00
96_Y	152_S	0.753	1.00
316_R	320_E	0.753	1.00
15_H	240_A	0.752	1.00
216_A	289_A	0.751	1.00
158_Q	162_D	0.746	1.00
106_R	110_A	0.746	1.00
127_V	157_E	0.745	1.00
3_V	247_M	0.745	1.00
93_P	151_K	0.743	1.00
155_M	158_Q	0.741	1.00
77_V	107_L	0.740	1.00
325_T	328_W	0.738	1.00
97_Y	152_S	0.738	1.00
117_K	171_S	0.737	1.00
104_T	160_L	0.732	1.00
60_R	99_N	0.729	1.00
261_L	306_A	0.728	1.00
203_Y	207_V	0.727	1.00
305_K	308_R	0.725	1.00
241_D	244_V	0.723	1.00
79_H	107_L	0.719	1.00
25_H	75_D	0.719	1.00
95_E	98_D	0.718	1.00
145_P	150_G	0.717	1.00
138_E	306_A	0.716	1.00
178_F	262_G	0.716	1.00
286_Y	289_A	0.716	1.00
283_P	286_Y	0.715	1.00
199_N	202_P	0.714	1.00
238_D	241_D	0.713	1.00
205_A	209_V	0.710	1.00
58_D	61_N	0.708	1.00
83_L	96_Y	0.707	1.00
279_A	327_H	0.706	1.00
245_V	312_W	0.703	1.00
61_N	65_M	0.702	1.00
246_A	306_A	0.702	1.00
16_T	243_H	0.699	1.00
112_R	163_L	0.699	1.00
20_L	247_M	0.697	1.00
267_N	272_V	0.695	1.00
12_I	239_L	0.693	1.00
90_V	148_P	0.690	1.00
103_G	106_R	0.689	1.00
4_L	57_G	0.688	1.00
26_D	51_H	0.688	1.00
196_I	199_N	0.686	1.00
83_L	95_E	0.684	1.00
272_V	318_L	0.681	1.00
271_D	275_A	0.677	1.00
275_A	318_L	0.675	1.00
95_E	99_N	0.675	1.00
125_A	301_A	0.673	1.00
245_V	311_N	0.672	1.00
163_L	168_P	0.669	1.00
104_T	108_I	0.668	1.00
70_H	73_A	0.666	1.00
162_D	165_K	0.665	1.00
65_M	106_R	0.665	1.00
4_L	77_V	0.662	1.00
277_S	284_V	0.662	1.00
132_P	140_F	0.662	1.00
14_S	18_V	0.656	1.00
77_V	119_F	0.656	1.00
172_I	256_V	0.655	1.00
238_D	315_T	0.645	1.00
83_L	100_N	0.644	1.00
135_P	302_D	0.643	1.00
254_P	309_E	0.639	1.00
156_V	160_L	0.638	1.00
316_R	321_M	0.637	1.00
151_K	158_Q	0.637	1.00
183_A	235_H	0.635	1.00
249_K	254_P	0.634	1.00
24_G	51_H	0.633	1.00
155_M	159_I	0.631	1.00
49_G	52_P	0.628	1.00
2_R	73_A	0.624	1.00
208_A	277_S	0.622	1.00
307_D	314_V	0.621	1.00
89_S	96_Y	0.618	1.00
147_S	150_G	0.615	1.00
126_T	150_G	0.614	1.00
177_Y	180_P	0.614	1.00
296_L	299_Y	0.614	1.00
138_E	260_N	0.613	1.00
25_H	76_T	0.612	1.00
15_H	184_H	0.604	1.00
120_I	247_M	0.604	1.00
76_T	117_K	0.602	1.00
199_N	203_Y	0.602	1.00
97_Y	151_K	0.601	1.00
175_L	242_G	0.601	1.00
205_A	276_F	0.600	1.00
232_D	263_A	0.599	1.00
160_L	174_L	0.599	1.00
23_N	241_D	0.596	1.00
275_A	322_A	0.595	1.00
124_S	153_K	0.593	1.00
205_A	326_W	0.589	1.00
197_P	200_L	0.585	1.00
159_I	163_L	0.585	1.00
120_I	243_H	0.583	1.00
112_R	169_D	0.582	1.00
229_G	269_V	0.581	1.00
80_F	177_Y	0.580	1.00
179_N	231_R	0.576	1.00
48_G	51_H	0.576	1.00
82_G	100_N	0.575	1.00
212_R	282_K	0.573	1.00
277_S	280_C	0.570	1.00
287_H	290_P	0.569	1.00
4_L	68_I	0.566	1.00
265_V	319_D	0.565	1.00
315_T	320_E	0.564	1.00
131_Q	136_Y	0.563	1.00
79_H	119_F	0.562	1.00
219_G	227_G	0.561	1.00
100_N	149_Y	0.560	1.00
18_V	237_M	0.560	1.00
212_R	216_A	0.560	1.00
240_A	244_V	0.559	1.00
151_K	162_D	0.557	1.00
164_Q	256_V	0.557	1.00
152_S	156_V	0.556	1.00
124_S	127_V	0.548	1.00
76_T	120_I	0.548	1.00
230_V	300_W	0.547	1.00
68_I	74_I	0.546	1.00
135_P	300_W	0.544	1.00
20_L	78_I	0.542	1.00
201_M	272_V	0.541	1.00
28_I	68_I	0.539	1.00
16_T	244_V	0.537	1.00
17_C	21_L	0.535	1.00
161_T	164_Q	0.535	1.00
4_L	69_L	0.534	1.00
9_S	33_L	0.532	1.00
202_P	206_Q	0.531	1.00
306_A	314_V	0.530	1.00
163_L	170_W	0.529	1.00
29_I	54_F	0.527	1.00
127_V	142_T	0.526	1.00
183_A	237_M	0.526	1.00
23_N	245_V	0.525	1.00
185_P	199_N	0.525	1.00
148_P	152_S	0.524	1.00
104_T	121_F	0.524	1.00
259_Y	306_A	0.523	1.00
93_P	148_P	0.523	1.00
55_V	64_L	0.523	1.00
129_G	144_T	0.523	1.00
174_L	256_V	0.522	1.00
232_D	266_G	0.521	1.00
137_V	304_S	0.521	1.00
120_I	246_A	0.518	1.00
213_D	216_A	0.517	1.00
208_A	215_L	0.517	1.00
145_P	154_L	0.516	1.00
111_M	114_A	0.516	1.00
148_P	151_K	0.515	1.00
181_V	263_A	0.512	1.00
77_V	116_V	0.511	1.00
134_I	298_A	0.510	1.00
184_H	328_W	0.510	1.00
267_N	275_A	0.507	1.00
239_L	261_L	0.505	1.00
287_H	291_R	0.504	1.00
123_S	176_R	0.503	1.00
219_G	226_D	0.503	1.00
9_S	29_I	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	1	100	0.178	Contact Map
1ek6A	2	0.9941	100	0.194	Contact Map
3enkA	2	0.9941	100	0.197	Contact Map
3rufA	2	0.932	100	0.199	Contact Map
1sb8A	2	0.9349	100	0.201	Contact Map
2c20A	2	0.9704	100	0.201	Contact Map
4lisA	2	0.9911	100	0.202	Contact Map
1oc2A	2	0.926	100	0.207	Contact Map
1z45A	2	0.9527	100	0.209	Contact Map
1gy8A	2	0.9882	100	0.211	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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