CAID - ECOLI - GREMLIN Contacts

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CAID - Carnitinyl-CoA dehydratase

UniProt:	P31551	Sequences: MSESLHLTRNGSILEITLDRPKANAIDAKTSFEMGEVFLNFRDDPQLRVAIITGAGEKFFSAGWDLKAAAEGEAPDADFGPGGFAGLTEIFNLDKPVIAAVNGYAFGGGFELALAADFIVCADNASFALPEAKLGIVPDSGGVLRLPKILPPAIVNEMVMTGRRMGAEEALRWGIVNRVVSQAELMDNARELAQQLVNSAPLAIAALKEIYRTTSEMPVEEAYRYIRSGVLKHYPSVLHSEDAIEGPLAFAEKRDPVWKGR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG11557
Length:	261 (246)
Sequences:	30049 (19718)
Seq/√Len:	1257.2

ECOLI - CAID PAAG SCPB PAAF MENB FADJ FADB
BACSU - YNGF FADB MENB YHAR PKSH PKSI
HALSA - Q9HS32 Q9HQN4 Q9HQ61 Q9HNM6
SULSO - Q97YL2 Q97WU7 Q97VK0 Q7LXQ1 Q97VK1 Q980Z9 Q97VS6 Q97VU5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
126_S	164_R	3.208	1.00
123_D	181_S	3.199	1.00
178_R	188_N	3.096	1.00
121_C	176_V	2.973	1.00
99_A	116_A	2.864	1.00
188_N	191_E	2.790	1.00
15_E	190_R	2.675	1.00
39_L	89_E	2.514	1.00
42_R	94_D	2.479	1.00
163_R	195_Q	2.343	1.00
6_H	19_D	2.310	1.00
124_N	182_Q	2.217	1.00
169_E	172_R	2.214	1.00
218_P	221_E	2.211	1.00
9_R	14_L	2.192	1.00
166_G	169_E	2.184	1.00
157_E	163_R	2.156	1.00
133_K	199_S	2.096	1.00
154_I	173_W	2.094	1.00
15_E	53_T	2.046	1.00
123_D	168_E	2.041	1.00
9_R	44_D	2.002	1.00
159_V	207_L	1.991	1.00
100_A	189_A	1.964	1.00
12_S	48_R	1.924	1.00
7_L	14_L	1.921	1.00
35_G	89_E	1.895	1.00
106_F	128_A	1.880	1.00
100_A	186_M	1.879	1.00
19_D	55_A	1.853	1.00
29_K	33_E	1.849	1.00
17_T	55_A	1.847	1.00
245_E	254_R	1.845	1.00
248_L	252_E	1.820	1.00
120_V	180_V	1.812	1.00
184_E	187_D	1.806	1.00
157_E	177_N	1.767	1.00
14_L	41_F	1.762	1.00
17_T	53_T	1.760	1.00
156_N	212_R	1.757	1.00
40_N	44_D	1.739	1.00
190_R	194_Q	1.693	1.00
117_D	208_K	1.686	1.00
152_P	156_N	1.655	1.00
169_E	173_W	1.653	1.00
50_A	93_L	1.638	1.00
123_D	182_Q	1.616	1.00
14_L	47_L	1.597	1.00
32_F	82_G	1.556	1.00
168_E	172_R	1.546	1.00
120_V	192_L	1.544	1.00
184_E	188_N	1.536	1.00
157_E	178_R	1.536	1.00
121_C	127_F	1.526	1.00
41_F	50_A	1.518	1.00
119_I	153_A	1.498	1.00
180_V	188_N	1.492	1.00
57_E	102_N	1.485	1.00
113_A	119_I	1.469	1.00
119_I	149_I	1.461	1.00
42_R	89_E	1.459	1.00
10_N	190_R	1.455	1.00
16_I	37_V	1.454	1.00
156_N	211_Y	1.441	1.00
11_G	194_Q	1.437	1.00
7_L	41_F	1.431	1.00
49_V	193_A	1.430	1.00
122_A	182_Q	1.415	1.00
156_N	160_M	1.398	1.00
88_T	92_N	1.395	1.00
171_L	179_V	1.395	1.00
101_V	113_A	1.382	1.00
