YJJN - ECOLI - GREMLIN Contacts

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YJJN - Putative L-galactonate oxidoreductase

UniProt:	P39400	Sequences: MSTMNVLICQQPKELVWKQREIPIPGDNEALIKIKSVGICGTDIHAWGGNQPFFSYPRVLGHEICGEIVGLGKNIADLKNGQQVAVIPYVACQQCPACKSGRTNCCEKISVIGVHQDGGFSEYLSVPVANILPADGIDPQAAALIEPFAISAHAVRRAAIAPGEQVLVVGAGPIGLGAAAIAKADGAQVVVADTSPARREHVATRLELPLLDPSAEDFDAQLRAQFGGSLAQKVIDATGNQHAMNNTVNLIRHGGTVVFVGLFKGELQFSDPEFHKKETTMMGSRNATPEDFAKVGRLMAEGKITADMMLTHRYPFATLAETYERDVINNRELIKGVITF	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12590
Length:	340 (303)
Sequences:	52900 (36504)
Seq/√Len:	2097.1

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

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
318_T	321_E	2.978	1.00
35_K	139_P	2.953	1.00
33_K	69_V	2.830	1.00
35_K	67_E	2.749	1.00
10_Q	18_K	2.670	1.00
31_L	69_V	2.667	1.00
183_K	208_L	2.540	1.00
165_Q	188_Q	2.529	1.00
30_A	131_I	2.525	1.00
138_D	141_A	2.519	1.00
82_Q	133_P	2.362	1.00
79_K	82_Q	2.361	1.00
314_Y	325_R	2.341	1.00
221_Q	224_A	2.340	1.00
33_K	67_E	2.250	1.00
22_I	123_Y	2.226	1.00
171_A	191_V	2.195	1.00
33_K	123_Y	2.180	1.00
64_I	119_G	2.177	1.00
200_E	204_T	2.176	1.00
140_Q	313_R	2.140	1.00
10_Q	16_V	2.131	1.00
188_Q	209_P	2.093	1.00
166_V	182_A	2.090	1.00
297_R	301_E	2.065	1.00
77_D	128_V	2.060	1.00
312_H	325_R	2.059	1.00
199_R	203_A	2.054	1.00
161_A	164_E	2.054	1.00
83_Q	139_P	2.016	1.00
8_I	18_K	2.008	1.00
27_D	73_K	1.992	1.00
28_N	74_N	1.990	1.00
65_C	139_P	1.990	1.00
179_A	207_E	1.983	1.00
136_G	300_A	1.959	1.00
26_G	29_E	1.954	1.00
64_I	86_V	1.941	1.00
315_P	318_T	1.928	1.00
27_D	74_N	1.914	1.00
200_E	203_A	1.857	1.00
24_I	70_G	1.845	1.00
148_F	177_G	1.826	1.00
167_L	231_A	1.791	1.00
167_L	192_A	1.775	1.00
31_L	125_S	1.770	1.00
324_E	329_N	1.765	1.00
164_E	256_T	1.760	1.00
321_E	324_E	1.759	1.00
69_V	123_Y	1.754	1.00
196_P	200_E	1.746	1.00
314_Y	322_T	1.729	1.00
184_A	303_K	1.693	1.00
190_V	231_A	1.691	1.00
199_R	210_L	1.691	1.00
232_Q	252_R	1.672	1.00
193_D	199_R	1.660	1.00
72_G	75_I	1.652	1.00
48_G	328_I	1.649	1.00
256_T	280_T	1.616	1.00
321_E	325_R	1.612	1.00
196_P	212_D	1.611	1.00
251_I	257_V	1.602	1.00
169_V	247_T	1.597	1.00
158_A	233_K	1.594	1.00
325_R	331_R	1.593	1.00
209_P	225_Q	1.539	1.00
216_E	221_Q	1.538	1.00
83_Q	135_D	1.534	1.00
