ISPH - BACSU - GREMLIN Contacts

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ISPH - 4-hydroxy-3-methylbut-2-enyl diphosphate reductase

UniProt:	P54473	Sequences: MDVIKISPRGYCYGVVDAMVIAKNASLDKSLPRPIYILGMIVHNKHVTDAFEEEGIFTLDGSNRLDILKQVDKGTVIFTAHGVSPEVRRIAEEKGLVAIDATCPDVTKTHNLILEMKEKGYHVIYIGKKGHPEPEGAVGVAPEIVHLVETEEDVKNLDIQSEKLIVTNQTTMSQWDVHDIMELVKEKYPHVEYHQEICLATQVRQEAVSEQAKKADLTIVVGDPKSNNSNRLAQVSEEIAGTKAYRIGDLSELKLEWLKGVNTVAVTAGASTPTPITKEVIRFLEQFDHEDPSTWTTEHNIPLKKILPKVKAKN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	314 (282)
Sequences:	2949 (1618)
Seq/√Len:	96.4

ECOLI - ISPH
BACSU - ISPH

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
2_D	263_T	3.902	1.00
122_H	146_H	3.452	1.00
154_V	183_L	3.318	1.00
121_Y	163_K	3.072	1.00
250_L	279_E	2.960	1.00
89_R	93_E	2.872	1.00
217_L	261_V	2.854	1.00
49_D	52_E	2.832	1.00
138_V	147_L	2.816	1.00
220_V	267_T	2.681	1.00
151_E	179_D	2.614	1.00
4_I	214_K	2.559	1.00
218_T	236_S	2.494	1.00
46_H	249_D	2.463	1.00
113_I	167_T	2.305	1.00
115_E	119_K	2.298	1.00
151_E	180_I	2.287	1.00
149_E	153_D	2.286	1.00
49_D	53_E	2.255	1.00
155_K	183_L	2.219	1.00
116_M	121_Y	2.166	1.00
253_L	280_V	2.109	1.00
75_T	97_V	2.042	1.00
89_R	92_E	2.015	1.00
114_L	118_E	1.997	1.00
155_K	186_E	1.987	1.00
243_K	261_V	1.965	1.00
283_F	287_F	1.942	1.00
245_Y	257_W	1.937	1.00
208_V	236_S	1.927	1.00
4_I	263_T	1.906	1.00
233_A	237_E	1.897	1.00
210_E	214_K	1.867	1.00
90_I	93_E	1.833	1.00
25_A	99_I	1.824	1.00
24_N	28_D	1.814	1.00
223_D	248_G	1.812	1.00
50_A	54_E	1.809	1.00
26_S	56_I	1.802	1.00
255_L	287_F	1.785	1.00
250_L	283_F	1.764	1.00
163_K	190_H	1.753	1.00
23_K	50_A	1.749	1.00
116_M	165_I	1.744	1.00
258_L	264_V	1.739	1.00
50_A	275_P	1.736	1.00
217_L	245_Y	1.699	1.00
183_L	186_E	1.696	1.00
90_I	94_K	1.691	1.00
215_A	218_T	1.687	1.00
184_V	191_V	1.672	1.00
283_F	286_Q	1.641	1.00
254_K	257_W	1.627	1.00
45_K	49_D	1.613	1.00
122_H	160_Q	1.611	1.00
212_A	239_I	1.593	1.00
150_T	153_D	1.587	1.00
247_I	253_L	1.585	1.00
84_S	139_G	1.585	1.00
219_I	247_I	1.582	1.00
162_E	190_H	1.571	1.00
52_E	57_F	1.561	1.00
72_D	94_K	1.559	1.00
152_E	155_K	1.547	1.00
85_P	114_L	1.543	1.00
229_S	246_R	1.541	1.00
215_A	265_A	1.519	1.00
213_K	239_I	1.467	1.00
85_P	139_G	1.462	1.00
23_K	54_E	1.459	1.00
202_Q	206_E	1.431	1.00
113_I	137_A	1.425	1.00
249_D	252_E	1.417	1.00
219_I	253_L	1.389	0.99
154_V	157_L	1.379	0.99
8_P	207_A	1.369	0.99
22_A	77_I	1.335	0.99
224_P	252_E	1.330	0.99
221_V	280_V	1.319	0.99
20_V	24_N	1.318	0.99
63_N	90_I	1.316	0.99
91_A	96_L	1.314	0.99
151_E	183_L	1.313	0.99
71_V	74_G	1.304	0.99
50_A	53_E	1.303	0.99
138_V	145_V	1.299	0.99
3_V	281_I	1.299	0.99
236_S	244_A	1.290	0.99
175_W	209_S	1.285	0.99
