FUSC-like - PFAM28P - GREMLIN Contacts

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FUSC-like - FUSC-like inner membrane protein yccS

PFAM:	PF12805	Sequences: MLLITLLCFALAALLVGLLFPYPWLLGLLLALLTFLFSMLGVYGQRAASIGFAALLIMVLTMAGPGPGPEALLHALLLLAGGLWYLLLSLLLHPLRPYRPVQQALAECLRALADYLRAKAALYDPDREDDLEALRLALARQQAAVVEALEAARELLLKRRRVKRGQPTGRSRRLLLLFLDAVDLFERALASHYDYELLREAFGHSDVLFRFQRLLRLLADELRALALAILSGRPYQHSPDLEAALEALEAALEELRAQDNPENRELLIALRALLRNLRTIDAQL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	284 (276)
Sequences:	2511 (1786)
Seq/√Len:	107.5
META:	0.634

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
117_R	223_R	5.589	1.00
131_L	134_L	4.367	1.00
131_L	135_R	3.344	1.00
15_L	29_L	3.091	1.00
113_A	223_R	3.060	1.00
210_R	251_A	2.927	1.00
129_D	134_L	2.913	1.00
130_D	135_R	2.843	1.00
35_F	39_M	2.771	1.00
130_D	134_L	2.760	1.00
76_L	80_A	2.723	1.00
113_A	219_A	2.610	1.00
263_N	266_L	2.592	1.00
130_D	133_A	2.554	1.00
263_N	269_A	2.501	1.00
129_D	135_R	2.462	1.00
246_E	250_A	2.319	1.00
24_W	28_L	2.296	1.00
266_L	269_A	2.284	1.00
217_L	244_A	2.223	1.00
166_Q	169_G	2.207	1.00
4_I	8_C	2.111	1.00
249_E	253_E	2.065	1.00
5_T	8_C	2.063	1.00
109_L	112_L	2.031	1.00
104_A	155_L	2.016	1.00
29_L	33_L	2.001	1.00
117_R	220_D	1.973	1.00
269_A	276_N	1.921	1.00
167_P	170_R	1.909	1.00
5_T	9_F	1.904	1.00
261_P	265_E	1.881	1.00
167_P	172_R	1.847	1.00
264_R	267_L	1.812	1.00
83_L	87_L	1.808	1.00
121_A	137_A	1.788	1.00
106_A	226_A	1.752	1.00
272_A	276_N	1.701	1.00
212_Q	216_R	1.690	1.00
268_I	271_R	1.668	1.00
134_L	137_A	1.666	1.00
12_A	33_L	1.653	1.00
272_A	275_R	1.635	1.00
71_A	75_A	1.623	1.00
110_R	226_A	1.604	1.00
169_G	172_R	1.596	1.00
179_L	182_V	1.565	1.00
271_R	275_R	1.551	1.00
263_N	268_I	1.537	1.00
120_A	216_R	1.532	1.00
263_N	267_L	1.515	1.00
268_I	272_A	1.515	1.00
45_Q	48_A	1.502	1.00
265_E	269_A	1.489	1.00
261_P	264_R	1.483	1.00
110_R	230_L	1.477	1.00
19_L	29_L	1.472	1.00
4_I	9_F	1.463	1.00
249_E	278_R	1.443	1.00
153_R	182_V	1.426	1.00
242_E	246_E	1.389	1.00
115_Y	185_F	1.364	1.00
267_L	270_L	1.357	1.00
154_E	158_K	1.355	1.00
199_R	203_G	1.351	1.00
209_F	213_R	1.349	1.00
196_E	200_E	1.343	1.00
273_L	276_N	1.342	1.00
259_D	263_N	1.341	1.00
133_A	136_L	1.336	0.99
85_Y	186_E	1.335	0.99
179_L	183_D	1.330	0.99
109_L	181_A	1.329	0.99
182_V	185_F	1.328	0.99
18_L	71_A	1.325	0.99
111_A	141_Q	1.322	0.99
16_V	26_L	1.319	0.99
267_L	275_R	1.314	0.99
141_Q	144_A	1.312	0.99
52_F	56_L	1.308	0.99
19_L	25_L	1.307	0.99
4_I	10_A	1.304	0.99
3_L	8_C	1.283	0.99
263_N	276_N	1.273	0.99
43_Y	47_A	1.273	0.99
270_L	276_N	1.265	0.99
74_H	115_Y	1.249	0.99
4_I	7_L	1.244	0.99
