YGEW - ECOLI - GREMLIN Contacts

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YGEW - Uncharacterized protein YgeW

UniProt:	Q46803	Sequences: MMKTVNELIKDINSLTSHLHEKDFLLTWEQTPDELKQVLDVAAALKALRAENISTKVFNSGLGISVFRDNSTRTRFSYASALNLLGLAQQDLDEGKSQIAHGETVRETANMISFCADAIGIRDDMYLGAGNAYMREVGAALDDGYKQGVLPQRPALVNLQCDIDHPTQSMADLAWLREHFGSLENLKGKKIAMTWAYSPSYGKPLSVPQGIIGLMTRFGMDVTLAHPEGYDLIPDVVEVAKNNAKASGGSFRQVTSMEEAFKDADIVYPKSWAPYKVMEERTELLRANDHEGLKALEKQCLAQNAQHKDWHCTEEMMELTRDGEALYMHCLPADISGVSCKEGEVTEGVFEKYRIATYKEASWKPYIIAAMILSRKYAKPGALLEQLLKEAQERVK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13053
Length:	396 (303)
Sequences:	6368 (3180)
Seq/√Len:	182.7

ECOLI - YGEW OTC1 OTC2 PYRB
BACSU - OTC PYRB
HALSA - PYRB OTCC
SULSO - OTC PYRB

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
314_E	348_G	4.232	1.00
190_K	221_D	3.756	1.00
190_K	223_T	3.353	1.00
327_Y	345_V	3.321	1.00
56_K	59_N	3.320	1.00
258_E	319_L	3.128	1.00
192_A	264_A	3.053	1.00
114_F	359_K	2.879	1.00
176_L	266_I	2.774	1.00
113_S	149_V	2.714	1.00
326_L	356_A	2.672	1.00
179_H	356_A	2.636	1.00
46_K	178_E	2.575	1.00
256_S	259_E	2.519	1.00
265_D	321_R	2.461	1.00
43_A	177_R	2.405	1.00
41_V	373_L	2.378	1.00
40_D	177_R	2.372	1.00
106_R	136_E	2.361	1.00
64_I	116_A	2.355	1.00
26_L	164_D	2.348	1.00
328_M	356_A	2.298	1.00
118_A	372_I	2.202	1.00
82_L	87_L	2.181	1.00
169_S	214_L	2.175	1.00
63_G	82_L	2.172	1.00
228_E	255_T	2.141	1.00
225_A	260_A	2.112	1.00
43_A	174_A	2.073	1.00
234_P	238_E	2.028	1.00
180_F	324_E	2.025	1.00
36_K	177_R	2.024	1.00
173_L	214_L	2.018	1.00
334_D	343_G	1.954	1.00
317_M	325_A	1.948	1.00
231_D	255_T	1.948	1.00
261_F	267_V	1.948	1.00
221_D	252_R	1.928	1.00
215_M	222_V	1.907	1.00
314_E	318_E	1.898	1.00
130_G	133_Y	1.874	1.00
114_F	362_S	1.856	1.00
179_H	359_K	1.791	1.00
32_P	36_K	1.746	1.00
254_V	259_E	1.702	1.00
221_D	250_S	1.684	1.00
120_G	159_L	1.676	1.00
31_T	34_E	1.658	1.00
267_V	312_C	1.644	1.00
325_A	354_R	1.641	1.00
76_F	112_I	1.638	1.00
37_Q	374_S	1.635	1.00
230_Y	306_Q	1.627	1.00
38_V	374_S	1.608	1.00
93_D	96_K	1.605	1.00
83_N	88_A	1.599	1.00
180_F	189_K	1.586	1.00
223_T	254_V	1.571	1.00
321_R	324_E	1.554	1.00
118_A	376_K	1.549	1.00
45_L	373_L	1.549	1.00
315_E	318_E	1.542	1.00
110_N	351_E	1.539	1.00
211_I	268_Y	1.536	1.00
84_L	369_A	1.531	1.00
68_R	133_Y	1.527	1.00
257_M	316_M	1.502	1.00