217_L	258_L	1.245	0.99
34_P	57_F	1.238	0.99
215_A	263_T	1.236	0.99
3_V	266_V	1.232	0.99
122_H	144_I	1.232	0.99
126_I	180_I	1.229	0.99
237_E	243_K	1.227	0.99
129_K	153_D	1.222	0.99
13_Y	105_D	1.220	0.99
4_I	215_A	1.218	0.98
47_V	50_A	1.215	0.98
59_L	70_Q	1.210	0.98
38_L	87_V	1.180	0.98
210_E	213_K	1.177	0.98
148_V	157_L	1.176	0.98
154_V	180_I	1.171	0.98
116_M	119_K	1.171	0.98
216_D	261_V	1.156	0.98
266_V	281_I	1.153	0.98
111_N	114_L	1.133	0.98
5_K	281_I	1.132	0.98
70_Q	73_K	1.129	0.98
124_I	148_V	1.128	0.97
218_T	265_A	1.126	0.97
200_A	270_A	1.125	0.97
45_K	223_D	1.117	0.97
125_Y	167_T	1.108	0.97
22_A	56_I	1.100	0.97
46_H	275_P	1.098	0.97
166_V	193_Y	1.096	0.97
256_E	259_K	1.095	0.97
216_D	262_N	1.094	0.97
128_K	227_N	1.093	0.97
70_Q	74_G	1.093	0.97
182_E	186_E	1.092	0.97
37_I	40_M	1.089	0.97
261_V	264_V	1.088	0.97
116_M	167_T	1.078	0.97
130_G	135_E	1.074	0.97
28_D	54_E	1.073	0.97
251_S	279_E	1.068	0.97
128_K	231_R	1.064	0.96
83_V	87_V	1.063	0.96
2_D	262_N	1.056	0.96
117_K	141_A	1.052	0.96
224_P	246_R	1.049	0.96
229_S	269_G	1.047	0.96
217_L	257_W	1.045	0.96
183_L	187_K	1.041	0.96
117_K	144_I	1.040	0.96
206_E	210_E	1.037	0.96
258_L	261_V	1.035	0.96
22_A	37_I	1.029	0.96
45_K	248_G	1.028	0.96
40_M	225_K	1.028	0.96
85_P	89_R	1.028	0.96
6_I	211_Q	1.027	0.96
208_V	267_T	1.020	0.95
85_P	140_V	1.019	0.95
17_D	21_I	1.015	0.95
219_I	258_L	1.000	0.95
37_I	56_I	0.998	0.95
231_R	234_Q	0.991	0.95
125_Y	134_P	0.990	0.95
110_H	137_A	0.987	0.95
217_L	264_V	0.984	0.94
166_V	181_M	0.977	0.94
219_I	257_W	0.975	0.94
188_Y	191_V	0.967	0.94
72_D	95_G	0.963	0.94
126_I	166_V	0.958	0.94
2_D	291_D	0.957	0.94
136_G	139_G	0.954	0.94
121_Y	192_E	0.949	0.93
7_S	210_E	0.946	0.93
253_L	258_L	0.945	0.93
178_H	182_E	0.944	0.93
76_V	91_A	0.941	0.93
150_T	154_V	0.939	0.93
146_H	157_L	0.939	0.93
121_Y	190_H	0.938	0.93
282_R	286_Q	0.937	0.93
40_M	52_E	0.933	0.93
208_V	218_T	0.931	0.93
237_E	241_G	0.927	0.93
9_R	207_A	0.921	0.92
168_N	177_V	0.914	0.92
124_I	157_L	0.914	0.92
209_S	235_V	0.912	0.92
7_S	207_A	0.904	0.92
39_G	79_T	0.904	0.92
209_S	238_E	0.894	0.91
39_G	132_P	0.891	0.91
274_T	278_K	0.888	0.91
108_K	112_L	0.885	0.91
200_A	207_A	0.882	0.91
230_N	233_A	0.875	0.90
268_A	277_T	0.871	0.90
129_K	149_E	0.871	0.90
88_R	140_V	0.870	0.90
255_L	283_F	0.861	0.89
85_P	88_R	0.860	0.89
84_S	88_R	0.855	0.89
200_A	267_T	0.853	0.89
33_R	75_T	0.848	0.89
62_S	91_A	0.847	0.89
282_R	285_E	0.844	0.89
116_M	192_E	0.839	0.88
23_K	51_F	0.834	0.88
249_D	279_E	0.833	0.88
74_G	96_L	0.828	0.88
113_I	123_V	0.827	0.88
172_M	176_D	0.826	0.87
233_A	244_A	0.826	0.87
21_I	24_N	0.823	0.87
86_E	89_R	0.820	0.87
46_H	49_D	0.818	0.87
281_I	285_E	0.815	0.87
182_E	185_K	0.814	0.87