261_P	269_A	1.232	0.99
266_L	270_L	1.232	0.99
272_A	278_R	1.223	0.99
3_L	6_L	1.219	0.99
265_E	268_I	1.211	0.99
256_R	264_R	1.211	0.99
108_C	112_L	1.199	0.99
111_A	114_D	1.181	0.99
274_L	279_T	1.180	0.99
168_T	171_S	1.176	0.99
114_D	141_Q	1.161	0.99
18_L	21_P	1.147	0.98
107_E	148_A	1.146	0.98
6_L	9_F	1.139	0.98
269_A	278_R	1.138	0.98
264_R	268_I	1.136	0.98
41_G	48_A	1.135	0.98
246_E	249_E	1.129	0.98
13_A	75_A	1.127	0.98
160_R	164_R	1.126	0.98
269_A	279_T	1.120	0.98
26_L	30_L	1.119	0.98
256_R	271_R	1.118	0.98
33_L	37_F	1.117	0.98
22_Y	25_L	1.107	0.98
119_K	138_L	1.105	0.98
125_P	129_D	1.100	0.98
264_R	271_R	1.098	0.98
261_P	271_R	1.098	0.98
213_R	217_L	1.097	0.98
195_Y	202_F	1.091	0.98
127_R	130_D	1.090	0.98
260_N	271_R	1.086	0.98
129_D	133_A	1.086	0.98
262_E	265_E	1.083	0.98
175_L	179_L	1.081	0.98
183_D	186_E	1.079	0.98
256_R	267_L	1.078	0.98
44_G	47_A	1.069	0.98
153_R	194_D	1.067	0.98
10_A	75_A	1.064	0.97
37_F	54_A	1.054	0.97
251_A	255_L	1.052	0.97
265_E	271_R	1.048	0.97
69_P	73_L	1.037	0.97
263_N	270_L	1.025	0.97
118_A	141_Q	1.023	0.97
73_L	76_L	1.015	0.97
191_S	198_L	1.008	0.96
167_P	171_S	1.001	0.96
240_D	243_A	0.999	0.96
10_A	14_L	0.998	0.96
188_A	192_H	0.997	0.96
266_L	272_A	0.994	0.96
7_L	11_L	0.988	0.96
247_A	254_E	0.982	0.96
17_G	75_A	0.980	0.96
265_E	274_L	0.980	0.96
36_L	40_L	0.977	0.96
259_D	265_E	0.975	0.96
111_A	148_A	0.972	0.96
260_N	263_N	0.967	0.96
256_R	259_D	0.966	0.96
259_D	264_R	0.966	0.96
166_Q	170_R	0.965	0.95
218_L	222_L	0.955	0.95
7_L	10_A	0.955	0.95
267_L	271_R	0.945	0.95
48_A	52_F	0.943	0.95
103_Q	230_L	0.942	0.95
251_A	254_E	0.942	0.95
150_E	153_R	0.938	0.95
271_R	278_R	0.929	0.94
111_A	226_A	0.927	0.94
243_A	250_A	0.918	0.94
131_L	137_A	0.912	0.94
128_E	134_L	0.907	0.94
85_Y	94_P	0.896	0.93
17_G	71_A	0.893	0.93
117_R	216_R	0.891	0.93
265_E	276_N	0.888	0.93
254_E	257_A	0.882	0.93
178_F	182_V	0.874	0.92
82_G	221_E	0.874	0.92
261_P	273_L	0.873	0.92
164_R	169_G	0.872	0.92
263_N	274_L	0.864	0.92
272_A	277_L	0.862	0.92
6_L	10_A	0.861	0.92
68_G	71_A	0.860	0.92
62_M	273_L	0.860	0.92
15_L	20_F	0.860	0.92
113_A	117_R	0.858	0.92
250_A	253_E	0.857	0.92
268_I	274_L	0.856	0.92
266_L	278_R	0.854	0.92
68_G	76_L	0.853	0.92
240_D	244_A	0.851	0.91
253_E	275_R	0.851	0.91
206_D	209_F	0.851	0.91
85_Y	119_K	0.851	0.91
266_L	276_N	0.850	0.91
268_I	278_R	0.850	0.91
178_F	185_F	0.847	0.91
227_L	230_L	0.847	0.91
32_L	36_L	0.846	0.91
250_A	254_E	0.846	0.91
5_T	50_I	0.841	0.91
259_D	270_L	0.839	0.91
14_L	18_L	0.837	0.91
200_E	203_G	0.836	0.91
274_L	278_R	0.834	0.91
265_E	273_L	0.834	0.91
267_L	274_L	0.828	0.90
117_R	219_A	0.825	0.90
186_E	202_F	0.824	0.90
