DMD - SULSO - GREMLIN Contacts

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DMD - Diphosphomevalonate decarboxylase

UniProt:	Q97UL5	Sequences: MLKSVTVSAPSNIAVVKYWGKRGDERLNLPLNNSLSITLDDQLSVITKVTLNDKNIVIVNDRILSEDEMKEYAGRVLDTFKKIVGKEFHVKVESKSKFPINAGLASSAAGIAALAFSLNELLELNLKSEELSKIARLGSGSACRSMFGGFVVWNKGEREDGEDSYCYQIFRHDYWSELVDIIPILSEKEKKISSRKGMIRSAETSELMECRLKYIEKTFNEVIEAIRNRDEKKFYYLMMRHSNSMHAVILDSWPSFFYLNDTSIRIMEWIHDYGKAGYTFDAGPNPHIFTTERNIGDILEFLKSLEIKRIIVSKVGDGPKVLSRE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	325 (300)
Sequences:	999 (685)
Seq/√Len:	39.6

HALSA - Q9HRQ4
SULSO - DMD

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
6_T	48_K	4.702	1.00
222_V	237_L	4.196	1.00
154_N	167_Y	3.833	1.00
9_A	112_A	3.726	1.00
22_R	29_L	3.707	1.00
276_A	288_I	3.669	1.00
45_V	109_A	3.191	1.00
185_L	266_I	3.164	1.00
8_S	46_I	3.108	1.00
152_V	223_I	2.835	1.00
127_K	130_E	2.770	1.00
222_V	234_F	2.615	1.00
291_T	294_N	2.499	1.00
160_D	163_D	2.459	1.00
263_S	280_F	2.424	1.00
224_E	228_N	2.406	1.00
96_S	109_A	2.365	1.00
25_E	199_I	2.339	1.00
6_T	46_I	2.308	1.00
259_L	267_M	2.303	1.00
225_A	237_L	2.282	1.00
221_E	233_K	2.268	1.00
8_S	44_S	2.264	1.00
56_I	91_K	2.264	1.00
183_P	266_I	2.262	1.00
209_E	213_K	2.234	1.00
94_S	110_G	2.175	0.99
56_I	63_I	2.114	0.99
22_R	161_G	2.103	0.99
243_N	278_Y	2.077	0.99
90_V	121_L	2.072	0.99
77_L	92_V	2.052	0.99
50_T	93_E	2.014	0.99
267_M	278_Y	2.008	0.99
35_L	219_F	1.954	0.99
230_D	233_K	1.928	0.99
80_F	118_L	1.895	0.98
232_K	236_Y	1.852	0.98
234_F	237_L	1.849	0.98
218_T	241_H	1.791	0.98
259_L	263_S	1.782	0.98
239_M	274_G	1.778	0.97
25_E	28_N	1.778	0.97
58_I	63_I	1.751	0.97
55_N	81_K	1.740	0.97
96_S	100_I	1.732	0.97
175_W	229_R	1.723	0.97
32_N	215_I	1.713	0.97
236_Y	253_W	1.697	0.97
241_H	245_M	1.671	0.96
104_L	182_I	1.643	0.96
140_G	153_W	1.631	0.96
7_V	120_E	1.614	0.95
137_L	161_G	1.611	0.95
59_V	100_I	1.592	0.95
248_V	251_D	1.579	0.95
231_E	291_T	1.576	0.95
235_Y	277_G	1.572	0.95
196_K	199_I	1.556	0.94
207_L	251_D	1.550	0.94
78_D	81_K	1.549	0.94
177_E	292_E	1.536	0.94
259_L	264_I	1.536	0.94
196_K	200_R	1.528	0.94
50_T	91_K	1.520	0.94
201_S	251_D	1.510	0.94
179_V	292_E	1.508	0.93
179_V	295_I	1.484	0.93
271_H	278_Y	1.483	0.93
261_D	264_I	1.477	0.93
177_E	291_T	1.473	0.93
