HEM6 - ECOLI - GREMLIN Contacts

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HEM6 - Oxygen-dependent coproporphyrinogen-III oxidase

UniProt:	P36553	Sequences: MKPDAHQVKQFLLNLQDTICQQLTAVDGAEFVEDSWQREAGGGGRSRVLRNGGVFEQAGVNFSHVHGEAMPASATAHRPELAGRSFEAMGVSLVVHPHNPYVPTSHANVRFFIAEKPGADPVWWFGGGFDLTPFYGFEEDAIHWHRTARDLCLPFGEDVYPRYKKWCDEYFYLKHRNEQRGIGGLFFDDLNTPDFDRCFAFMQAVGKGYTDAYLPIVERRKAMAYGERERNFQLYRRGRYVEFNLVWDRGTLFGLQTGGRTESILMSMPPLVRWEYDYQPKDGSPEAALSEFIKVRDWV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG12189
Length:	299 (288)
Sequences:	1692 (748)
Seq/√Len:	44.1

ECOLI - HEM6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
172_Y	177_N	4.175	1.00
101_Y	137_F	3.891	1.00
149_R	153_L	3.837	1.00
141_A	182_I	3.685	1.00
102_V	217_V	3.468	1.00
187_F	202_M	3.281	1.00
165_K	169_E	3.019	1.00
203_Q	207_K	3.012	1.00
24_T	30_E	2.941	1.00
152_C	201_F	2.902	1.00
155_F	204_A	2.863	1.00
101_Y	229_E	2.750	1.00
105_S	209_Y	2.582	1.00
55_F	217_V	2.573	1.00
49_L	58_A	2.558	1.00
17_D	45_R	2.550	1.00
226_G	229_E	2.540	1.00
137_F	220_R	2.495	1.00
14_N	18_T	2.444	1.00
11_F	207_K	2.429	1.00
55_F	58_A	2.390	1.00
146_R	150_D	2.310	1.00
151_L	208_G	2.308	1.00
231_N	273_R	2.240	1.00
229_E	285_P	2.223	1.00
220_R	223_M	2.217	1.00
285_P	288_A	2.175	1.00
156_G	159_V	2.121	1.00
194_D	197_R	2.080	0.99
22_Q	210_T	2.078	0.99
26_V	218_E	2.070	0.99
9_K	13_L	2.068	0.99
234_L	271_L	2.063	0.99
23_L	95_V	2.010	0.99
138_E	288_A	1.989	0.99
179_Q	294_K	1.950	0.99
33_E	45_R	1.933	0.99
58_A	95_V	1.898	0.99
33_E	47_R	1.898	0.99
154_P	204_A	1.892	0.99
94_V	266_M	1.882	0.99
287_A	291_E	1.868	0.99
15_L	206_G	1.853	0.99
232_F	290_S	1.803	0.98
12_L	202_M	1.776	0.98
17_D	33_E	1.764	0.98
163_Y	201_F	1.751	0.98
101_Y	223_M	1.727	0.98
101_Y	226_G	1.725	0.98
129_F	208_G	1.702	0.98
193_P	198_C	1.683	0.97
59_G	266_M	1.679	0.97
54_V	221_K	1.668	0.97
137_F	223_M	1.642	0.97
129_F	148_A	1.631	0.97
18_T	207_K	1.631	0.97
159_V	190_L	1.625	0.97
26_V	54_V	1.608	0.97
48_V	61_N	1.596	0.97
61_N	266_M	1.570	0.96
151_L	204_A	1.555	0.96
134_F	272_V	1.512	0.95
284_S	287_A	1.508	0.95
101_Y	228_R	1.480	0.95
138_E	292_F	1.463	0.94
21_Q	24_T	1.462	0.94
136_G	179_Q	1.458	0.94
190_L	201_F	1.455	0.94
19_I	93_L	1.447	0.94
18_T	22_Q	1.431	0.94
7_Q	196_D	1.424	0.93
190_L	193_P	1.418	0.93
227_E	231_N	1.418	0.93
11_F	206_G	1.410	0.93
230_R	234_L	1.379	0.92
252_L	256_Q	1.377	0.92
179_Q	272_V	1.377	0.92
163_Y	190_L	1.373	0.92
20_C	47_R	1.371	0.92
27_D	53_G	1.363	0.92
8_V	12_L	1.356	0.92
162_R	169_E	1.347	0.91
173_L	247_W	1.337	0.91
93_L	107_A	1.332	0.91
159_V	193_P	1.322	0.91
17_D	47_R	1.315	0.90
64_H	87_E	1.315	0.90
159_V	163_Y	1.313	0.90
26_V	214_L	1.296	0.90
50_R	275_E	1.295	0.90
143_H	215_P	1.291	0.90
193_P	197_R	1.287	0.89
