YHBW - ECOLI - GREMLIN Contacts

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YHBW - Uncharacterized protein YhbW

UniProt:	P0ADV5	Sequences: MTDKTIAFSLLDLAPIPEGSSAREAFSHSLDLARLAEKRGYHRYWLAEHHNMTGIASAATSVLIGYLAANTTTLHLGSGGVMLPNHSPLVIAEQFGTLNTLYPGRIDLGLGRAPGSDQRTMMALRRHMSGDIDNFPRDVAELVDWFDARDPNPHVRPVPGYGEKIPVWLLGSSLYSAQLAAQLGLPFAFASHFAPDMLFQALHLYRSNFKPSARLEKPYAMVCINIIAADSNRDAEFLFTSMQQAFVKLRRGETGQLPPPIQNMDQFWSPSEQYGVQQALSMSLVGDKAKVRHGLQSILRETDADEIMVNGQIFDHQARLHSFELAMDVKEELLG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12792
Length:	335 (294)
Sequences:	16424 (10506)
Seq/√Len:	612.7

ECOLI - YHBW RUTA SSUD
BACSU - YDDN YVBT YTMO YWCH YCEB SSUD YXEK MOXC
HALSA - Q9HQZ9
SULSO - Q97Y17

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
232_N	290_K	5.127	1.00
34_R	70_N	3.298	1.00
215_L	218_P	2.811	1.00
35_L	324_E	2.794	1.00
232_N	287_D	2.733	1.00
75_H	107_D	2.697	1.00
35_L	38_K	2.601	1.00
136_P	182_Q	2.599	1.00
294_G	297_S	2.520	1.00
203_H	207_S	2.453	1.00
68_A	102_Y	2.447	1.00
37_E	73_T	2.441	1.00
178_Q	208_N	2.429	1.00
232_N	236_E	2.384	1.00
231_S	234_D	2.371	1.00
287_D	290_K	2.300	1.00
64_I	76_L	2.299	1.00
229_A	234_D	2.279	1.00
177_A	204_L	2.151	1.00
140_A	183_L	2.150	1.00
202_L	206_R	2.136	1.00
207_S	211_P	2.109	1.00
324_E	328_D	2.082	1.00
30_L	34_R	2.062	1.00
27_S	103_P	2.040	1.00
34_R	38_K	2.030	1.00
33_A	67_L	2.028	1.00
199_F	203_H	1.992	1.00
233_R	237_F	1.969	1.00
204_L	208_N	1.959	1.00
202_L	220_A	1.958	1.00
296_Q	300_R	1.957	1.00
199_F	301_E	1.954	1.00
297_S	301_E	1.933	1.00
147_D	164_K	1.902	1.00
39_R	327_M	1.901	1.00
321_H	324_E	1.894	1.00
230_D	329_V	1.889	1.00
31_D	34_R	1.885	1.00
44_Y	74_L	1.868	1.00
99_N	104_G	1.833	1.00
181_A	208_N	1.815	1.00
95_F	106_I	1.802	1.00
284_L	291_V	1.782	1.00
127_H	130_G	1.780	1.00
68_A	76_L	1.765	1.00
30_L	70_N	1.765	1.00
118_Q	122_M	1.765	1.00
45_W	77_G	1.758	1.00
59_A	94_Q	1.740	1.00
240_T	244_Q	1.698	1.00
208_N	211_P	1.672	1.00
143_V	164_K	1.633	1.00
33_A	44_Y	1.606	1.00
200_Q	203_H	1.596	1.00
35_L	39_R	1.587	1.00
204_L	207_S	1.584	1.00
178_Q	211_P	1.577	1.00
95_F	108_L	1.567	1.00
321_H	325_L	1.564	1.00
140_A	144_D	1.543	1.00
67_L	76_L	1.537	1.00
290_K	293_H	1.535	1.00
228_A	291_V	1.503	1.00
143_V	183_L	1.501	1.00
289_A	293_H	1.469	1.00
178_Q	182_Q	1.441	1.00