6_H	55_A	1.379	1.00
53_T	102_N	1.376	1.00
88_T	220_E	1.364	1.00
102_N	122_A	1.357	1.00
10_N	194_Q	1.349	1.00
102_N	124_N	1.346	1.00
90_I	97_V	1.342	1.00
38_F	93_L	1.339	1.00
163_R	169_E	1.335	1.00
91_F	145_R	1.329	1.00
101_V	105_A	1.320	1.00
35_G	39_L	1.319	1.00
158_M	165_M	1.309	1.00
154_I	157_E	1.308	1.00
206_A	236_S	1.306	1.00
110_F	129_L	1.302	1.00
10_N	15_E	1.295	1.00
28_A	68_A	1.256	1.00
15_E	186_M	1.247	1.00
27_D	30_T	1.247	1.00
128_A	164_R	1.239	1.00
153_A	177_N	1.233	1.00
18_L	30_T	1.229	1.00
53_T	186_M	1.228	1.00
35_G	85_A	1.227	1.00
209_E	213_T	1.209	1.00
104_Y	126_S	1.208	1.00
42_R	93_L	1.201	1.00
185_L	189_A	1.186	1.00
199_S	204_I	1.184	1.00
154_I	169_E	1.183	1.00
132_A	162_G	1.183	1.00
33_E	37_V	1.182	1.00
243_A	247_P	1.179	1.00
217_M	221_E	1.172	1.00
122_A	185_L	1.160	1.00
186_M	190_R	1.159	1.00
58_K	104_Y	1.138	1.00
111_E	142_G	1.133	1.00
9_R	46_Q	1.116	1.00
23_A	67_K	1.116	1.00
8_T	17_T	1.114	1.00
167_A	179_V	1.113	1.00
9_R	40_N	1.094	1.00
165_M	173_W	1.083	1.00
151_P	154_I	1.082	1.00
18_L	61_S	1.079	1.00
61_S	109_G	1.068	1.00
186_M	189_A	1.067	1.00
92_N	220_E	1.049	1.00
8_T	15_E	1.048	1.00
20_R	23_A	1.047	1.00
213_T	225_Y	1.042	1.00
33_E	36_E	1.037	1.00
202_L	242_D	1.033	1.00
28_A	32_F	1.033	1.00
193_A	197_V	1.026	1.00
118_F	192_L	1.022	1.00
181_S	184_E	1.020	1.00
36_E	40_N	1.017	1.00
50_A	95_K	1.017	1.00
97_V	116_A	1.015	1.00
83_G	140_S	1.012	1.00
6_H	17_T	1.000	1.00
217_M	225_Y	0.989	1.00
56_G	102_N	0.980	1.00
20_R	65_D	0.976	1.00
187_D	191_E	0.959	1.00
123_D	179_V	0.955	1.00
37_V	40_N	0.950	1.00
51_I	189_A	0.948	1.00
150_L	154_I	0.948	1.00
171_L	176_V	0.946	1.00
94_D	205_A	0.944	1.00
53_T	100_A	0.930	1.00
168_E	171_L	0.927	1.00
15_E	51_I	0.919	1.00
149_I	153_A	0.915	1.00
110_F	127_F	0.913	1.00
13_I	49_V	0.911	1.00
102_N	185_L	0.909	1.00
244_I	248_L	0.908	1.00
50_A	97_V	0.908	1.00
47_L	95_K	0.907	1.00
144_L	222_A	0.901	1.00
201_P	205_A	0.900	1.00
132_A	207_L	0.895	1.00
221_E	224_R	0.888	1.00
31_S	86_G	0.885	1.00
126_S	166_G	0.883	1.00
100_A	185_L	0.880	1.00
45_P	95_K	0.876	1.00
101_V	127_F	0.876	1.00
209_E	233_H	0.868	1.00
206_A	209_E	0.863	1.00
73_E	76_D	0.863	1.00
152_P	215_S	0.863	1.00
143_V	226_I	0.847	1.00
190_R	193_A	0.837	1.00
122_A	183_A	0.829	1.00
118_F	177_N	0.825	1.00
101_V	119_I	0.824	1.00
9_R	47_L	0.823	1.00
137_V	237_V	0.820	1.00
191_E	195_Q	0.820	1.00
225_Y	228_S	0.819	1.00
206_A	233_H	0.819	1.00