78_L	133_P	1.528	1.00
251_I	279_T	1.520	1.00
201_H	204_T	1.519	1.00
7_L	319_L	1.517	1.00
25_P	125_S	1.517	1.00
188_Q	208_L	1.513	1.00
212_D	215_A	1.503	1.00
256_T	282_M	1.502	1.00
29_E	127_P	1.498	1.00
217_D	220_A	1.493	1.00
71_L	80_N	1.491	1.00
196_P	215_A	1.482	1.00
120_F	323_Y	1.471	1.00
31_L	123_Y	1.464	1.00
5_N	19_Q	1.463	1.00
70_G	80_N	1.449	1.00
251_I	255_G	1.448	1.00
34_I	64_I	1.441	1.00
78_L	82_Q	1.440	1.00
67_E	83_Q	1.407	1.00
25_P	31_L	1.402	1.00
28_N	127_P	1.381	1.00
47_W	323_Y	1.375	1.00
179_A	191_V	1.372	1.00
5_N	122_E	1.370	1.00
36_S	140_Q	1.360	1.00
29_E	125_S	1.354	1.00
234_V	247_T	1.333	1.00
320_A	324_E	1.329	1.00
68_I	78_L	1.328	1.00
234_V	251_I	1.328	1.00
5_N	317_A	1.304	1.00
220_A	224_A	1.295	1.00
165_Q	190_V	1.292	1.00
31_L	70_G	1.291	1.00
311_T	325_R	1.287	1.00
30_A	78_L	1.285	1.00
194_T	213_P	1.259	1.00
67_E	139_P	1.259	1.00
156_R	294_K	1.246	1.00
6_V	20_R	1.240	1.00
169_V	192_A	1.239	1.00
297_R	300_A	1.237	1.00
7_L	17_W	1.228	1.00
178_A	235_I	1.228	1.00
35_K	83_Q	1.220	1.00
156_R	291_D	1.216	1.00
184_A	298_L	1.209	1.00
145_I	299_M	1.202	1.00
199_R	212_D	1.179	1.00
160_I	187_A	1.174	1.00
78_L	131_I	1.161	1.00
22_I	31_L	1.149	1.00
25_P	29_E	1.144	1.00
180_A	305_T	1.130	1.00
165_Q	232_Q	1.129	1.00
196_P	199_R	1.121	1.00
191_V	207_E	1.117	1.00
203_A	210_L	1.113	1.00
28_N	128_V	1.108	1.00
221_Q	225_Q	1.100	1.00
69_V	80_N	1.081	1.00
34_I	124_L	1.075	1.00
158_A	258_V	1.074	1.00
11_Q	14_E	1.072	1.00
7_L	316_F	1.065	1.00
294_K	297_R	1.060	1.00
289_P	293_A	1.051	1.00
126_V	131_I	1.050	1.00
164_E	232_Q	1.049	1.00
141_A	305_T	1.047	1.00
32_I	66_G	1.044	1.00
39_I	322_T	1.043	1.00
36_S	139_P	1.039	1.00
201_H	333_L	1.030	1.00
47_W	328_I	1.028	1.00
157_R	280_T	1.027	1.00
153_H	291_D	1.024	1.00
217_D	221_Q	1.021	1.00
249_N	273_E	1.019	1.00
35_K	65_C	1.018	1.00
298_L	303_K	1.015	1.00
151_S	181_I	1.004	1.00
160_I	164_E	1.001	1.00
17_W	317_A	0.993	1.00
226_F	230_L	0.990	1.00
32_I	84_V	0.988	1.00
40_C	63_E	0.986	1.00
40_C	62_H	0.985	1.00
238_T	243_A	0.984	1.00
37_V	120_F	0.979	1.00
319_L	338_I	0.979	1.00
293_A	297_R	0.975	1.00
151_S	178_A	0.971	1.00
120_F	319_L	0.970	1.00
203_A	209_P	0.968	1.00
215_A	221_Q	0.960	1.00
37_V	119_G	0.956	1.00
219_D	249_N	0.956	1.00
324_E	328_I	0.955	1.00
182_A	187_A	0.947	1.00
148_F	295_V	0.946	1.00
194_T	199_R	0.945	1.00