72_Y	77_L	1.471	0.93
27_L	156_G	1.460	0.92
79_T	83_I	1.452	0.92
33_N	216_E	1.445	0.92
129_E	147_F	1.439	0.92
57_V	64_L	1.437	0.92
48_K	93_E	1.431	0.92
207_L	244_S	1.431	0.92
211_R	241_H	1.427	0.91
49_V	117_S	1.408	0.91
171_R	174_Y	1.394	0.90
77_L	90_V	1.391	0.90
217_K	221_E	1.385	0.90
280_F	286_P	1.379	0.90
59_V	94_S	1.372	0.90
133_K	161_G	1.367	0.90
222_V	238_M	1.367	0.90
90_V	118_L	1.321	0.88
33_N	152_V	1.313	0.88
201_S	248_V	1.310	0.87
51_L	122_L	1.309	0.87
33_N	154_N	1.305	0.87
157_E	160_D	1.300	0.87
270_I	276_A	1.291	0.87
197_G	256_F	1.282	0.86
233_K	237_L	1.280	0.86
211_R	287_H	1.274	0.86
83_I	130_E	1.263	0.85
153_W	285_N	1.261	0.85
290_T	298_I	1.254	0.85
270_I	288_I	1.248	0.85
249_I	256_F	1.235	0.84
201_S	249_I	1.235	0.84
195_R	280_F	1.231	0.84
12_N	19_W	1.228	0.84
207_L	248_V	1.225	0.84
143_C	153_W	1.224	0.84
77_L	118_L	1.208	0.83
46_I	95_K	1.200	0.82
105_A	282_A	1.194	0.82
272_D	275_K	1.188	0.82
194_S	282_A	1.181	0.81
178_L	234_F	1.176	0.81
37_I	150_F	1.173	0.81
273_Y	301_F	1.171	0.81
225_A	233_K	1.165	0.80
157_E	163_D	1.162	0.80
51_L	121_L	1.161	0.80
221_E	237_L	1.148	0.79
46_I	266_I	1.126	0.78
31_L	208_M	1.120	0.78
67_D	70_K	1.119	0.78
75_R	79_T	1.118	0.78
66_E	69_M	1.110	0.77
236_Y	240_R	1.107	0.77
53_D	89_H	1.106	0.77
28_N	195_R	1.100	0.76
181_I	290_T	1.093	0.76
178_L	289_F	1.083	0.75
226_I	234_F	1.069	0.74
14_A	19_W	1.059	0.74
243_N	251_D	1.056	0.73
153_W	164_S	1.052	0.73
72_Y	76_V	1.034	0.72
44_S	97_K	1.032	0.72
129_E	165_Y	1.028	0.71
241_H	287_H	1.014	0.70
214_Y	244_S	1.013	0.70
80_F	90_V	1.004	0.70
119_N	122_L	0.997	0.69
66_E	70_K	0.997	0.69
262_T	265_R	0.996	0.69
22_R	163_D	0.993	0.69
279_T	289_F	0.987	0.68
69_M	72_Y	0.984	0.68
259_L	278_Y	0.980	0.68
252_S	255_S	0.974	0.67
239_M	242_S	0.972	0.67
170_F	174_Y	0.972	0.67
45_V	96_S	0.969	0.67
249_I	257_F	0.960	0.66
290_T	294_N	0.955	0.66
12_N	21_K	0.954	0.66
201_S	208_M	0.951	0.65
242_S	274_G	0.951	0.65
282_A	285_N	0.948	0.65
49_V	55_N	0.944	0.65
273_Y	297_D	0.942	0.65
15_V	234_F	0.936	0.64
57_V	94_S	0.934	0.64
67_D	82_K	0.934	0.64
177_E	293_R	0.924	0.63
245_M	287_H	0.923	0.63
219_F	237_L	0.921	0.63
31_L	212_L	0.919	0.63
174_Y	229_R	0.916	0.62
13_I	39_L	0.915	0.62
69_M	76_V	0.914	0.62
266_I	270_I	0.912	0.62
180_D	287_H	0.910	0.62