192_A	223_T	1.500	1.00
22_K	34_E	1.485	1.00
41_V	374_S	1.476	1.00
192_A	225_A	1.460	1.00
266_I	326_L	1.452	1.00
32_P	187_K	1.447	1.00
42_A	174_A	1.429	1.00
194_T	261_F	1.424	1.00
228_E	231_D	1.424	1.00
28_W	239_V	1.422	1.00
263_D	321_R	1.418	1.00
167_T	368_I	1.406	1.00
182_S	189_K	1.398	1.00
32_P	217_R	1.396	1.00
57_V	373_L	1.379	1.00
24_F	170_M	1.374	1.00
320_T	325_A	1.370	1.00
268_Y	360_E	1.350	1.00
164_D	213_G	1.345	1.00
313_T	346_T	1.338	1.00
39_L	177_R	1.320	1.00
311_H	346_T	1.310	1.00
317_M	327_Y	1.300	1.00
258_E	316_M	1.300	1.00
72_T	102_G	1.290	1.00
72_T	108_T	1.284	1.00
44_A	48_L	1.277	1.00
119_I	137_V	1.276	1.00
135_R	139_A	1.272	1.00
72_T	98_Q	1.260	1.00
182_S	187_K	1.234	1.00
170_M	371_M	1.231	1.00
63_G	120_G	1.230	1.00
63_G	118_A	1.223	1.00
48_L	53_I	1.208	1.00
317_M	354_R	1.205	1.00
278_M	284_L	1.199	1.00
36_K	218_F	1.199	1.00
254_V	260_A	1.198	1.00
49_R	84_L	1.195	1.00
226_H	231_D	1.186	1.00
27_T	214_L	1.183	1.00
366_Y	369_A	1.174	1.00
23_D	138_G	1.164	1.00
342_E	347_E	1.163	1.00
269_P	312_C	1.163	1.00
39_L	174_A	1.162	1.00
197_Y	226_H	1.158	1.00
237_V	253_Q	1.154	1.00
312_C	327_Y	1.150	1.00
109_A	137_V	1.143	1.00
119_I	150_L	1.143	1.00
180_F	265_D	1.142	1.00
174_A	367_I	1.135	1.00
333_A	350_F	1.134	1.00
81_A	372_I	1.134	1.00
41_V	44_A	1.133	1.00
223_T	252_R	1.133	1.00
335_I	351_E	1.132	1.00
352_K	355_I	1.129	1.00
24_F	371_M	1.125	1.00
261_F	316_M	1.124	1.00
28_W	213_G	1.118	1.00
24_F	30_Q	1.110	1.00
167_T	371_M	1.097	1.00
110_N	358_Y	1.093	1.00
75_R	79_A	1.092	1.00
306_Q	309_D	1.090	1.00
82_L	89_Q	1.089	1.00
83_N	89_Q	1.089	1.00
46_K	363_W	1.084	1.00
262_K	319_L	1.078	1.00
35_L	217_R	1.075	1.00
26_L	29_E	1.068	1.00
189_K	266_I	1.065	1.00
47_A	51_E	1.063	1.00
173_L	218_F	1.062	1.00
212_I	224_L	1.057	1.00
180_F	326_L	1.055	1.00
169_S	207_V	1.035	1.00
132_A	136_E	1.031	1.00
111_M	361_A	1.030	1.00
76_F	92_L	1.029	1.00
39_L	43_A	1.029	1.00
350_F	357_T	1.020	0.99
191_I	215_M	1.015	0.99
36_K	40_D	1.014	0.99
191_I	211_I	1.012	0.99
283_E	306_Q	1.000	0.99
35_L	218_F	0.996	0.99
259_E	262_K	0.989	0.99
225_A	257_M	0.977	0.99
134_M	161_C	0.976	0.99
23_D	113_S	0.975	0.99
150_L	155_A	0.975	0.99
26_L	213_G	0.973	0.99
79_A	91_D	0.970	0.99
215_M	220_M	0.963	0.99
169_S	211_I	0.946	0.99
157_V	371_M	0.944	0.99
255_T	310_W	0.938	0.99
123_D	161_C	0.937	0.99