21_S	24_E	1.426	1.00
30_L	66_Y	1.424	1.00
222_V	304_A	1.418	1.00
292_R	296_Q	1.416	1.00
230_D	321_H	1.397	1.00
209_F	218_P	1.388	1.00
171_G	187_F	1.371	1.00
234_D	238_L	1.370	1.00
37_E	71_T	1.370	1.00
325_L	329_V	1.369	1.00
66_Y	69_A	1.356	1.00
33_A	71_T	1.351	1.00
136_P	183_L	1.344	1.00
144_D	148_A	1.340	1.00
229_A	235_A	1.338	1.00
38_K	72_T	1.337	1.00
143_V	167_V	1.329	1.00
66_Y	101_L	1.326	1.00
290_K	294_G	1.299	1.00
46_L	64_I	1.295	1.00
59_A	62_V	1.280	1.00
86_H	94_Q	1.269	1.00
209_F	214_R	1.265	1.00
293_H	297_S	1.263	1.00
24_E	28_H	1.261	1.00
144_D	149_R	1.252	1.00
27_S	31_D	1.251	1.00
234_D	237_F	1.245	1.00
219_Y	305_D	1.227	1.00
178_Q	212_S	1.223	1.00
168_W	221_M	1.209	1.00
77_G	107_D	1.202	1.00
228_A	288_K	1.199	1.00
288_K	325_L	1.197	1.00
139_V	183_L	1.191	1.00
91_I	138_D	1.188	1.00
58_A	97_T	1.187	1.00
227_I	238_L	1.187	1.00
237_F	240_T	1.180	1.00
136_P	140_A	1.171	1.00
31_D	35_L	1.170	1.00
140_A	153_P	1.168	1.00
37_E	72_T	1.166	1.00
174_L	204_L	1.158	1.00
181_A	212_S	1.158	1.00
239_F	243_Q	1.156	1.00
275_G	279_A	1.155	1.00
168_W	186_P	1.152	1.00
64_I	78_S	1.150	1.00
195_P	297_S	1.149	1.00
178_Q	204_L	1.143	1.00
182_Q	212_S	1.132	1.00
143_V	185_L	1.127	1.00
274_Y	277_Q	1.125	1.00
230_D	234_D	1.125	1.00
33_A	74_L	1.124	1.00
258_P	262_Q	1.119	1.00
161_Y	164_K	1.116	1.00
130_G	133_D	1.112	1.00
175_Y	178_Q	1.103	1.00
208_N	212_S	1.103	1.00
228_A	325_L	1.092	1.00
62_V	65_G	1.090	1.00
98_L	106_I	1.089	1.00
103_P	160_G	1.087	1.00
262_Q	265_D	1.086	1.00
39_R	323_F	1.084	1.00
108_L	142_L	1.084	1.00
237_F	241_S	1.074	1.00
286_G	291_V	1.074	1.00
142_L	146_F	1.071	1.00
61_S	94_Q	1.066	1.00
284_L	294_G	1.057	1.00
157_P	161_Y	1.052	1.00
81_V	91_I	1.045	1.00
80_G	170_L	1.044	1.00
46_L	67_L	1.039	1.00
66_Y	70_N	1.034	1.00
34_R	72_T	1.032	1.00
275_G	278_Q	1.024	1.00
151_P	154_H	1.023	1.00
31_D	316_H	1.022	1.00
90_V	94_Q	1.011	1.00
110_L	139_V	1.006	1.00
199_F	302_T	1.005	1.00
80_G	111_G	1.005	1.00
219_Y	306_E	1.005	1.00
236_E	240_T	1.003	1.00
62_V	98_L	1.002	1.00
309_V	326_A	0.999	1.00
134_N	137_R	0.998	1.00
28_H	31_D	0.994	1.00
194_A	197_M	0.990	1.00
200_Q	204_L	0.989	1.00
137_R	141_E	0.988	1.00
99_N	162_G	0.988	1.00
141_E	144_D	0.986	1.00
99_N	163_E	0.984	1.00
322_S	325_L	0.983	1.00
116_S	120_T	0.977	1.00
197_M	200_Q	0.976	1.00