136_G	292_F	1.278	0.89
109_V	205_V	1.269	0.89
50_R	57_Q	1.265	0.89
199_F	203_Q	1.247	0.88
231_N	275_E	1.244	0.88
139_E	219_R	1.241	0.88
178_E	239_R	1.239	0.87
144_W	148_A	1.226	0.87
143_H	147_T	1.225	0.87
22_Q	214_L	1.223	0.87
38_R	43_G	1.214	0.86
259_G	264_I	1.197	0.86
173_L	246_V	1.191	0.85
11_F	15_L	1.166	0.84
140_D	220_R	1.161	0.84
129_F	144_W	1.154	0.83
51_N	98_H	1.152	0.83
212_A	215_P	1.151	0.83
158_D	162_R	1.134	0.82
26_V	221_K	1.133	0.82
29_A	53_G	1.123	0.82
22_Q	211_D	1.120	0.82
11_F	203_Q	1.114	0.81
291_E	294_K	1.101	0.80
65_V	88_A	1.091	0.80
107_A	185_L	1.088	0.80
87_E	111_F	1.087	0.80
54_V	102_V	1.085	0.79
268_M	272_V	1.083	0.79
136_G	141_A	1.080	0.79
162_R	192_T	1.070	0.78
200_A	203_Q	1.065	0.78
230_R	271_L	1.063	0.78
93_L	105_S	1.058	0.78
15_L	19_I	1.055	0.77
87_E	113_I	1.048	0.77
28_G	53_G	1.043	0.77
152_C	185_L	1.038	0.76
136_G	232_F	1.033	0.76
192_T	198_C	1.033	0.76
190_L	198_C	1.031	0.76
197_R	200_A	1.030	0.76
146_R	149_R	1.026	0.75
278_Y	290_S	1.021	0.75
194_D	198_C	1.016	0.75
98_H	230_R	1.013	0.75
112_F	123_W	1.011	0.74
164_K	168_D	1.010	0.74
35_S	45_R	1.008	0.74
19_I	206_G	1.008	0.74
24_T	31_F	1.007	0.74
282_D	287_A	1.007	0.74
23_L	97_P	0.996	0.73
32_V	277_D	0.982	0.72
178_E	236_R	0.979	0.72
241_V	272_V	0.976	0.72
204_A	208_G	0.966	0.71
153_L	157_E	0.962	0.71
283_G	287_A	0.956	0.70
34_D	263_S	0.952	0.70
142_I	146_R	0.952	0.70
291_E	295_V	0.941	0.69
216_I	220_R	0.939	0.69
34_D	187_F	0.937	0.69
228_R	281_K	0.936	0.69
232_F	278_Y	0.934	0.68
12_L	62_F	0.930	0.68
34_D	260_R	0.921	0.67
35_S	46_S	0.921	0.67
98_H	225_Y	0.921	0.67
143_H	219_R	0.915	0.67
231_N	271_L	0.914	0.67
105_S	129_F	0.914	0.67
40_A	86_F	0.908	0.66
234_L	273_R	0.907	0.66
7_Q	203_Q	0.907	0.66
196_D	200_A	0.898	0.65
20_C	60_V	0.897	0.65
58_A	97_P	0.896	0.65
84_R	115_E	0.888	0.64
172_Y	179_Q	0.888	0.64
215_P	219_R	0.887	0.64
246_V	255_L	0.887	0.64
155_F	200_A	0.879	0.64
9_K	64_H	0.867	0.63
204_A	207_K	0.864	0.62
104_T	134_F	0.861	0.62
67_G	88_A	0.860	0.62
123_W	191_N	0.859	0.62
284_S	291_E	0.854	0.61
57_Q	275_E	0.853	0.61
49_L	231_N	0.853	0.61
131_L	182_I	0.851	0.61
218_E	221_K	0.850	0.61
138_E	296_R	0.849	0.61
153_L	159_V	0.849	0.61
22_Q	25_A	0.842	0.60
132_T	241_V	0.842	0.60
143_H	214_L	0.841	0.60
38_R	41_G	0.838	0.60
84_R	116_K	0.835	0.60
136_G	182_I	0.834	0.60
17_D	21_Q	0.831	0.59
61_N	94_V	0.828	0.59
147_T	150_D	0.827	0.59
18_T	210_T	0.826	0.59
38_R	66_H	0.826	0.59
163_Y	166_W	0.812	0.57
214_L	218_E	0.810	0.57
21_Q	25_A	0.809	0.57
153_L	156_G	0.804	0.57
147_T	212_A	0.802	0.57
155_F	197_R	0.795	0.56
19_I	209_Y	0.788	0.55
135_Y	286_E	0.787	0.55
140_D	219_R	0.781	0.55
26_V	217_V	0.780	0.54
165_K	297_D	0.779	0.54
59_G	94_V	0.779	0.54
260_R	263_S	0.778	0.54
61_N	86_F	0.775	0.54
