HYFC - ECOLI - GREMLIN Contacts

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HYFC - Hydrogenase-4 component C

UniProt:	P77858	Sequences: MRQTLCDGYLVIFALAQAVILLMLTPLFTGISRQIRARMHSRRGPGIWQDYRDIHKLFKRQEVAPTSSGLMFRLMPWVLISSMLVLAMALPLFITVSPFAGGGDLITLIYLLALFRFFFALSGLDTGSPFAGVGASRELTLGILVEPMLILSLLVLALIAGSTHIEMISNTLAMGWNSPLTTVLALLACGFACFIEMGKIPFDVAEAEQELQEGPLTEYSGAGLALAKWGLGLKQVVMASLFVALFLPFGRAQELSLACLLTSLVVTLLKVLLIFVLASIAENTLARGRFLLIHHVTWLGFSLAALAWVFWLTGL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG14211
Length:	315 (294)
Sequences:	5427 (2609)
Seq/√Len:	152.1

ECOLI - HYFC HYCD NUOH
HALSA - Q9HRL8
SULSO - Q980H2 Q97ZA4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
162_S	167_M	4.792	1.00
186_L	242_F	4.163	1.00
36_R	283_N	3.792	1.00
190_G	277_L	3.695	1.00
29_T	50_D	3.631	1.00
240_S	267_T	3.596	1.00
39_M	283_N	3.388	1.00
243_V	267_T	2.941	1.00
240_S	271_V	2.782	1.00
131_A	217_T	2.768	1.00
51_Y	54_I	2.551	1.00
247_L	274_I	2.500	1.00
167_M	170_N	2.452	1.00
189_C	242_F	2.434	1.00
194_F	281_A	2.415	1.00
62_E	223_G	2.373	1.00
83_M	234_K	2.266	1.00
171_T	177_N	2.256	1.00
197_M	278_A	2.246	1.00
160_A	177_N	2.235	1.00
179_P	247_L	2.224	1.00
179_P	186_L	2.170	1.00
239_A	274_I	2.155	1.00
236_V	275_F	2.135	1.00
83_M	233_L	2.123	1.00
213_E	216_L	2.116	1.00
71_M	121_L	2.098	1.00
109_I	150_I	2.058	1.00
79_L	118_F	2.045	1.00
21_L	233_L	2.035	1.00
262_T	266_V	2.011	1.00
170_N	173_A	1.994	1.00
158_L	313_T	1.964	1.00
86_L	237_V	1.925	1.00
190_G	194_F	1.912	1.00
123_G	135_A	1.904	1.00
193_C	238_M	1.896	1.00
58_F	225_A	1.857	1.00
252_A	266_V	1.855	1.00
191_F	301_F	1.855	1.00
185_A	246_F	1.852	1.00
85_V	107_T	1.794	1.00
79_L	230_G	1.793	1.00
35_I	276_V	1.773	1.00
273_L	277_L	1.758	1.00
28_F	275_F	1.750	1.00
25_T	233_L	1.736	1.00
56_K	60_R	1.732	1.00
155_V	185_A	1.707	1.00
31_I	276_V	1.700	1.00
107_T	111_L	1.699	1.00
27_L	50_D	1.647	1.00
164_H	167_M	1.584	1.00
89_A	107_T	1.532	1.00
39_M	280_I	1.528	1.00
38_R	43_R	1.504	1.00
97_S	166_E	1.490	1.00
216_L	224_L	1.486	1.00
138_E	205_A	1.464	1.00
182_T	312_L	1.437	1.00
108_L	112_L	1.432	1.00
176_W	270_K	1.423	1.00
141_L	293_I	1.422	1.00
49_Q	53_D	1.418	1.00
15_L	19_V	1.416	1.00
204_V	293_I	1.412	1.00
193_C	242_F	1.411	1.00
252_A	261_L	1.404	1.00