98_Q	108_T	0.936	0.99
347_E	351_E	0.934	0.99
136_E	139_A	0.933	0.99
180_F	356_A	0.930	0.99
43_A	178_E	0.924	0.99
106_R	351_E	0.920	0.99
39_L	367_I	0.919	0.99
118_A	157_V	0.918	0.99
362_S	366_Y	0.912	0.99
82_L	372_I	0.909	0.99
273_A	281_R	0.909	0.99
258_E	262_K	0.908	0.99
44_A	47_A	0.907	0.99
131_N	135_R	0.906	0.99
170_M	367_I	0.905	0.99
314_E	352_K	0.905	0.99
176_L	189_K	0.902	0.99
84_L	365_P	0.893	0.99
359_K	362_S	0.891	0.99
317_M	349_V	0.886	0.99
62_L	84_L	0.884	0.99
225_A	264_A	0.881	0.99
279_E	282_T	0.881	0.99
194_T	316_M	0.875	0.98
106_R	110_N	0.872	0.98
312_C	345_V	0.865	0.98
225_A	254_V	0.865	0.98
175_W	356_A	0.864	0.98
197_Y	208_P	0.862	0.98
32_P	247_S	0.862	0.98
315_E	319_L	0.861	0.98
68_R	99_I	0.860	0.98
113_S	150_L	0.858	0.98
178_E	363_W	0.853	0.98
280_E	284_L	0.851	0.98
335_I	350_F	0.847	0.98
163_I	233_I	0.845	0.98
98_Q	101_H	0.844	0.98
121_I	137_V	0.841	0.98
190_K	264_A	0.838	0.98
62_L	88_A	0.838	0.98
347_E	350_F	0.824	0.98
106_R	347_E	0.823	0.98
27_T	35_L	0.822	0.98
78_Y	167_T	0.820	0.98
130_G	162_D	0.820	0.98
116_A	150_L	0.819	0.98
190_K	263_D	0.819	0.98
70_N	100_A	0.816	0.98
194_T	267_V	0.812	0.97
373_L	377_Y	0.810	0.97
349_V	352_K	0.809	0.97
176_L	180_F	0.808	0.97
63_G	87_L	0.808	0.97
164_D	210_G	0.808	0.97
267_V	317_M	0.807	0.97
209_Q	236_V	0.805	0.97
48_L	51_E	0.800	0.97
181_G	186_L	0.793	0.97
43_A	47_A	0.792	0.97
317_M	345_V	0.789	0.97
226_H	232_L	0.788	0.97
79_A	89_Q	0.786	0.97
208_P	224_L	0.785	0.97
98_Q	102_G	0.782	0.97
313_T	316_M	0.781	0.97
252_R	259_E	0.780	0.97
77_S	115_C	0.777	0.97
23_D	148_G	0.774	0.97
342_E	348_G	0.769	0.97
27_T	169_S	0.766	0.96
232_L	253_Q	0.764	0.96
282_T	305_A	0.764	0.96
212_I	222_V	0.763	0.96
102_G	108_T	0.761	0.96
42_A	370_A	0.759	0.96
232_L	237_V	0.757	0.96
318_E	354_R	0.751	0.96
30_Q	38_V	0.751	0.96
212_I	240_A	0.750	0.96
77_S	368_I	0.748	0.96
48_L	55_T	0.747	0.96
258_E	315_E	0.744	0.96
37_Q	41_V	0.741	0.96
19_L	374_S	0.736	0.96
110_N	140_A	0.736	0.96
65_S	82_L	0.736	0.96
182_S	186_L	0.732	0.95
61_G	117_D	0.731	0.95
56_K	86_G	0.730	0.95
121_I	133_Y	0.729	0.95
64_I	119_I	0.729	0.95
42_A	367_I	0.728	0.95
181_G	188_G	0.724	0.95
308_K	311_H	0.723	0.95
72_T	101_H	0.723	0.95
223_T	264_A	0.722	0.95
321_R	325_A	0.717	0.95
261_F	319_L	0.714	0.95
132_A	135_R	0.714	0.95
35_L	214_L	0.711	0.95
169_S	360_E	0.710	0.95