77_L	81_K	0.909	0.62
132_S	136_R	0.906	0.62
98_F	211_R	0.905	0.61
35_L	226_I	0.890	0.60
211_R	218_T	0.887	0.60
52_N	91_K	0.885	0.60
288_I	302_L	0.884	0.60
11_S	43_L	0.883	0.60
168_Q	171_R	0.882	0.59
155_K	216_E	0.881	0.59
14_A	21_K	0.880	0.59
247_A	250_L	0.879	0.59
22_R	157_E	0.879	0.59
14_A	105_A	0.877	0.59
116_F	120_E	0.876	0.59
54_K	270_I	0.872	0.59
105_A	194_S	0.872	0.59
184_I	187_E	0.869	0.58
12_N	18_Y	0.864	0.58
150_F	226_I	0.864	0.58
11_S	249_I	0.861	0.58
269_W	272_D	0.861	0.58
11_S	98_F	0.860	0.57
223_I	227_R	0.859	0.57
233_K	236_Y	0.859	0.57
79_T	82_K	0.854	0.57
49_V	90_V	0.853	0.57
82_K	275_K	0.851	0.57
76_V	80_F	0.847	0.56
79_T	298_I	0.847	0.56
49_V	114_L	0.846	0.56
171_R	226_I	0.845	0.56
231_E	234_F	0.827	0.55
51_L	90_V	0.826	0.54
300_E	304_S	0.823	0.54
57_V	109_A	0.817	0.54
239_M	277_G	0.809	0.53
79_T	137_L	0.809	0.53
100_I	109_A	0.809	0.53
156_G	164_S	0.808	0.53
275_K	300_E	0.806	0.53
224_E	233_K	0.805	0.53
292_E	295_I	0.804	0.52
21_K	105_A	0.800	0.52
152_V	219_F	0.798	0.52
239_M	278_Y	0.796	0.52
49_V	121_L	0.791	0.51
132_S	135_A	0.790	0.51
200_R	240_R	0.787	0.51
198_M	287_H	0.784	0.51
90_V	122_L	0.783	0.51
245_M	279_T	0.780	0.50
118_L	121_L	0.778	0.50
21_K	282_A	0.775	0.50
9_A	114_L	0.768	0.49
106_S	139_S	0.767	0.49
11_S	97_K	0.765	0.49
79_T	300_E	0.764	0.49
179_V	290_T	0.760	0.48
13_I	19_W	0.758	0.48
266_I	302_L	0.758	0.48
62_R	65_S	0.757	0.48
306_E	309_R	0.756	0.48
68_E	72_Y	0.756	0.48
37_I	178_L	0.755	0.48
163_D	167_Y	0.747	0.47
69_M	73_A	0.746	0.47
58_I	61_D	0.744	0.47
75_R	78_D	0.744	0.47
81_K	117_S	0.743	0.47
80_F	122_L	0.743	0.47
59_V	96_S	0.741	0.47
70_K	73_A	0.737	0.46
38_T	148_G	0.737	0.46
190_K	194_S	0.731	0.46
8_S	97_K	0.730	0.46
11_S	257_F	0.726	0.45
15_V	289_F	0.726	0.45
239_M	243_N	0.725	0.45
12_N	39_L	0.725	0.45
181_I	302_L	0.723	0.45
14_A	17_K	0.720	0.45
12_N	282_A	0.720	0.45
214_Y	217_K	0.719	0.45
98_F	241_H	0.716	0.44
12_N	17_K	0.716	0.44
99_P	282_A	0.714	0.44
64_L	69_M	0.714	0.44
7_V	117_S	0.713	0.44
49_V	80_F	0.709	0.44
50_T	109_A	0.708	0.44
150_F	175_W	0.702	0.43
27_L	164_S	0.702	0.43
119_N	131_L	0.698	0.43
130_E	133_K	0.696	0.43
35_L	169_I	0.696	0.43
290_T	295_I	0.693	0.42
211_R	251_D	0.693	0.42
35_L	222_V	0.688	0.42
13_I	279_T	0.686	0.42
16_V	237_L	0.686	0.42