207_A	211_L	1.393	1.00
35_I	279_S	1.386	1.00
149_L	192_A	1.386	1.00
204_V	288_G	1.375	1.00
224_L	228_K	1.367	1.00
148_M	192_A	1.358	1.00
185_A	308_W	1.340	1.00
156_L	168_I	1.338	1.00
25_T	229_W	1.335	1.00
207_A	210_E	1.324	1.00
153_L	245_L	1.321	1.00
101_G	107_T	1.315	1.00
160_A	171_T	1.311	1.00
72_F	76_P	1.304	1.00
166_E	170_N	1.298	1.00
159_I	182_T	1.296	1.00
19_V	22_L	1.292	1.00
35_I	39_M	1.291	1.00
151_L	309_V	1.284	1.00
242_F	274_I	1.283	1.00
195_I	202_F	1.274	1.00
148_M	305_A	1.268	1.00
88_M	107_T	1.259	1.00
34_Q	38_R	1.259	1.00
183_V	187_L	1.258	1.00
160_A	168_I	1.258	1.00
175_G	180_L	1.254	1.00
262_T	265_V	1.251	1.00
120_A	139_L	1.250	1.00
280_I	284_T	1.249	1.00
78_V	82_S	1.245	1.00
235_Q	275_F	1.242	1.00
128_S	131_A	1.230	1.00
23_M	51_Y	1.225	1.00
212_Q	217_T	1.215	1.00
134_G	205_A	1.211	1.00
189_C	238_M	1.208	1.00
296_V	301_F	1.204	1.00
24_L	236_V	1.201	1.00
73_R	223_G	1.197	1.00
87_A	237_V	1.190	1.00
243_V	247_L	1.184	1.00
100_A	166_E	1.167	1.00
167_M	171_T	1.165	1.00
75_M	121_L	1.164	1.00
75_M	122_S	1.163	1.00
30_G	47_I	1.159	1.00
148_M	297_T	1.158	1.00
51_Y	55_H	1.153	1.00
172_L	248_P	1.152	1.00
290_F	294_H	1.132	1.00
276_V	280_I	1.132	1.00
85_V	111_L	1.122	1.00
180_L	183_V	1.121	1.00
100_A	164_H	1.111	0.99
155_V	305_A	1.107	0.99
24_L	272_L	1.103	0.99
235_Q	278_A	1.092	0.99
32_S	282_E	1.091	0.99
55_H	59_K	1.083	0.99
243_V	271_V	1.075	0.99
65_P	72_F	1.069	0.99
261_L	265_V	1.060	0.99
58_F	222_A	1.059	0.99
173_A	251_R	1.056	0.99
204_V	292_L	1.055	0.99
105_L	157_A	1.052	0.99
162_S	168_I	1.041	0.99
183_V	186_L	1.040	0.99
211_L	215_P	1.036	0.99
155_V	309_V	1.036	0.99
240_S	244_A	1.034	0.99
170_N	174_M	1.029	0.99
32_S	199_K	1.027	0.99
31_I	35_I	1.027	0.99
116_R	142_G	1.023	0.99
204_V	211_L	1.020	0.99
188_A	304_A	1.015	0.99
122_S	125_D	1.014	0.99
197_M	238_M	1.004	0.99
247_L	270_K	0.993	0.99
64_A	73_R	0.992	0.99
82_S	111_L	0.991	0.99
31_I	279_S	0.984	0.99
79_L	227_A	0.983	0.99
203_D	287_R	0.976	0.99
27_L	47_I	0.975	0.99
65_P	68_S	0.973	0.99
80_I	84_L	0.968	0.99
274_I	277_L	0.968	0.99
30_G	50_D	0.966	0.99
222_A	225_A	0.961	0.98
34_Q	60_R	0.955	0.98
277_L	281_A	0.954	0.98
29_T	232_G	0.950	0.98
267_T	271_V	0.942	0.98
151_L	306_L	0.942	0.98
186_L	246_F	0.941	0.98