35_G	82_G	0.818	1.00
171_L	178_R	0.812	1.00
198_N	255_D	0.808	1.00
38_F	90_I	0.807	1.00
39_L	43_D	0.789	1.00
158_M	173_W	0.788	1.00
106_F	164_R	0.788	1.00
67_K	251_A	0.786	1.00
111_E	131_E	0.785	1.00
146_L	150_L	0.785	1.00
16_I	50_A	0.783	1.00
42_R	95_K	0.782	1.00
159_V	211_Y	0.780	1.00
178_R	192_L	0.776	1.00
39_L	85_A	0.775	1.00
150_L	158_M	0.771	1.00
41_F	47_L	0.769	1.00
35_G	86_G	0.767	1.00
133_K	164_R	0.765	1.00
206_A	237_V	0.765	1.00
20_R	27_D	0.763	1.00
28_A	82_G	0.762	1.00
189_A	193_A	0.760	1.00
200_A	242_D	0.759	1.00
210_I	233_H	0.757	1.00
151_P	155_V	0.750	1.00
32_F	36_E	0.750	1.00
107_G	130_P	0.748	1.00
77_A	81_P	0.746	1.00
94_D	209_E	0.745	1.00
157_E	161_T	0.743	1.00
26_I	30_T	0.742	1.00
87_L	115_A	0.738	1.00
48_R	201_P	0.738	1.00
196_L	204_I	0.737	1.00
52_I	116_A	0.735	1.00
241_E	244_I	0.732	1.00
167_A	176_V	0.731	1.00
170_A	175_I	0.725	1.00
247_P	251_A	0.719	1.00
27_D	68_A	0.716	1.00
233_H	236_S	0.716	1.00
114_L	175_I	0.714	1.00
219_V	223_Y	0.713	1.00
144_L	147_P	0.712	1.00
180_V	185_L	0.712	1.00
191_E	194_Q	0.711	1.00
187_D	190_R	0.708	1.00
20_R	25_A	0.707	1.00
188_N	192_L	0.701	1.00
93_L	97_V	0.691	1.00
81_P	85_A	0.690	1.00
13_I	51_I	0.690	1.00
7_L	37_V	0.688	1.00
131_E	139_D	0.683	1.00
161_T	192_L	0.683	1.00
195_Q	199_S	0.679	1.00
176_V	179_V	0.676	1.00
101_V	125_A	0.676	1.00
120_V	178_R	0.673	1.00
202_L	240_S	0.672	1.00
7_L	40_N	0.664	1.00
51_I	190_R	0.662	1.00
29_K	32_F	0.661	1.00
44_D	47_L	0.659	1.00
127_F	176_V	0.656	1.00
194_Q	198_N	0.654	1.00
213_T	217_M	0.654	1.00
152_P	212_R	0.652	1.00
225_Y	233_H	0.649	1.00
120_V	189_A	0.649	1.00
41_F	95_K	0.649	1.00
137_V	210_I	0.648	1.00
51_I	100_A	0.646	1.00
129_L	142_G	0.645	1.00
131_E	138_P	0.644	1.00
106_F	130_P	0.639	1.00
12_S	46_Q	0.638	1.00
58_K	102_N	0.637	1.00
37_V	41_F	0.634	1.00
52_I	97_V	0.633	1.00
93_L	96_P	0.633	1.00
54_G	57_E	0.630	1.00
120_V	188_N	0.628	1.00
30_T	33_E	0.626	1.00
210_I	225_Y	0.624	1.00
44_D	95_K	0.623	1.00
102_N	182_Q	0.622	1.00
120_V	185_L	0.622	1.00
9_R	12_S	0.622	1.00
70_A	248_L	0.622	1.00
138_P	207_L	0.620	1.00
224_R	228_S	0.619	1.00
128_A	162_G	0.618	1.00
154_I	171_L	0.614	1.00
39_L	42_R	0.613	1.00
121_C	125_A	0.613	1.00
152_P	211_Y	0.609	1.00
81_P	227_R	0.607	1.00
64_W	69_A	0.605	1.00
111_E	139_D	0.603	1.00
98_I	193_A	0.603	1.00
13_I	193_A	0.602	1.00
36_E	39_L	0.602	1.00
168_E	179_V	0.602	1.00
220_E	224_R	0.600	1.00
99_A	119_I	0.599	1.00