280_F	287_H	0.684	0.42
303_K	309_R	0.684	0.42
240_R	244_S	0.683	0.41
39_L	114_L	0.682	0.41
242_S	280_F	0.680	0.41
12_N	285_N	0.680	0.41
213_K	298_I	0.676	0.41
6_T	69_M	0.672	0.41
274_G	286_P	0.670	0.40
186_S	260_N	0.670	0.40
227_R	304_S	0.665	0.40
26_R	29_L	0.665	0.40
12_N	246_H	0.662	0.40
274_G	277_G	0.661	0.40
143_C	151_V	0.660	0.39
43_L	182_I	0.659	0.39
210_C	214_Y	0.657	0.39
194_S	285_N	0.655	0.39
72_Y	75_R	0.654	0.39
18_Y	21_K	0.653	0.39
37_I	180_D	0.653	0.39
153_W	263_S	0.652	0.39
209_E	212_L	0.651	0.39
145_S	246_H	0.649	0.39
222_V	226_I	0.649	0.39
21_K	38_T	0.648	0.38
192_I	196_K	0.646	0.38
148_G	288_I	0.644	0.38
140_G	246_H	0.643	0.38
218_T	244_S	0.643	0.38
45_V	49_V	0.643	0.38
234_F	238_M	0.640	0.38
266_I	286_P	0.638	0.38
111_I	138_G	0.638	0.38
102_A	198_M	0.638	0.38
86_K	122_L	0.636	0.37
21_K	198_M	0.636	0.37
53_D	91_K	0.635	0.37
110_G	200_R	0.633	0.37
131_L	146_M	0.632	0.37
80_F	119_N	0.632	0.37
82_K	87_E	0.630	0.37
46_I	97_K	0.629	0.37
115_A	135_A	0.628	0.37
173_D	230_D	0.628	0.37
213_K	220_N	0.627	0.37
249_I	274_G	0.626	0.37
99_P	105_A	0.625	0.36
162_E	305_L	0.622	0.36
54_K	221_E	0.622	0.36
12_N	105_A	0.620	0.36
200_R	252_S	0.620	0.36
53_D	56_I	0.618	0.36
40_D	44_S	0.618	0.36
43_L	198_M	0.617	0.36
298_I	305_L	0.617	0.36
57_V	92_V	0.616	0.36
80_F	84_V	0.614	0.36
32_N	153_W	0.614	0.36
248_V	255_S	0.613	0.35
21_K	194_S	0.612	0.35
178_L	291_T	0.611	0.35
247_A	251_D	0.611	0.35
199_I	203_E	0.606	0.35
92_V	177_E	0.606	0.35
92_V	272_D	0.605	0.35
59_V	64_L	0.605	0.35
243_N	274_G	0.603	0.35
182_I	276_A	0.603	0.35
19_W	282_A	0.602	0.35
105_A	285_N	0.601	0.34
168_Q	172_H	0.600	0.34
32_N	163_D	0.600	0.34
33_N	155_K	0.598	0.34
237_L	241_H	0.597	0.34
11_S	256_F	0.595	0.34
205_S	252_S	0.595	0.34
12_N	36_S	0.594	0.34
15_V	219_F	0.594	0.34
151_V	168_Q	0.592	0.34
212_L	215_I	0.589	0.33
32_N	263_S	0.589	0.33
238_M	255_S	0.589	0.33
233_K	300_E	0.588	0.33
297_D	301_F	0.587	0.33
296_G	300_E	0.587	0.33
200_R	203_E	0.587	0.33
12_N	145_S	0.586	0.33
231_E	267_M	0.584	0.33
72_Y	79_T	0.579	0.33
294_N	298_I	0.578	0.33
129_E	133_K	0.577	0.32
47_T	96_S	0.575	0.32
10_P	32_N	0.572	0.32
13_I	145_S	0.572	0.32
54_K	227_R	0.571	0.32
176_S	288_I	0.569	0.32
33_N	215_I	0.569	0.32
16_V	35_L	0.568	0.32
27_L	163_D	0.564	0.31
255_S	271_H	0.563	0.31