143_V	147_D	0.976	1.00
296_Q	301_E	0.976	1.00
38_K	324_E	0.967	1.00
274_Y	278_Q	0.960	1.00
264_M	269_S	0.960	1.00
61_S	81_V	0.958	1.00
150_D	153_P	0.955	1.00
226_I	309_V	0.950	1.00
239_F	285_V	0.949	1.00
133_D	175_Y	0.946	1.00
23_R	27_S	0.945	1.00
180_A	187_F	0.942	1.00
188_A	221_M	0.941	1.00
43_R	77_G	0.936	1.00
150_D	154_H	0.927	1.00
229_A	238_L	0.919	1.00
20_S	28_H	0.917	1.00
179_L	183_L	0.913	1.00
224_I	284_L	0.910	1.00
293_H	296_Q	0.903	1.00
28_H	316_H	0.902	1.00
259_P	262_Q	0.901	1.00
136_P	179_L	0.897	1.00
233_R	236_E	0.896	1.00
155_V	158_V	0.895	1.00
177_A	208_N	0.887	1.00
157_P	160_G	0.882	1.00
36_A	323_F	0.881	1.00
26_F	101_L	0.881	1.00
230_D	325_L	0.880	1.00
88_P	141_E	0.877	1.00
141_E	153_P	0.876	1.00
205_Y	209_F	0.867	1.00
134_N	138_D	0.863	1.00
241_S	244_Q	0.859	1.00
236_E	280_L	0.858	1.00
27_S	30_L	0.858	1.00
31_D	38_K	0.857	1.00
65_G	69_A	0.856	1.00
64_I	68_A	0.848	1.00
323_F	327_M	0.847	1.00
41_Y	327_M	0.844	1.00
224_I	295_L	0.839	1.00
209_F	216_E	0.836	1.00
265_D	269_S	0.835	1.00
43_R	306_E	0.831	1.00
117_D	120_T	0.830	1.00
100_T	160_G	0.828	1.00
195_P	199_F	0.824	1.00
177_A	181_A	0.820	1.00
82_M	113_A	0.820	1.00
245_A	248_K	0.820	1.00
83_L	138_D	0.819	1.00
169_L	180_A	0.816	1.00
25_A	28_H	0.812	1.00
209_F	212_S	0.811	1.00
247_V	250_R	0.810	1.00
236_E	239_F	0.809	1.00
144_D	153_P	0.808	1.00
203_H	303_D	0.807	1.00
262_Q	269_S	0.802	1.00
130_G	134_N	0.802	1.00
144_D	151_P	0.801	1.00
196_D	199_F	0.795	1.00
271_S	275_G	0.789	1.00
174_L	208_N	0.785	1.00
206_R	220_A	0.784	1.00
68_A	106_I	0.784	1.00
69_A	102_Y	0.784	1.00
187_F	205_Y	0.783	1.00
83_L	91_I	0.776	1.00
138_D	142_L	0.774	1.00
231_S	235_A	0.773	1.00
238_L	325_L	0.773	1.00
146_F	165_I	0.772	1.00
38_K	328_D	0.768	1.00
261_I	264_M	0.766	1.00
260_P	264_M	0.766	1.00
96_G	155_V	0.763	1.00
244_Q	248_K	0.759	1.00
136_P	175_Y	0.758	1.00
99_N	164_K	0.758	1.00
99_N	161_Y	0.753	1.00
209_F	215_L	0.752	1.00
178_Q	207_S	0.751	1.00
273_Q	276_V	0.750	1.00
177_A	187_F	0.750	1.00
311_G	326_A	0.750	1.00
100_T	163_E	0.749	1.00
129_S	175_Y	0.744	1.00
297_S	300_R	0.738	1.00
238_L	241_S	0.737	1.00
169_L	176_S	0.735	1.00
132_I	175_Y	0.734	1.00
64_I	106_I	0.734	1.00
202_L	205_Y	0.733	1.00
68_A	98_L	0.733	1.00
22_A	25_A	0.729	1.00
155_V	159_P	0.725	1.00
140_A	182_Q	0.724	1.00