253_L	283_F	0.812	0.87
152_E	156_N	0.811	0.86
34_P	74_G	0.809	0.86
86_E	90_I	0.808	0.86
119_K	163_K	0.807	0.86
19_M	47_V	0.797	0.86
219_I	245_Y	0.796	0.85
26_S	54_E	0.792	0.85
130_G	147_L	0.792	0.85
172_M	227_N	0.787	0.85
112_L	194_H	0.787	0.85
88_R	100_D	0.784	0.85
41_I	99_I	0.782	0.84
222_G	269_G	0.781	0.84
151_E	155_K	0.780	0.84
221_V	247_I	0.776	0.84
158_D	161_S	0.768	0.83
254_K	258_L	0.767	0.83
84_S	140_V	0.767	0.83
246_R	253_L	0.765	0.83
16_V	20_V	0.763	0.83
122_H	157_L	0.762	0.83
76_V	96_L	0.762	0.83
227_N	231_R	0.761	0.83
125_Y	145_V	0.757	0.82
121_Y	165_I	0.756	0.82
117_K	142_P	0.755	0.82
123_V	165_I	0.754	0.82
122_H	162_E	0.751	0.82
84_S	135_E	0.749	0.82
224_P	248_G	0.747	0.82
279_E	284_L	0.746	0.82
124_I	164_L	0.744	0.81
41_I	195_Q	0.744	0.81
11_Y	19_M	0.743	0.81
123_V	167_T	0.743	0.81
166_V	184_V	0.739	0.81
284_L	288_D	0.738	0.81
105_D	199_L	0.732	0.80
112_L	165_I	0.730	0.80
35_I	56_I	0.729	0.80
22_A	51_F	0.728	0.80
105_D	231_R	0.726	0.80
201_T	205_Q	0.724	0.80
155_K	187_K	0.724	0.80
42_V	80_A	0.724	0.80
222_G	229_S	0.720	0.79
125_Y	147_L	0.720	0.79
19_M	51_F	0.719	0.79
109_T	227_N	0.717	0.79
46_H	223_D	0.716	0.79
109_T	137_A	0.711	0.78
88_R	107_T	0.707	0.78
233_A	246_R	0.707	0.78
6_I	265_A	0.707	0.78
62_S	90_I	0.703	0.78
152_E	251_S	0.702	0.77
221_V	266_V	0.699	0.77
45_K	225_K	0.698	0.77
179_D	182_E	0.698	0.77
236_S	242_T	0.698	0.77
118_E	142_P	0.696	0.77
214_K	263_T	0.696	0.77
122_H	145_V	0.694	0.77
117_K	123_V	0.692	0.76
141_A	144_I	0.691	0.76
3_V	285_E	0.691	0.76
266_V	280_V	0.691	0.76
5_K	266_V	0.688	0.76
37_I	58_T	0.685	0.76
247_I	280_V	0.679	0.75
13_Y	128_K	0.673	0.74
84_S	98_A	0.669	0.74
125_Y	138_V	0.668	0.74
200_A	205_Q	0.666	0.74
174_Q	195_Q	0.666	0.74
209_S	239_I	0.666	0.74
6_I	16_V	0.663	0.73
110_H	136_G	0.661	0.73
147_L	153_D	0.661	0.73
22_A	41_I	0.660	0.73
7_S	41_I	0.659	0.73
113_I	141_A	0.658	0.73
148_V	153_D	0.648	0.72
30_S	75_T	0.647	0.72
105_D	110_H	0.645	0.71
78_F	91_A	0.643	0.71
161_S	190_H	0.641	0.71
8_P	203_V	0.641	0.71
62_S	70_Q	0.639	0.71
257_W	260_G	0.639	0.71
10_G	14_G	0.635	0.70
119_K	192_E	0.634	0.70
223_D	229_S	0.632	0.70
26_S	35_I	0.631	0.70
255_L	258_L	0.631	0.70
10_G	15_V	0.627	0.69
25_A	77_I	0.627	0.69
266_V	288_D	0.627	0.69
207_A	274_T	0.626	0.69
219_I	246_R	0.625	0.69
217_L	254_K	0.624	0.69
237_E	242_T	0.619	0.68
176_D	180_I	0.619	0.68
109_T	170_T	0.617	0.68
69_K	94_K	0.616	0.68
36_Y	57_F	0.615	0.68
239_I	242_T	0.615	0.68
126_I	176_D	0.613	0.67
168_N	172_M	0.612	0.67
40_M	45_K	0.611	0.67
92_E	95_G	0.611	0.67
233_A	258_L	0.610	0.67
12_C	15_V	0.610	0.67
199_L	203_V	0.609	0.67
209_S	213_K	0.609	0.67
155_K	182_E	0.609	0.67
122_H	161_S	0.607	0.67
111_N	115_E	0.607	0.67