194_T	214_S	0.943	1.00
71_L	75_I	0.940	1.00
171_A	193_D	0.939	1.00
154_A	260_V	0.934	1.00
137_I	142_A	0.931	1.00
168_V	178_A	0.923	1.00
325_R	336_G	0.923	1.00
236_D	239_G	0.921	1.00
190_V	209_P	0.912	1.00
22_I	70_G	0.910	1.00
179_A	189_V	0.901	1.00
273_E	277_K	0.901	1.00
8_I	59_V	0.898	1.00
75_I	128_V	0.897	1.00
168_V	182_A	0.892	1.00
245_N	249_N	0.889	1.00
169_V	234_V	0.886	1.00
28_N	72_G	0.885	1.00
193_D	210_L	0.883	1.00
222_L	231_A	0.881	1.00
176_L	201_H	0.880	1.00
192_A	213_P	0.879	1.00
195_S	198_R	0.875	1.00
8_I	20_R	0.875	1.00
58_R	117_D	0.873	1.00
219_D	246_N	0.873	1.00
33_K	122_E	0.873	1.00
152_A	294_K	0.872	1.00
24_I	31_L	0.871	1.00
79_K	133_P	0.869	1.00
44_I	327_V	0.869	1.00
171_A	179_A	0.868	1.00
167_L	250_L	0.867	1.00
181_I	295_V	0.864	1.00
171_A	202_V	0.864	1.00
38_G	63_E	0.861	1.00
246_N	249_N	0.859	1.00
165_Q	231_A	0.859	1.00
120_F	338_I	0.858	1.00
20_R	117_D	0.857	1.00
36_S	337_V	0.855	1.00
190_V	211_L	0.854	1.00
197_A	200_E	0.852	1.00
10_Q	14_E	0.850	1.00
135_D	300_A	0.847	1.00
195_S	212_D	0.847	1.00
154_A	235_I	0.841	1.00
22_I	69_V	0.837	1.00
6_V	59_V	0.837	1.00
191_V	202_V	0.837	1.00
64_I	124_L	0.835	1.00
76_A	128_V	0.833	1.00
85_A	296_G	0.828	1.00
274_F	281_M	0.821	1.00
219_D	223_R	0.817	1.00
157_R	282_M	0.814	1.00
314_Y	318_T	0.813	1.00
254_G	278_E	0.810	1.00
198_R	333_L	0.810	1.00
164_E	233_K	0.809	1.00
294_K	298_L	0.804	1.00
40_C	43_D	0.796	1.00
28_N	73_K	0.795	1.00
202_V	207_E	0.793	1.00
155_V	182_A	0.789	1.00
290_E	294_K	0.786	1.00
151_S	177_G	0.784	1.00
181_I	298_L	0.781	1.00
7_L	320_A	0.780	1.00
220_A	223_R	0.777	1.00
151_S	174_I	0.775	1.00
5_N	17_W	0.774	1.00
154_A	178_A	0.772	1.00
39_I	327_V	0.771	1.00
227_G	230_L	0.770	1.00
327_V	336_G	0.770	1.00
149_A	291_D	0.769	1.00
137_I	299_M	0.766	1.00
166_V	187_A	0.766	1.00
190_V	222_L	0.766	1.00
7_L	15_L	0.759	1.00
245_N	266_E	0.758	1.00
26_G	125_S	0.756	1.00
182_A	189_V	0.756	1.00
219_D	250_L	0.751	1.00
39_I	120_F	0.749	1.00
189_V	208_L	0.747	1.00
218_F	246_N	0.741	1.00
17_W	316_F	0.741	1.00
25_P	70_G	0.739	1.00
153_H	278_E	0.739	1.00
234_V	257_V	0.738	1.00
42_T	62_H	0.737	1.00
190_V	225_Q	0.736	1.00
86_V	126_V	0.736	1.00
247_T	257_V	0.736	1.00
298_L	302_G	0.734	1.00
290_E	293_A	0.732	1.00
204_T	305_T	0.731	1.00
160_I	233_K	0.731	1.00
298_L	301_E	0.731	1.00