107_D	168_W	0.723	1.00
145_W	151_P	0.722	1.00
113_A	120_T	0.721	1.00
30_L	67_L	0.719	1.00
236_E	285_V	0.719	1.00
91_I	142_L	0.718	1.00
88_P	138_D	0.715	1.00
206_R	210_K	0.714	1.00
261_I	265_D	0.713	1.00
64_I	98_L	0.712	1.00
169_L	179_L	0.711	1.00
169_L	184_G	0.709	1.00
119_R	122_M	0.704	1.00
50_H	93_E	0.704	1.00
241_S	245_A	0.703	1.00
43_R	308_M	0.702	1.00
112_R	131_D	0.700	1.00
45_W	79_G	0.699	1.00
243_Q	246_F	0.694	1.00
226_I	326_A	0.693	1.00
75_H	166_P	0.693	1.00
258_P	265_D	0.690	1.00
42_H	73_T	0.689	1.00
174_L	178_Q	0.689	1.00
258_P	261_I	0.682	1.00
32_L	323_F	0.680	1.00
240_T	243_Q	0.679	1.00
28_H	32_L	0.678	1.00
144_D	147_D	0.678	1.00
311_G	323_F	0.678	1.00
126_R	134_N	0.674	1.00
217_K	305_D	0.673	1.00
137_R	140_A	0.672	1.00
118_Q	121_M	0.671	1.00
232_N	235_A	0.669	1.00
182_Q	208_N	0.669	1.00
206_R	217_K	0.669	1.00
112_R	135_F	0.666	1.00
77_G	168_W	0.666	1.00
95_F	146_F	0.663	1.00
212_S	215_L	0.662	1.00
99_N	159_P	0.657	1.00
295_L	307_I	0.657	1.00
156_R	159_P	0.655	1.00
182_Q	211_P	0.654	1.00
78_S	106_I	0.654	1.00
206_R	305_D	0.653	1.00
48_E	86_H	0.653	1.00
189_F	201_A	0.651	1.00
61_S	95_F	0.649	1.00
86_H	90_V	0.645	1.00
76_L	102_Y	0.645	1.00
65_G	98_L	0.644	1.00
46_L	63_L	0.644	1.00
289_A	292_R	0.643	1.00
26_F	66_Y	0.638	1.00
257_L	262_Q	0.635	1.00
220_A	304_A	0.633	1.00
230_D	288_K	0.631	1.00
35_L	327_M	0.629	1.00
96_G	157_P	0.629	1.00
87_S	90_V	0.629	1.00
206_R	209_F	0.628	1.00
272_E	276_V	0.628	1.00
269_S	272_E	0.626	1.00
27_S	72_T	0.625	1.00
260_P	265_D	0.625	1.00
27_S	69_A	0.625	1.00
247_V	251_R	0.621	1.00
171_G	176_S	0.621	1.00
202_L	302_T	0.618	1.00
44_Y	67_L	0.617	1.00
158_V	161_Y	0.616	1.00
30_L	69_A	0.615	1.00
99_N	102_Y	0.615	1.00
63_L	97_T	0.612	1.00
195_P	301_E	0.611	1.00
110_L	142_L	0.610	1.00
71_T	105_R	0.610	1.00
37_E	74_L	0.610	1.00
42_H	75_H	0.609	1.00
271_S	279_A	0.608	1.00
181_A	209_F	0.607	1.00
177_A	205_Y	0.606	1.00
288_K	328_D	0.606	1.00
166_P	219_Y	0.601	1.00
83_L	110_L	0.599	1.00
206_R	303_D	0.598	1.00
36_A	74_L	0.598	1.00
81_V	95_F	0.598	1.00
271_S	274_Y	0.597	1.00
294_G	298_I	0.597	1.00
140_A	143_V	0.597	1.00
30_L	33_A	0.596	1.00
26_F	30_L	0.596	1.00
139_V	169_L	0.592	1.00
221_M	306_E	0.591	1.00
156_R	161_Y	0.589	1.00
223_C	308_M	0.586	1.00
24_E	27_S	0.584	1.00
110_L	167_V	0.583	1.00