41_I	48_T	0.605	0.66
207_A	211_Q	0.603	0.66
120_G	160_Q	0.601	0.66
117_K	145_V	0.601	0.66
128_K	149_E	0.599	0.66
37_I	101_A	0.598	0.66
278_K	284_L	0.598	0.66
36_Y	74_G	0.596	0.65
146_H	159_I	0.596	0.65
211_Q	218_T	0.593	0.65
85_P	141_A	0.589	0.64
141_A	145_V	0.586	0.64
117_K	125_Y	0.585	0.64
42_V	102_T	0.584	0.64
230_N	246_R	0.584	0.64
80_A	140_V	0.583	0.64
6_I	221_V	0.583	0.64
232_L	267_T	0.582	0.63
45_K	252_E	0.580	0.63
84_S	145_V	0.579	0.63
83_V	88_R	0.579	0.63
116_M	163_K	0.579	0.63
164_L	191_V	0.574	0.62
248_G	252_E	0.571	0.62
157_L	187_K	0.571	0.62
23_K	26_S	0.571	0.62
200_A	268_A	0.571	0.62
17_D	22_A	0.570	0.62
278_K	285_E	0.568	0.62
123_V	141_A	0.568	0.62
3_V	264_V	0.568	0.62
134_P	137_A	0.566	0.61
130_G	140_V	0.566	0.61
201_T	231_R	0.566	0.61
205_Q	270_A	0.566	0.61
16_V	274_T	0.565	0.61
117_K	140_V	0.562	0.61
126_I	177_V	0.562	0.61
245_Y	256_E	0.562	0.61
70_Q	76_V	0.562	0.61
116_M	125_Y	0.562	0.61
105_D	128_K	0.559	0.60
146_H	158_D	0.559	0.60
126_I	172_M	0.558	0.60
201_T	232_L	0.558	0.60
42_V	105_D	0.555	0.60
153_D	156_N	0.554	0.60
53_E	161_S	0.554	0.60
91_A	98_A	0.550	0.59
275_P	279_E	0.549	0.59
22_A	26_S	0.548	0.59
130_G	149_E	0.546	0.59
79_T	177_V	0.545	0.58
148_V	154_V	0.543	0.58
138_V	143_E	0.543	0.58
212_A	242_T	0.542	0.58
73_K	94_K	0.542	0.58
48_T	236_S	0.542	0.58
31_L	75_T	0.541	0.58
186_E	190_H	0.541	0.58
132_P	167_T	0.540	0.58
122_H	164_L	0.540	0.58
9_R	136_G	0.537	0.57
185_K	190_H	0.536	0.57
10_G	211_Q	0.535	0.57
63_N	69_K	0.533	0.57
136_G	172_M	0.532	0.57
36_Y	59_L	0.528	0.56
20_V	23_K	0.527	0.56
163_K	247_I	0.526	0.56
5_K	202_Q	0.523	0.55
100_D	107_T	0.522	0.55
111_N	119_K	0.521	0.55
269_G	277_T	0.521	0.55
177_V	181_M	0.520	0.55
28_D	286_Q	0.519	0.55
11_Y	15_V	0.519	0.55
99_I	113_I	0.519	0.55
123_V	194_H	0.518	0.55
15_V	42_V	0.516	0.54
4_I	211_Q	0.515	0.54
75_T	99_I	0.514	0.54
10_G	274_T	0.513	0.54
154_V	184_V	0.512	0.54
257_W	280_V	0.512	0.54
113_I	165_I	0.512	0.54
126_I	168_N	0.511	0.54
185_K	192_E	0.511	0.54
89_R	239_I	0.510	0.54
201_T	270_A	0.508	0.53
125_Y	196_E	0.504	0.53
158_D	187_K	0.504	0.53
26_S	55_G	0.503	0.53
59_L	76_V	0.502	0.52
9_R	110_H	0.500	0.52
9_R	268_A	0.500	0.52

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
4n7bA	1	0.9745	100	0.052	Contact Map
4h4dA	1	0.9682	100	0.054	Contact Map
3dnfA	2	0.8854	100	0.084	Contact Map
4toiA	2	0.7102	100	0.696	Contact Map
3o3mB	1	0.5223	68.3	0.961	Contact Map
4jenA	2	0.3535	66.6	0.961	Contact Map
4oo4A	2	0.3344	57.5	0.963	Contact Map
3wgdA	3	0.3439	55.7	0.964	Contact Map
3aekA	1	0.8057	55.4	0.964	Contact Map
4bw0B	1	0.3567	53.1	0.964	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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