267_L	272_A	0.819	0.90
242_E	255_L	0.817	0.90
27_G	30_L	0.814	0.90
263_N	273_L	0.805	0.89
39_M	193_Y	0.798	0.89
202_F	222_L	0.798	0.89
3_L	76_L	0.794	0.88
239_P	244_A	0.793	0.88
51_G	98_Y	0.793	0.88
3_L	7_L	0.790	0.88
238_S	241_L	0.786	0.88
139_A	142_Q	0.786	0.88
269_A	273_L	0.786	0.88
264_R	269_A	0.785	0.88
109_L	179_L	0.782	0.88
13_A	57_I	0.782	0.88
266_L	277_L	0.781	0.87
56_L	74_H	0.781	0.87
54_A	204_H	0.779	0.87
267_L	279_T	0.778	0.87
259_D	273_L	0.776	0.87
266_L	275_R	0.775	0.87
3_L	9_F	0.775	0.87
46_R	85_Y	0.771	0.87
271_R	276_N	0.769	0.87
264_R	273_L	0.768	0.87
256_R	265_E	0.768	0.87
108_C	156_L	0.764	0.86
268_I	275_R	0.764	0.86
191_S	195_Y	0.763	0.86
119_K	186_E	0.763	0.86
77_L	88_L	0.762	0.86
188_A	212_Q	0.759	0.86
243_A	246_E	0.757	0.86
12_A	15_L	0.754	0.86
243_A	247_A	0.753	0.86
14_L	75_A	0.752	0.85
18_L	26_L	0.750	0.85
165_G	169_G	0.747	0.85
198_L	228_A	0.745	0.85
21_P	25_L	0.743	0.85
238_S	242_E	0.741	0.85
244_A	247_A	0.741	0.85
273_L	277_L	0.739	0.84
239_P	243_A	0.737	0.84
263_N	275_R	0.732	0.84
80_A	84_W	0.730	0.84
267_L	278_R	0.730	0.84
90_L	97_P	0.730	0.84
270_L	273_L	0.729	0.84
252_L	267_L	0.728	0.84
190_A	199_R	0.724	0.83
55_L	59_V	0.721	0.83
47_A	51_G	0.716	0.83
85_Y	183_D	0.716	0.83
244_A	254_E	0.714	0.82
119_K	195_Y	0.714	0.82
202_F	207_V	0.714	0.82
174_L	180_D	0.714	0.82
193_Y	197_L	0.712	0.82
273_L	278_R	0.709	0.82
253_E	259_D	0.707	0.82
84_W	88_L	0.706	0.82
251_A	257_A	0.706	0.82
145_V	156_L	0.705	0.82
82_G	86_L	0.704	0.81
19_L	23_P	0.702	0.81
97_P	156_L	0.700	0.81
186_E	190_A	0.699	0.81
84_W	97_P	0.697	0.81
25_L	28_L	0.694	0.81
258_Q	262_E	0.694	0.81
119_K	123_Y	0.692	0.80
119_K	191_S	0.690	0.80
159_R	162_V	0.688	0.80
252_L	271_R	0.688	0.80
258_Q	263_N	0.687	0.80
28_L	32_L	0.686	0.80
57_I	179_L	0.684	0.80
262_E	270_L	0.683	0.80
163_K	166_Q	0.682	0.79
259_D	262_E	0.682	0.79
9_F	13_A	0.679	0.79
265_E	272_A	0.678	0.79
117_R	121_A	0.674	0.79
5_T	86_L	0.672	0.78
72_L	76_L	0.671	0.78
53_A	138_L	0.669	0.78
197_L	200_E	0.669	0.78
11_L	15_L	0.668	0.78
213_R	236_Q	0.664	0.78
54_A	58_M	0.662	0.77
47_A	185_F	0.660	0.77
78_L	115_Y	0.659	0.77
174_L	190_A	0.658	0.77
258_Q	265_E	0.656	0.77
87_L	91_L	0.654	0.77
259_D	275_R	0.654	0.77
179_L	218_L	0.650	0.76
229_I	233_R	0.648	0.76
28_L	31_A	0.647	0.76
77_L	186_E	0.641	0.75
52_F	55_L	0.640	0.75
187_R	192_H	0.637	0.75
108_C	153_R	0.635	0.74
202_F	205_S	0.633	0.74
24_W	37_F	0.632	0.74
93_H	230_L	0.631	0.74
237_H	252_L	0.630	0.74
116_L	119_K	0.630	0.74
18_L	22_Y	0.628	0.74
194_D	197_L	0.619	0.73
12_A	29_L	0.619	0.73
160_R	176_L	0.618	0.72
189_L	192_H	0.617	0.72
61_T	86_L	0.614	0.72
160_R	167_P	0.614	0.72