299_L	304_A	0.582	1.00
245_A	249_L	0.580	1.00
296_Q	299_L	0.575	1.00
141_E	145_W	0.572	1.00
258_P	269_S	0.571	1.00
248_K	251_R	0.569	1.00
52_M	55_I	0.567	1.00
65_G	102_Y	0.567	1.00
257_L	260_P	0.567	1.00
229_A	232_N	0.567	1.00
226_I	284_L	0.567	1.00
89_L	145_W	0.566	1.00
86_H	91_I	0.565	1.00
155_V	160_G	0.563	1.00
60_T	78_S	0.560	1.00
175_Y	179_L	0.560	1.00
246_F	250_R	0.560	1.00
203_H	206_R	0.559	1.00
172_S	201_A	0.557	1.00
174_L	200_Q	0.556	1.00
71_T	74_L	0.556	1.00
258_P	264_M	0.555	1.00
201_A	204_L	0.555	1.00
288_K	292_R	0.551	1.00
295_L	309_V	0.548	0.99
20_S	24_E	0.546	0.99
96_G	100_T	0.546	0.99
172_S	191_S	0.545	0.99
276_V	279_A	0.543	0.99
210_K	213_A	0.543	0.99
109_G	170_L	0.541	0.99
210_K	215_L	0.539	0.99
66_Y	102_Y	0.535	0.99
107_D	166_P	0.534	0.99
195_P	302_T	0.532	0.99
259_P	265_D	0.530	0.99
43_R	75_H	0.530	0.99
228_A	326_A	0.529	0.99
288_K	329_V	0.524	0.99
96_G	146_F	0.524	0.99
121_M	125_R	0.522	0.99
62_V	94_Q	0.522	0.99
225_N	312_Q	0.521	0.99
235_A	239_F	0.521	0.99
190_A	193_F	0.520	0.99
107_D	306_E	0.519	0.99
273_Q	277_Q	0.518	0.99
259_P	264_M	0.518	0.99
227_I	239_F	0.517	0.99
135_F	169_L	0.517	0.99
231_S	237_F	0.515	0.99
141_E	151_P	0.514	0.99
29_S	32_L	0.514	0.99
282_M	294_G	0.513	0.99
246_F	249_L	0.513	0.99
198_L	201_A	0.511	0.99
79_G	188_A	0.511	0.99
228_A	287_D	0.510	0.99
289_A	329_V	0.510	0.99
149_R	153_P	0.510	0.99
222_V	298_I	0.509	0.99
224_I	307_I	0.507	0.99
225_N	310_N	0.507	0.99
179_L	182_Q	0.506	0.99
197_M	201_A	0.506	0.99
92_A	146_F	0.505	0.99
65_G	68_A	0.505	0.99
207_S	210_K	0.504	0.99
39_R	324_E	0.504	0.99
62_V	66_Y	0.504	0.99
62_V	101_L	0.501	0.99
191_S	198_L	0.500	0.99

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
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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
1lucA	1	0.9284	100	0.208	Contact Map
1lucB	1	0.9194	100	0.219	Contact Map
2wgkA	2	0.9731	100	0.222	Contact Map
4us5A	3	0.9672	100	0.231	Contact Map
2i7gA	2	0.9493	100	0.236	Contact Map
3raoA	2	0.9582	100	0.259	Contact Map
3sdoA	2	0.9701	100	0.27	Contact Map
3b9oA	2	0.9582	100	0.273	Contact Map
1z69A	4	0.9164	100	0.273	Contact Map
1ezwA	3	0.9313	100	0.274	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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