223_T	263_D	0.707	0.94
46_K	174_A	0.706	0.94
40_D	44_A	0.704	0.94
179_H	326_L	0.704	0.94
131_N	163_I	0.703	0.94
181_G	326_L	0.700	0.94
24_F	375_R	0.700	0.94
305_A	308_K	0.699	0.94
70_N	98_Q	0.695	0.94
135_R	138_G	0.694	0.94
180_F	266_I	0.694	0.94
186_L	218_F	0.689	0.94
268_Y	271_S	0.688	0.94
79_A	83_N	0.684	0.93
97_S	102_G	0.683	0.93
314_E	354_R	0.681	0.93
65_S	89_Q	0.680	0.93
108_T	112_I	0.679	0.93
45_L	52_N	0.679	0.93
22_K	374_S	0.676	0.93
78_Y	368_I	0.669	0.93
235_D	238_E	0.664	0.92
21_E	375_R	0.664	0.92
278_M	281_R	0.663	0.92
176_L	186_L	0.662	0.92
123_D	133_Y	0.661	0.92
106_R	140_A	0.660	0.92
317_M	320_T	0.659	0.92
214_L	218_F	0.656	0.92
23_D	149_V	0.656	0.92
62_L	83_N	0.655	0.92
58_F	372_I	0.653	0.92
104_T	351_E	0.652	0.92
176_L	215_M	0.651	0.92
217_R	247_S	0.651	0.92
213_G	236_V	0.649	0.92
110_N	113_S	0.647	0.91
231_D	253_Q	0.646	0.91
49_R	52_N	0.646	0.91
27_T	30_Q	0.645	0.91
191_I	268_Y	0.645	0.91
267_V	325_A	0.644	0.91
271_S	334_D	0.641	0.91
109_A	148_G	0.641	0.91
77_S	167_T	0.638	0.91
211_I	215_M	0.638	0.91
221_D	249_G	0.637	0.91
191_I	220_M	0.637	0.91
213_G	239_V	0.636	0.91
356_A	359_K	0.635	0.91
160_Q	206_S	0.634	0.91
192_A	260_A	0.634	0.91
352_K	357_T	0.633	0.90
278_M	282_T	0.632	0.90
72_T	97_S	0.632	0.90
24_F	35_L	0.631	0.90
219_G	250_S	0.631	0.90
333_A	345_V	0.630	0.90
370_A	374_S	0.629	0.90
25_L	138_G	0.628	0.90
192_A	254_V	0.626	0.90
157_V	375_R	0.625	0.90
176_L	191_I	0.625	0.90
176_L	326_L	0.624	0.90
316_M	319_L	0.624	0.90
260_A	264_A	0.623	0.90
45_L	57_V	0.621	0.90
229_G	306_Q	0.621	0.90
212_I	232_L	0.619	0.90
58_F	118_A	0.619	0.90
231_D	234_P	0.617	0.89
174_A	178_E	0.617	0.89
70_N	102_G	0.616	0.89
97_S	101_H	0.616	0.89
157_V	372_I	0.611	0.89
58_F	87_L	0.610	0.89
335_I	347_E	0.608	0.89
38_V	367_I	0.605	0.88
266_I	328_M	0.604	0.88
38_V	370_A	0.603	0.88
41_V	45_L	0.603	0.88
237_V	251_F	0.603	0.88
327_Y	349_V	0.602	0.88
283_E	305_A	0.602	0.88
113_S	148_G	0.601	0.88
111_M	358_Y	0.600	0.88
80_S	90_Q	0.600	0.88
236_V	240_A	0.599	0.88
216_T	249_G	0.598	0.88
33_D	37_Q	0.597	0.88
25_L	135_R	0.596	0.88
65_S	91_D	0.594	0.88
63_G	372_I	0.591	0.87
70_N	91_D	0.589	0.87
281_R	334_D	0.589	0.87
314_E	346_T	0.587	0.87
56_K	60_S	0.587	0.87
70_N	97_S	0.584	0.87
48_L	52_N	0.584	0.87
271_S	275_Y	0.583	0.87
41_V	370_A	0.582	0.86
194_T	269_P	0.580	0.86
81_A	368_I	0.579	0.86