169_E	174_K	0.767	0.53
62_F	91_V	0.765	0.53
185_L	205_V	0.762	0.53
26_V	102_V	0.761	0.53
191_N	198_C	0.761	0.53
132_T	236_R	0.759	0.52
289_L	293_I	0.756	0.52
152_C	159_V	0.755	0.52
12_L	89_M	0.754	0.52
147_T	215_P	0.753	0.52
135_Y	232_F	0.753	0.52
65_V	86_F	0.753	0.52
193_P	201_F	0.752	0.52
11_F	202_M	0.751	0.52
252_L	272_V	0.748	0.51
19_I	105_S	0.747	0.51
76_A	84_R	0.739	0.50
69_A	77_H	0.737	0.50
158_D	161_P	0.730	0.50
292_F	295_V	0.730	0.50
57_Q	208_G	0.727	0.49
70_M	77_H	0.725	0.49
210_T	214_L	0.724	0.49
139_E	220_R	0.724	0.49
105_S	144_W	0.720	0.49
55_F	95_V	0.719	0.49
90_G	108_N	0.718	0.48
78_R	189_D	0.717	0.48
91_V	206_G	0.716	0.48
61_N	268_M	0.716	0.48
144_W	209_Y	0.715	0.48
173_L	241_V	0.713	0.48
135_Y	229_E	0.708	0.47
13_L	45_R	0.704	0.47
134_F	289_L	0.701	0.47
232_F	236_R	0.701	0.47
167_C	178_E	0.701	0.47
45_R	48_V	0.701	0.47
129_F	185_L	0.695	0.46
231_N	234_L	0.695	0.46
57_Q	129_F	0.695	0.46
66_H	86_F	0.694	0.46
91_V	109_V	0.694	0.46
132_T	178_E	0.692	0.46
15_L	93_L	0.692	0.46
23_L	58_A	0.689	0.46
21_Q	30_E	0.684	0.45
95_V	209_Y	0.682	0.45
73_S	77_H	0.680	0.45
150_D	153_L	0.679	0.45
52_G	55_F	0.677	0.45
144_W	185_L	0.676	0.44
179_Q	295_V	0.676	0.44
90_G	106_H	0.675	0.44
174_K	252_L	0.673	0.44
136_G	295_V	0.670	0.44
138_E	142_I	0.668	0.44
97_P	213_Y	0.667	0.44
99_N	225_Y	0.665	0.43
28_G	54_V	0.664	0.43
15_L	91_V	0.663	0.43
91_V	195_F	0.663	0.43
281_K	287_A	0.660	0.43
106_H	251_T	0.659	0.43
290_S	294_K	0.655	0.42
64_H	89_M	0.654	0.42
225_Y	230_R	0.652	0.42
137_F	219_R	0.648	0.42
246_V	265_L	0.643	0.41
11_F	151_L	0.642	0.41
95_V	105_S	0.641	0.41
280_P	287_A	0.641	0.41
280_P	290_S	0.640	0.41
90_G	175_H	0.639	0.41
6_H	10_Q	0.638	0.41
20_C	152_C	0.636	0.41
20_C	24_T	0.635	0.41
177_N	211_D	0.634	0.40
72_A	256_Q	0.633	0.40
68_E	85_S	0.633	0.40
74_A	84_R	0.631	0.40
187_F	258_G	0.626	0.40
275_E	278_Y	0.625	0.40
206_G	209_Y	0.624	0.40
8_V	202_M	0.624	0.40
236_R	239_R	0.623	0.39
108_N	175_H	0.622	0.39
102_V	220_R	0.621	0.39
67_G	86_F	0.619	0.39
235_Y	275_E	0.619	0.39
235_Y	290_S	0.617	0.39
155_F	201_F	0.617	0.39
29_A	49_L	0.617	0.39
95_V	107_A	0.616	0.39
284_S	288_A	0.614	0.39
149_R	165_K	0.612	0.38
166_W	258_G	0.612	0.38
18_T	211_D	0.612	0.38
134_F	236_R	0.611	0.38
202_M	205_V	0.610	0.38
139_E	142_I	0.609	0.38
143_H	212_A	0.608	0.38
69_A	268_M	0.607	0.38
167_C	173_L	0.606	0.38
107_A	129_F	0.606	0.38
97_P	104_T	0.606	0.38
167_C	246_V	0.605	0.38
86_F	266_M	0.601	0.37
213_Y	217_V	0.601	0.37
12_L	129_F	0.597	0.37
247_W	255_L	0.597	0.37
158_D	228_R	0.596	0.37
54_V	217_V	0.590	0.36
14_N	25_A	0.590	0.36
50_R	95_V	0.589	0.36
30_E	53_G	0.588	0.36
232_F	235_Y	0.585	0.36
105_S	179_Q	0.585	0.36
20_C	46_S	0.584	0.36
268_M	271_L	0.584	0.36
20_C	57_Q	0.582	0.36