80_I	230_G	0.938	0.98
136_S	205_A	0.937	0.98
75_M	118_F	0.926	0.98
190_G	278_A	0.922	0.98
264_L	268_L	0.921	0.98
89_A	108_L	0.921	0.98
37_A	43_R	0.917	0.98
152_S	188_A	0.913	0.98
75_M	125_D	0.907	0.98
80_I	226_L	0.905	0.98
289_R	294_H	0.903	0.98
122_S	219_Y	0.901	0.98
249_F	270_K	0.899	0.98
308_W	312_L	0.898	0.98
288_G	292_L	0.895	0.98
207_A	287_R	0.893	0.98
187_L	191_F	0.885	0.97
152_S	192_A	0.884	0.97
173_A	177_N	0.880	0.97
155_V	182_T	0.873	0.97
157_A	163_T	0.873	0.97
54_I	58_F	0.873	0.97
109_I	153_L	0.868	0.97
36_R	282_E	0.868	0.97
122_S	227_A	0.867	0.97
148_M	302_S	0.864	0.97
54_I	59_K	0.864	0.97
280_I	285_L	0.862	0.97
40_H	45_P	0.860	0.97
92_L	98_P	0.860	0.97
190_G	242_F	0.858	0.97
117_F	290_F	0.855	0.97
57_L	228_K	0.853	0.97
79_L	115_F	0.852	0.97
200_I	285_L	0.850	0.97
176_W	179_P	0.849	0.97
104_D	164_H	0.848	0.97
73_R	77_W	0.842	0.96
108_L	165_I	0.840	0.96
89_A	104_D	0.839	0.96
124_L	127_G	0.837	0.96
19_V	23_M	0.833	0.96
54_I	229_W	0.832	0.96
12_I	16_A	0.818	0.96
252_A	262_T	0.809	0.96
30_G	38_R	0.809	0.96
169_S	250_G	0.806	0.95
141_L	145_V	0.805	0.95
199_K	203_D	0.804	0.95
189_C	246_F	0.795	0.95
148_M	301_F	0.794	0.95
57_L	225_A	0.793	0.95
22_L	84_L	0.793	0.95
203_D	210_E	0.791	0.95
141_L	198_G	0.786	0.95
261_L	264_L	0.783	0.95
27_L	51_Y	0.779	0.95
189_C	193_C	0.773	0.94
138_E	207_A	0.768	0.94
304_A	308_W	0.767	0.94
101_G	227_A	0.764	0.94
216_L	228_K	0.764	0.94
176_W	249_F	0.764	0.94
48_W	51_Y	0.763	0.94
105_L	165_I	0.762	0.94
152_S	155_V	0.762	0.94
85_V	167_M	0.762	0.94
225_A	229_W	0.762	0.94
97_S	100_A	0.759	0.94
203_D	206_E	0.759	0.94
165_I	241_L	0.758	0.94
83_M	237_V	0.756	0.94
30_G	36_R	0.755	0.94
128_S	278_A	0.754	0.94
169_S	249_F	0.753	0.93
11_V	15_L	0.752	0.93
195_I	293_I	0.743	0.93
105_L	168_I	0.740	0.93
175_G	181_T	0.739	0.93
179_P	183_V	0.736	0.93
33_R	42_R	0.735	0.93
221_G	225_A	0.735	0.93
205_A	215_P	0.728	0.92
68_S	72_F	0.727	0.92
98_P	229_W	0.726	0.92
302_S	305_A	0.724	0.92
182_T	308_W	0.721	0.92
33_R	53_D	0.720	0.92
271_V	275_F	0.720	0.92
248_P	270_K	0.718	0.92
243_V	270_K	0.717	0.92
46_G	52_R	0.717	0.92
155_V	308_W	0.715	0.92
243_V	263_S	0.714	0.92
168_I	245_L	0.713	0.92
101_G	108_L	0.712	0.91
94_I	170_N	0.712	0.91
49_Q	56_K	0.711	0.91
287_R	291_L	0.711	0.91