54_S	85_L	0.577	0.86
105_V	133_Y	0.576	0.86
257_M	261_F	0.575	0.86
136_E	140_A	0.574	0.86
35_L	170_M	0.573	0.86
350_F	355_I	0.570	0.85
177_R	182_S	0.570	0.85
281_R	284_L	0.570	0.85
124_D	133_Y	0.568	0.85
169_S	173_L	0.567	0.85
21_E	374_S	0.566	0.85
193_M	205_L	0.566	0.85
34_E	37_Q	0.565	0.85
36_K	187_K	0.563	0.85
207_V	268_Y	0.562	0.85
268_Y	328_M	0.562	0.85
80_S	365_P	0.560	0.84
27_T	164_D	0.559	0.84
279_E	283_E	0.559	0.84
175_W	363_W	0.557	0.84
77_S	111_M	0.555	0.84
105_V	121_I	0.553	0.84
38_V	371_M	0.552	0.83
54_S	59_N	0.552	0.83
173_L	177_R	0.551	0.83
66_V	99_I	0.550	0.83
266_I	356_A	0.547	0.83
194_T	309_D	0.545	0.83
40_D	43_A	0.545	0.83
271_S	343_G	0.544	0.83
186_L	220_M	0.544	0.83
26_L	135_R	0.544	0.83
19_L	37_Q	0.541	0.82
78_Y	120_G	0.541	0.82
324_E	354_R	0.540	0.82
45_L	48_L	0.540	0.82
189_K	265_D	0.539	0.82
119_I	148_G	0.538	0.82
33_D	36_K	0.538	0.82
193_M	207_V	0.536	0.82
205_L	270_K	0.535	0.82
226_H	255_T	0.535	0.82
121_I	161_C	0.534	0.81
84_L	366_Y	0.532	0.81
352_K	356_A	0.532	0.81
176_L	328_M	0.531	0.81
69_D	160_Q	0.530	0.81
349_V	354_R	0.529	0.81
182_S	188_G	0.528	0.81
70_N	96_K	0.527	0.81
65_S	120_G	0.527	0.81
192_A	261_F	0.527	0.81
84_L	117_D	0.526	0.80
181_G	189_K	0.524	0.80
28_W	164_D	0.523	0.80
240_A	248_G	0.523	0.80
261_F	320_T	0.522	0.80
37_Q	40_D	0.522	0.80
207_V	360_E	0.521	0.80
207_V	211_I	0.520	0.80
223_T	260_A	0.519	0.80
312_C	317_M	0.518	0.79
78_Y	159_L	0.516	0.79
254_V	257_M	0.516	0.79
53_I	56_K	0.514	0.79
92_L	97_S	0.513	0.79
99_I	108_T	0.512	0.79
93_D	97_S	0.511	0.79
101_H	104_T	0.510	0.78
62_L	80_S	0.510	0.78
281_R	343_G	0.510	0.78
35_L	39_L	0.508	0.78
230_Y	307_H	0.507	0.78
319_L	323_G	0.503	0.77
62_L	90_Q	0.503	0.77
197_Y	224_L	0.503	0.77
50_A	362_S	0.502	0.77
29_E	217_R	0.501	0.77
209_Q	233_I	0.500	0.77
43_A	367_I	0.500	0.77

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
3q98A	3	0.952	100	0.179	Contact Map
2yfkA	3	0.9646	100	0.191	Contact Map
1pvvA	6	0.7904	100	0.207	Contact Map
4nf2A	3	0.7753	100	0.211	Contact Map
2i6uA	3	0.7753	100	0.212	Contact Map
3gd5A	4	0.7197	100	0.212	Contact Map
4oh7A	3	0.7626	100	0.217	Contact Map
1duvG	3	0.798	100	0.217	Contact Map
3tpfA	3	0.7677	100	0.218	Contact Map
4am8A	4	0.8182	100	0.218	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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