149_R	222_A	0.581	0.36
34_D	276_Y	0.580	0.36
198_C	202_M	0.579	0.36
290_S	296_R	0.578	0.35
20_C	33_E	0.575	0.35
10_Q	14_N	0.574	0.35
105_S	148_A	0.574	0.35
139_E	143_H	0.572	0.35
43_G	60_V	0.572	0.35
292_F	296_R	0.571	0.35
19_I	60_V	0.567	0.34
128_G	186_F	0.566	0.34
38_R	86_F	0.565	0.34
29_A	51_N	0.564	0.34
73_S	123_W	0.564	0.34
151_L	154_P	0.563	0.34
99_N	229_E	0.563	0.34
102_V	221_K	0.562	0.34
94_V	263_S	0.561	0.34
105_S	246_V	0.560	0.34
283_G	291_E	0.560	0.34
179_Q	290_S	0.559	0.34
148_A	205_V	0.559	0.34
163_Y	185_L	0.558	0.34
76_A	252_L	0.558	0.34
34_D	262_E	0.558	0.34
207_K	211_D	0.557	0.34
25_A	218_E	0.557	0.34
109_V	202_M	0.556	0.34
231_N	235_Y	0.556	0.34
34_D	46_S	0.555	0.33
265_L	268_M	0.555	0.33
84_R	113_I	0.554	0.33
57_Q	268_M	0.553	0.33
142_I	296_R	0.552	0.33
108_N	251_T	0.550	0.33
69_A	73_S	0.550	0.33
50_R	58_A	0.549	0.33
49_L	52_G	0.549	0.33
86_F	187_F	0.548	0.33
151_L	161_P	0.548	0.33
279_Q	290_S	0.546	0.33
233_Q	236_R	0.546	0.33
161_P	211_D	0.544	0.32
283_G	288_A	0.544	0.32
256_Q	259_G	0.539	0.32
40_A	68_E	0.538	0.32
152_C	190_L	0.538	0.32
18_T	25_A	0.536	0.32
31_F	166_W	0.535	0.32
14_N	21_Q	0.535	0.32
241_V	265_L	0.535	0.32
234_L	275_E	0.534	0.32
102_V	137_F	0.534	0.32
235_Y	278_Y	0.533	0.32
229_E	286_E	0.532	0.31
51_N	216_I	0.531	0.31
87_E	115_E	0.531	0.31
61_N	152_C	0.531	0.31
16_Q	46_S	0.530	0.31
245_L	267_S	0.530	0.31
174_K	246_V	0.530	0.31
22_Q	26_V	0.528	0.31
86_F	257_T	0.528	0.31
134_F	232_F	0.526	0.31
279_Q	294_K	0.525	0.31
280_P	284_S	0.523	0.31
137_F	212_A	0.522	0.31
72_A	257_T	0.522	0.31
134_F	179_Q	0.521	0.31
90_G	241_V	0.521	0.31
70_M	87_E	0.520	0.30
173_L	290_S	0.520	0.30
151_L	201_F	0.519	0.30
74_A	109_V	0.519	0.30
288_A	291_E	0.518	0.30
271_L	275_E	0.517	0.30
281_K	296_R	0.517	0.30
8_V	195_F	0.516	0.30
132_T	173_L	0.516	0.30
251_T	265_L	0.514	0.30
153_L	208_G	0.513	0.30
111_F	252_L	0.511	0.30
294_K	297_D	0.511	0.30
199_F	206_G	0.511	0.30
41_G	66_H	0.509	0.30
15_L	203_Q	0.509	0.30
23_L	26_V	0.509	0.30
93_L	209_Y	0.505	0.29
43_G	277_D	0.505	0.29
240_Y	250_G	0.505	0.29
111_F	123_W	0.504	0.29
30_E	149_R	0.503	0.29
219_R	223_M	0.503	0.29
111_F	195_F	0.502	0.29
78_R	166_W	0.501	0.29
159_V	201_F	0.500	0.29
147_T	211_D	0.500	0.29

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
1txnA	2	0.8094	100	0.011	Contact Map
1vjuA	1	0.9699	100	0.018	Contact Map
2aexA	2	1	100	0.02	Contact Map
1xg4A	4	0.5017	32.1	0.977	Contact Map
3b8iA	4	0.4916	23.1	0.978	Contact Map
1zlpA	4	0.5084	22	0.979	Contact Map
2z15A	1	0.3311	21.9	0.979	Contact Map
3eooA	4	0.5151	19.2	0.979	Contact Map
2bpoA	1	0.796	13.4	0.981	Contact Map
2gibA	3	0.3211	9.8	0.982	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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