64_A	69_G	0.711	0.91
210_E	287_R	0.710	0.91
29_T	32_S	0.709	0.91
71_M	75_M	0.708	0.91
196_E	199_K	0.707	0.91
238_M	242_F	0.707	0.91
190_G	274_I	0.706	0.91
53_D	56_K	0.704	0.91
291_L	294_H	0.701	0.91
26_P	54_I	0.699	0.91
64_A	68_S	0.699	0.91
141_L	144_L	0.698	0.91
72_F	219_Y	0.698	0.91
194_F	278_A	0.696	0.91
203_D	211_L	0.694	0.90
184_L	188_A	0.693	0.90
149_L	152_S	0.693	0.90
209_Q	213_E	0.688	0.90
90_L	240_S	0.688	0.90
295_H	299_L	0.687	0.90
26_P	36_R	0.687	0.90
23_M	26_P	0.679	0.89
209_Q	212_Q	0.677	0.89
172_L	249_F	0.674	0.89
144_L	294_H	0.674	0.89
9_Y	13_F	0.673	0.89
152_S	185_A	0.672	0.89
34_Q	47_I	0.670	0.89
81_S	311_W	0.667	0.89
131_A	213_E	0.666	0.89
76_P	219_Y	0.666	0.89
40_H	44_G	0.665	0.88
74_L	77_W	0.664	0.88
200_I	209_Q	0.663	0.88
188_A	191_F	0.660	0.88
9_Y	310_F	0.658	0.88
78_V	81_S	0.658	0.88
82_S	114_L	0.655	0.88
32_S	232_G	0.654	0.88
250_G	270_K	0.653	0.88
149_L	297_T	0.651	0.87
60_R	299_L	0.649	0.87
156_L	245_L	0.644	0.87
36_R	41_S	0.644	0.87
206_E	214_G	0.643	0.87
89_A	191_F	0.643	0.87
126_T	219_Y	0.642	0.87
27_L	30_G	0.640	0.86
24_L	275_F	0.640	0.86
45_P	49_Q	0.637	0.86
145_V	195_I	0.636	0.86
119_F	138_E	0.635	0.86
17_Q	92_L	0.634	0.86
305_A	312_L	0.634	0.86
204_V	207_A	0.634	0.86
89_A	92_L	0.633	0.86
186_L	247_L	0.633	0.86
112_L	115_F	0.629	0.86
267_T	270_K	0.627	0.85
82_S	115_F	0.627	0.85
21_L	25_T	0.625	0.85
65_P	76_P	0.624	0.85
67_S	221_G	0.616	0.84
228_K	282_E	0.614	0.84
263_S	266_V	0.614	0.84
279_S	282_E	0.614	0.84
187_L	309_V	0.614	0.84
150_I	153_L	0.613	0.84
14_A	99_F	0.612	0.84
90_L	98_P	0.610	0.84
17_Q	98_P	0.609	0.84
176_W	248_P	0.609	0.84
22_L	26_P	0.607	0.83
80_I	217_T	0.605	0.83
12_I	186_L	0.605	0.83
37_A	42_R	0.605	0.83
9_Y	12_I	0.604	0.83
243_V	274_I	0.604	0.83
18_A	22_L	0.602	0.83
38_R	279_S	0.598	0.83
79_L	119_F	0.596	0.82
10_L	13_F	0.596	0.82
118_F	121_L	0.594	0.82
171_T	174_M	0.593	0.82
53_D	287_R	0.592	0.82
32_S	36_R	0.592	0.82
242_F	247_L	0.589	0.82
134_G	138_E	0.589	0.82
239_A	243_V	0.589	0.82
94_I	97_S	0.586	0.81
100_A	104_D	0.586	0.81
98_P	103_G	0.584	0.81
92_L	240_S	0.584	0.81
32_S	279_S	0.583	0.81
184_L	308_W	0.582	0.81
40_H	218_E	0.582	0.81
83_M	230_G	0.581	0.81
42_R	214_G	0.580	0.81
180_L	184_L	0.578	0.80
114_L	300_G	0.578	0.80