22_R	27_L	0.563	0.31
243_N	255_S	0.563	0.31
279_T	282_A	0.562	0.31
266_I	297_D	0.562	0.31
108_A	145_S	0.561	0.31
179_V	291_T	0.560	0.31
132_S	166_C	0.559	0.31
14_A	18_Y	0.559	0.31
106_S	194_S	0.558	0.31
81_K	84_V	0.557	0.31
295_I	299_L	0.555	0.31
211_R	245_M	0.555	0.31
262_T	302_L	0.555	0.31
276_A	290_T	0.554	0.31
19_W	105_A	0.553	0.31
102_A	282_A	0.553	0.31
10_P	98_F	0.553	0.31
276_A	298_I	0.552	0.31
80_F	83_I	0.551	0.30
101_N	250_L	0.551	0.30
300_E	307_I	0.550	0.30
218_T	287_H	0.550	0.30
56_I	78_D	0.549	0.30
39_L	279_T	0.549	0.30
128_S	297_D	0.545	0.30
17_K	20_G	0.545	0.30
45_V	237_L	0.545	0.30
251_D	255_S	0.543	0.30
115_A	146_M	0.542	0.30
176_S	292_E	0.540	0.30
267_M	287_H	0.538	0.29
262_T	305_L	0.537	0.29
175_W	184_I	0.537	0.29
211_R	215_I	0.537	0.29
256_F	286_P	0.535	0.29
21_K	39_L	0.533	0.29
257_F	264_I	0.532	0.29
32_N	211_R	0.530	0.29
191_K	265_R	0.530	0.29
198_M	211_R	0.529	0.29
244_S	251_D	0.528	0.29
15_V	40_D	0.528	0.29
12_N	140_G	0.528	0.29
56_I	62_R	0.527	0.29
7_V	113_A	0.527	0.29
78_D	85_G	0.526	0.29
5_V	116_F	0.526	0.29
75_R	82_K	0.524	0.28
80_F	134_I	0.524	0.28
7_V	116_F	0.524	0.28
44_S	94_S	0.522	0.28
151_V	166_C	0.522	0.28
252_S	256_F	0.521	0.28
240_R	253_W	0.520	0.28
21_K	285_N	0.518	0.28
22_R	156_G	0.515	0.28
73_A	92_V	0.515	0.28
155_K	167_Y	0.514	0.28
169_I	303_K	0.514	0.28
32_N	255_S	0.513	0.28
268_E	275_K	0.513	0.28
175_W	234_F	0.513	0.28
245_M	282_A	0.513	0.28
156_G	163_D	0.512	0.28
78_D	82_K	0.512	0.28
22_R	155_K	0.508	0.27
56_I	87_E	0.507	0.27
58_I	64_L	0.507	0.27
69_M	80_F	0.506	0.27
10_P	234_F	0.506	0.27
12_N	99_P	0.506	0.27
262_T	266_I	0.503	0.27
143_C	192_I	0.503	0.27
105_A	138_G	0.503	0.27
230_D	236_Y	0.502	0.27
19_W	198_M	0.502	0.27
204_T	255_S	0.500	0.27

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
1fi4A	2	0.9877	100	0.545	Contact Map
3f0nA	2	0.9754	100	0.55	Contact Map
2hkeA	1	0.9785	100	0.564	Contact Map
3qt5A	2	0.9754	100	0.581	Contact Map
4rksA	1	0.9354	100	0.594	Contact Map
2gs8A	1	0.9385	100	0.634	Contact Map
3ltoA	2	0.9138	100	0.637	Contact Map
1h72C	2	0.8738	99.9	0.778	Contact Map
3pyfA	1	0.8831	99.9	0.785	Contact Map
4p52A	2	0.8831	99.9	0.788	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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