217_D	246_N	0.731	1.00
185_D	294_K	0.730	1.00
40_C	146_E	0.728	1.00
270_S	273_E	0.728	1.00
138_D	142_A	0.725	1.00
71_L	79_K	0.719	1.00
84_V	131_I	0.718	1.00
30_A	128_V	0.718	1.00
168_V	191_V	0.715	1.00
169_V	243_A	0.713	1.00
65_C	143_A	0.713	1.00
63_E	146_E	0.711	1.00
237_A	260_V	0.709	1.00
65_C	83_Q	0.706	1.00
134_A	300_A	0.706	1.00
25_P	72_G	0.704	1.00
314_Y	338_I	0.704	1.00
274_F	279_T	0.702	1.00
36_S	313_R	0.697	1.00
274_F	283_G	0.697	1.00
312_H	321_E	0.696	1.00
20_R	59_V	0.694	1.00
231_A	234_V	0.691	1.00
259_F	281_M	0.691	1.00
325_R	329_N	0.689	1.00
152_A	295_V	0.688	1.00
310_L	313_R	0.686	1.00
181_I	185_D	0.685	1.00
146_E	150_I	0.685	1.00
139_P	142_A	0.681	1.00
159_A	256_T	0.680	1.00
151_S	155_V	0.678	1.00
132_L	293_A	0.678	1.00
193_D	202_V	0.675	1.00
62_H	146_E	0.672	1.00
233_K	258_V	0.671	1.00
9_C	14_E	0.668	1.00
119_G	124_L	0.666	1.00
187_A	233_K	0.664	1.00
147_P	173_P	0.664	1.00
40_C	147_P	0.661	1.00
199_R	202_V	0.660	1.00
150_I	174_I	0.659	1.00
222_L	250_L	0.655	1.00
13_K	324_E	0.653	1.00
296_G	300_A	0.653	1.00
159_A	282_M	0.652	1.00
41_G	45_H	0.651	1.00
83_Q	136_G	0.649	1.00
152_A	298_L	0.647	1.00
193_D	213_P	0.647	1.00
312_H	336_G	0.645	1.00
314_Y	336_G	0.644	1.00
57_P	61_G	0.642	1.00
159_A	280_T	0.642	1.00
30_A	68_I	0.641	1.00
244_M	257_V	0.640	1.00
253_H	277_K	0.639	1.00
132_L	292_F	0.639	1.00
82_Q	135_D	0.637	1.00
223_R	230_L	0.634	1.00
132_L	296_G	0.633	1.00
36_S	65_C	0.629	1.00
32_I	86_V	0.626	1.00
180_A	205_R	0.625	1.00
28_N	129_A	0.624	1.00
77_D	289_P	0.621	1.00
77_D	133_P	0.620	1.00
23_P	125_S	0.620	1.00
183_K	189_V	0.619	1.00
34_I	37_V	0.617	1.00
201_H	205_R	0.615	1.00
209_P	221_Q	0.613	1.00
179_A	205_R	0.613	1.00
236_D	257_V	0.612	1.00
145_I	295_V	0.612	1.00
42_T	46_A	0.612	1.00
323_Y	328_I	0.612	1.00
223_R	226_F	0.608	1.00
158_A	256_T	0.607	1.00
240_N	243_A	0.607	1.00
332_E	336_G	0.606	1.00
178_A	260_V	0.605	1.00
266_E	270_S	0.603	1.00
218_F	222_L	0.601	1.00
77_D	80_N	0.601	1.00
245_N	273_E	0.600	1.00
199_R	213_P	0.600	1.00
156_R	185_D	0.597	1.00
245_N	268_Q	0.597	1.00
193_D	212_D	0.596	1.00
234_V	250_L	0.596	1.00
152_A	291_D	0.595	1.00
192_A	211_L	0.595	1.00
233_K	256_T	0.595	1.00
231_A	250_L	0.594	1.00
150_I	260_V	0.592	1.00
278_E	288_T	0.590	1.00
87_I	132_L	0.587	1.00
25_P	74_N	0.587	1.00
45_H	50_N	0.586	1.00
23_P	123_Y	0.584	1.00