275_F	279_S	0.578	0.80
134_G	212_Q	0.578	0.80
112_L	234_K	0.577	0.80
119_F	198_G	0.576	0.80
154_L	157_A	0.573	0.80
176_W	180_L	0.572	0.80
105_L	153_L	0.571	0.80
208_E	228_K	0.570	0.79
112_L	242_F	0.569	0.79
33_R	40_H	0.568	0.79
14_A	17_Q	0.567	0.79
38_R	150_I	0.567	0.79
33_R	206_E	0.561	0.78
86_L	234_K	0.561	0.78
26_P	30_G	0.560	0.78
172_L	177_N	0.558	0.78
138_E	211_L	0.554	0.78
213_E	228_K	0.554	0.78
288_G	297_T	0.554	0.78
121_L	125_D	0.552	0.77
105_L	163_T	0.552	0.77
232_G	282_E	0.552	0.77
175_G	272_L	0.550	0.77
55_H	58_F	0.549	0.77
215_P	228_K	0.549	0.77
190_G	280_I	0.549	0.77
126_T	206_E	0.548	0.77
90_L	237_V	0.548	0.77
199_K	232_G	0.547	0.77
155_V	312_L	0.547	0.77
54_I	225_A	0.547	0.77
84_L	233_L	0.545	0.76
269_L	272_L	0.544	0.76
296_V	300_G	0.543	0.76
293_I	298_W	0.542	0.76
252_A	263_S	0.541	0.76
144_L	302_S	0.539	0.76
244_A	249_F	0.537	0.75
118_F	150_I	0.536	0.75
50_D	279_S	0.531	0.75
177_N	181_T	0.531	0.75
142_G	150_I	0.530	0.74
273_L	276_V	0.530	0.74
289_R	292_L	0.530	0.74
171_T	175_G	0.527	0.74
25_T	36_R	0.527	0.74
141_L	195_I	0.526	0.74
137_R	214_G	0.526	0.74
12_I	187_L	0.525	0.74
154_L	309_V	0.523	0.73
168_I	244_A	0.523	0.73
16_A	269_L	0.521	0.73
62_E	72_F	0.518	0.73
204_V	287_R	0.516	0.72
52_R	129_P	0.516	0.72
10_L	16_A	0.515	0.72
109_I	118_F	0.515	0.72
156_L	182_T	0.514	0.72
112_L	142_G	0.513	0.72
79_L	86_L	0.513	0.72
24_L	28_F	0.512	0.72
126_T	131_A	0.512	0.72
33_R	208_E	0.512	0.72
106_I	290_F	0.511	0.72
170_N	251_R	0.508	0.71
14_A	18_A	0.508	0.71
265_V	269_L	0.506	0.71
211_L	216_L	0.506	0.71
183_V	308_W	0.506	0.71
197_M	234_K	0.505	0.71
26_P	50_D	0.505	0.71
293_I	302_S	0.505	0.71
272_L	276_V	0.503	0.71
118_F	135_A	0.502	0.70
13_F	17_Q	0.500	0.70
198_G	234_K	0.500	0.70

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
4he8H	1	0.8159	100	0.069	Contact Map
1q2fA	1	0.0952	16.7	0.964	Contact Map
1qleD	1	0.1365	4	0.973	Contact Map
3dacP	1	0.0413	3.3	0.974	Contact Map
2jpkA	1	0.0984	3.1	0.975	Contact Map
3mp7A	1	0.1587	3	0.975	Contact Map
2yevB	1	0.2063	2.6	0.976	Contact Map
4he8M	1	0.7937	2.4	0.976	Contact Map
1vryA	1	0.1778	2.4	0.976	Contact Map
4c7rA	3	0.2952	2.1	0.977	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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