49_V	98_I	0.596	1.00
227_R	235_P	0.596	1.00
34_M	86_G	0.591	1.00
49_V	197_V	0.589	1.00
7_L	16_I	0.589	1.00
13_I	190_R	0.588	1.00
192_L	195_Q	0.588	1.00
77_A	228_S	0.586	1.00
104_Y	164_R	0.586	1.00
132_A	199_S	0.584	1.00
165_M	170_A	0.584	1.00
150_L	155_V	0.581	1.00
131_E	234_Y	0.579	1.00
144_L	148_K	0.576	1.00
149_I	177_N	0.574	1.00
136_I	243_A	0.572	1.00
242_D	246_G	0.570	1.00
202_L	237_V	0.568	1.00
207_L	210_I	0.564	1.00
78_D	82_G	0.564	1.00
16_I	52_I	0.564	1.00
246_G	249_A	0.562	1.00
248_L	251_A	0.560	1.00
156_N	208_K	0.557	1.00
23_A	65_D	0.557	1.00
77_A	235_P	0.555	1.00
161_T	196_L	0.555	1.00
160_M	204_I	0.553	1.00
25_A	62_A	0.552	1.00
245_E	248_L	0.552	1.00
122_A	125_A	0.552	1.00
245_E	252_E	0.552	1.00
16_I	38_F	0.551	1.00
38_F	89_E	0.550	1.00
157_E	169_E	0.550	1.00
85_A	89_E	0.550	1.00
113_A	116_A	0.549	1.00
228_S	236_S	0.548	1.00
224_R	227_R	0.548	1.00
118_F	196_L	0.548	1.00
129_L	159_V	0.546	1.00
47_L	50_A	0.546	1.00
245_E	249_A	0.546	1.00
110_F	175_I	0.545	1.00
241_E	245_E	0.545	1.00
85_A	88_T	0.544	1.00
166_G	172_R	0.544	1.00
48_R	197_V	0.543	1.00
163_R	178_R	0.541	1.00
150_L	173_W	0.540	1.00
147_P	214_T	0.539	1.00
111_E	129_L	0.538	1.00
167_A	171_L	0.537	1.00
29_K	68_A	0.535	1.00
161_T	195_Q	0.535	1.00
115_A	145_R	0.532	1.00
132_A	204_I	0.529	1.00
154_I	172_R	0.528	1.00
147_P	150_L	0.528	1.00
124_N	167_A	0.524	1.00
26_I	108_G	0.524	1.00
157_E	192_L	0.524	1.00
107_G	129_L	0.522	1.00
31_S	35_G	0.521	1.00
108_G	140_S	0.519	1.00
66_L	134_L	0.519	1.00
38_F	97_V	0.516	1.00
135_G	200_A	0.515	1.00
137_V	207_L	0.515	1.00
237_V	240_S	0.514	1.00
82_G	85_A	0.509	1.00
105_A	110_F	0.509	1.00
100_A	193_A	0.508	1.00
184_E	191_E	0.508	1.00
102_N	125_A	0.508	1.00
111_E	145_R	0.507	1.00
70_A	251_A	0.507	1.00
5_L	37_V	0.507	1.00
51_I	186_M	0.505	1.00
64_W	108_G	0.505	1.00
129_L	146_L	0.503	1.00
38_F	50_A	0.501	1.00
243_A	246_G	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
3peaA	3	0.977	100	0.082	Contact Map
2ej5A	3	0.9579	100	0.083	Contact Map
1nzyA	4	0.9808	100	0.083	Contact Map
4lk5A	3	0.9502	100	0.085	Contact Map
4olqA	3	0.9732	100	0.086	Contact Map
3sllA	6	0.9655	100	0.086	Contact Map
4jfcA	3	0.9655	100	0.087	Contact Map
3kqfA	3	0.977	100	0.087	Contact Map
3qxzA	3	0.977	100	0.088	Contact Map
3swxA	3	0.9732	100	0.088	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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