264_R	279_T	0.613	0.72
101_V	175_L	0.611	0.72
262_E	268_I	0.611	0.72
30_L	208_L	0.610	0.71
14_L	71_A	0.608	0.71
16_V	20_F	0.608	0.71
15_L	31_A	0.607	0.71
64_G	67_P	0.606	0.71
269_A	272_A	0.605	0.71
269_A	275_R	0.603	0.71
64_G	74_H	0.600	0.70
252_L	256_R	0.600	0.70
101_V	159_R	0.599	0.70
262_E	275_R	0.596	0.70
68_G	115_Y	0.596	0.70
248_L	252_L	0.594	0.69
142_Q	182_V	0.593	0.69
257_A	261_P	0.590	0.69
162_V	165_G	0.587	0.69
180_D	192_H	0.585	0.68
61_T	74_H	0.585	0.68
85_Y	93_H	0.584	0.68
122_L	195_Y	0.584	0.68
175_L	178_F	0.581	0.68
195_Y	198_L	0.581	0.68
34_T	42_V	0.580	0.68
234_P	246_E	0.577	0.67
178_F	183_D	0.575	0.67
32_L	106_A	0.575	0.67
174_L	178_F	0.575	0.67
102_Q	232_G	0.573	0.67
220_D	224_A	0.572	0.67
120_A	219_A	0.571	0.66
267_L	276_N	0.570	0.66
17_G	20_F	0.569	0.66
108_C	181_A	0.566	0.66
54_A	57_I	0.565	0.66
34_T	58_M	0.558	0.65
60_L	64_G	0.557	0.65
128_E	132_E	0.556	0.64
152_A	169_G	0.554	0.64
50_I	55_L	0.553	0.64
63_A	66_G	0.553	0.64
89_S	175_L	0.552	0.64
120_A	194_D	0.551	0.64
47_A	50_I	0.549	0.63
147_E	151_A	0.548	0.63
24_W	27_G	0.547	0.63
112_L	149_L	0.546	0.63
201_A	266_L	0.545	0.63
238_S	246_E	0.545	0.63
264_R	275_R	0.545	0.63
114_D	220_D	0.545	0.63
93_H	96_R	0.545	0.63
246_E	254_E	0.544	0.63
256_R	263_N	0.543	0.63
62_M	65_P	0.542	0.62
80_A	256_R	0.542	0.62
23_P	26_L	0.541	0.62
137_A	141_Q	0.541	0.62
12_A	58_M	0.541	0.62
238_S	243_A	0.540	0.62
79_L	82_G	0.538	0.62
47_A	186_E	0.534	0.61
115_Y	187_R	0.531	0.61
209_F	222_L	0.531	0.61
275_R	279_T	0.528	0.60
264_R	272_A	0.528	0.60
197_L	234_P	0.525	0.60
204_H	225_L	0.524	0.60
261_P	278_R	0.523	0.60
259_D	269_A	0.522	0.60
189_L	229_I	0.520	0.59
177_L	181_A	0.518	0.59
185_F	192_H	0.514	0.58
131_L	196_E	0.513	0.58
89_S	228_A	0.513	0.58
170_R	173_R	0.512	0.58
20_F	26_L	0.511	0.58
15_L	36_L	0.511	0.58
89_S	154_E	0.509	0.58
142_Q	178_F	0.508	0.58
50_I	93_H	0.508	0.58
266_L	279_T	0.508	0.58
275_R	278_R	0.507	0.57
83_L	200_E	0.505	0.57
84_W	115_Y	0.505	0.57
183_D	191_S	0.504	0.57
182_V	186_E	0.502	0.57
46_R	99_R	0.502	0.57
157_L	183_D	0.500	0.56
20_F	33_L	0.500	0.56
73_L	77_L	0.500	0.56

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
3wdoA	1	0.5704	57.9	0.926	Contact Map
4ikvA	1	0.3592	31.7	0.937	Contact Map
4xnjA	1	0.3415	28.7	0.938	Contact Map
4ltoA	3	0.4613	28.4	0.939	Contact Map
4tphA	2	0.3345	28	0.939	Contact Map
2cfqA	1	0.3944	27.6	0.939	Contact Map
4jkvA	2	0.3556	26.7	0.939	Contact Map
4m64A	1	0.3944	23.4	0.941	Contact Map
4w6vA	1	0.3627	23	0.941	Contact Map
4cbcA	3	0.3099	17.9	0.944	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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