241_Q	245_N	0.582	1.00
132_L	289_P	0.578	1.00
11_Q	16_V	0.576	1.00
61_G	120_F	0.573	1.00
41_G	172_G	0.572	1.00
236_D	261_G	0.569	1.00
76_A	79_K	0.568	1.00
202_V	210_L	0.567	1.00
147_P	177_G	0.564	1.00
166_V	233_K	0.563	1.00
211_L	225_Q	0.563	1.00
44_I	328_I	0.562	1.00
162_P	185_D	0.561	1.00
243_A	247_T	0.559	1.00
86_V	131_I	0.559	1.00
23_P	31_L	0.558	1.00
193_D	198_R	0.554	1.00
32_I	131_I	0.553	1.00
165_Q	226_F	0.553	1.00
22_I	25_P	0.553	1.00
325_R	332_E	0.553	1.00
144_L	337_V	0.552	1.00
167_L	234_V	0.551	1.00
194_T	212_D	0.550	1.00
156_R	290_E	0.548	1.00
273_E	276_K	0.546	1.00
42_T	45_H	0.544	1.00
54_F	58_R	0.543	1.00
155_V	181_I	0.542	1.00
17_W	319_L	0.542	1.00
71_L	82_Q	0.542	1.00
211_L	221_Q	0.541	1.00
179_A	202_V	0.541	1.00
284_S	287_A	0.539	1.00
152_A	185_D	0.537	1.00
141_A	145_I	0.537	1.00
22_I	125_S	0.536	1.00
224_A	227_G	0.534	1.00
154_A	284_S	0.534	1.00
14_E	320_A	0.533	1.00
299_M	304_I	0.531	1.00
46_A	51_Q	0.530	1.00
211_L	216_E	0.530	1.00
65_C	142_A	0.530	1.00
197_A	331_R	0.529	1.00
134_A	142_A	0.528	1.00
177_G	181_I	0.527	1.00
14_E	47_W	0.527	1.00
59_V	118_G	0.527	1.00
144_L	306_A	0.522	1.00
21_E	24_I	0.522	1.00
40_C	335_K	0.521	1.00
44_I	48_G	0.521	1.00
34_I	86_V	0.521	1.00
34_I	119_G	0.520	1.00
23_P	29_E	0.520	1.00
302_G	305_T	0.519	1.00
292_F	296_G	0.519	1.00
78_L	128_V	0.518	1.00
159_A	164_E	0.517	1.00
128_V	131_I	0.517	1.00
312_H	318_T	0.516	1.00
190_V	226_F	0.515	1.00
15_L	323_Y	0.515	1.00
138_D	313_R	0.514	1.00
258_V	284_S	0.514	1.00
83_Q	142_A	0.514	1.00
183_K	207_E	0.513	1.00
86_V	119_G	0.512	1.00
127_P	130_N	0.509	1.00
37_V	338_I	0.506	1.00
46_A	54_F	0.506	1.00
314_Y	321_E	0.505	1.00
38_G	143_A	0.503	1.00
86_V	124_L	0.503	1.00
176_L	205_R	0.503	1.00
299_M	306_A	0.501	1.00
25_P	28_N	0.501	1.00
169_V	218_F	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
4ilkA	2	0.9824	100	0.149	Contact Map
4ej6A	1	0.9853	100	0.15	Contact Map
1h2bA	4	0.9735	100	0.162	Contact Map
2dq4A	4	0.9765	100	0.163	Contact Map
1e3iA	2	0.9853	100	0.167	Contact Map
3ukoA	4	0.9882	100	0.168	Contact Map
2h6eA	4	0.9206	100	0.169	Contact Map
1f8fA	4	0.9824	100	0.171	Contact Map
2d8aA	3	0.95	100	0.171	Contact Map
4oh1A	4	0.9647	100	0.171	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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