YUGP - BACSU - GREMLIN Contacts

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YUGP - Putative membrane protease YugP

UniProt:	O05248	Sequences: MLFIFLTIAALGLSFWAQFKVKSNFEKYSKVEASSGRTGAETARRILDINGLYDVPVEPVRGTLTDHYDPTRRVVRLSEPVYYGRSISAISVASHEVGHALQHQESYGALVLRHKIFPVVNFASGVAPLLFLGGMLLGSLNLIGLGIILFSAAVFFQLITLPVEFNASSRAKQIIVSEGFIRNNEENGVNKVLSAAALTYVAAALVSLFELLRFVMIFLNGRDEN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	225 (217)
Sequences:	1176 (821)
Seq/√Len:	55.7

BACSU - YUGP

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
58_E	76_R	5.009	1.00
59_P	79_E	4.003	1.00
44_R	48_D	3.892	1.00
48_D	52_L	3.380	1.00
166_N	169_S	3.253	1.00
73_R	103_H	2.773	1.00
69_D	72_R	2.568	1.00
144_G	218_F	2.435	1.00
59_P	83_Y	2.311	1.00
172_K	189_V	2.268	1.00
75_V	97_V	2.217	1.00
44_R	52_L	2.207	1.00
181_I	189_V	2.166	1.00
172_K	190_N	2.098	1.00
147_I	218_F	2.061	1.00
80_P	84_G	2.024	1.00
16_W	20_K	1.981	1.00
69_D	76_R	1.978	1.00
123_A	152_A	1.978	1.00
147_I	215_V	1.917	1.00
67_H	76_R	1.880	1.00
154_V	208_L	1.871	1.00
42_T	90_I	1.869	0.99
94_S	175_I	1.857	0.99
40_A	44_R	1.827	0.99
46_I	174_I	1.814	0.99
103_H	111_V	1.807	0.99
143_I	218_F	1.747	0.99
33_A	90_I	1.720	0.99
45_R	49_I	1.680	0.99
132_L	136_L	1.678	0.99
165_F	201_V	1.646	0.99
120_V	123_A	1.633	0.99
54_D	73_R	1.627	0.99
129_L	133_G	1.624	0.99
75_V	100_A	1.620	0.99
46_I	97_V	1.615	0.99
57_V	75_V	1.581	0.98
54_D	103_H	1.580	0.98
50_N	174_I	1.578	0.98
117_F	121_N	1.577	0.98
63_T	80_P	1.546	0.98
12_G	16_W	1.541	0.98
58_E	74_V	1.539	0.98
127_A	131_F	1.516	0.98
147_I	211_L	1.494	0.97
190_N	194_S	1.486	0.97
154_V	207_S	1.484	0.97
116_I	159_I	1.483	0.97
165_F	198_L	1.474	0.97
143_I	147_I	1.463	0.97
154_V	204_A	1.459	0.97
20_K	194_S	1.454	0.97
22_K	26_E	1.450	0.97
106_S	111_V	1.449	0.97
73_R	110_L	1.440	0.97
25_F	92_V	1.427	0.97
46_I	94_S	1.427	0.97
112_L	115_K	1.400	0.96
10_A	209_F	1.400	0.96
154_V	211_L	1.400	0.96
48_D	53_Y	1.397	0.96
17_A	21_V	1.376	0.96
135_M	143_I	1.373	0.96
133_G	137_L	1.370	0.96
62_G	65_T	1.370	0.96
68_Y	73_R	1.356	0.96
25_F	81_V	1.352	0.95
8_I	12_G	1.348	0.95
111_V	115_K	1.325	0.95
181_I	186_E	1.311	0.95
119_V	152_A	1.300	0.94
34_S	184_N	1.290	0.94
22_K	63_T	1.279	0.94
65_T	80_P	1.279	0.94
103_H	110_L	1.279	0.94
84_G	89_A	1.271	0.94
13_L	209_F	1.270	0.94
56_P	74_V	1.264	0.94
133_G	136_L	1.253	0.93
79_E	83_Y	1.249	0.93
101_L	174_I	1.246	0.93
34_S	182_R	1.246	0.93
6_L	10_A	1.240	0.93
72_R	76_R	1.238	0.93
122_F	126_V	1.230	0.93
120_V	153_A	1.230	0.93
39_G	43_A	1.224	0.92
60_V	65_T	1.209	0.92
176_V	186_E	1.192	0.91
25_F	88_S	1.180	0.91
37_R	42_T	1.161	0.90
204_A	207_S	1.159	0.90
107_Y	170_R	1.137	0.89
69_D	74_V	1.133	0.89
150_F	153_A	1.131	0.89
58_E	69_D	1.131	0.89
42_T	94_S	1.121	0.89
148_I	151_S	1.107	0.88
158_L	204_A	1.103	0.88
169_S	173_Q	1.100	0.88
60_V	67_H	1.088	0.87
25_F	80_P	1.086	0.87
56_P	76_R	1.086	0.87
60_V	63_T	1.080	0.87
101_L	105_E	1.073	0.86
38_T	85_R	1.073	0.86
68_Y	103_H	1.067	0.86
134_G	146_G	1.059	0.86
57_V	94_S	1.055	0.85
158_L	208_L	1.051	0.85
52_L	104_Q	1.047	0.85
39_G	90_I	1.046	0.85
61_R	79_E	1.043	0.85
108_G	112_L	1.030	0.84
100_A	110_L	1.020	0.83
60_V	79_E	1.012	0.83
41_E	44_R	1.005	0.82
116_I	120_V	0.969	0.80
15_F	18_Q	0.956	0.79
213_R	217_I	0.953	0.79
130_L	149_L	0.946	0.78
9_A	12_G	0.942	0.78
210_E	214_F	0.941	0.78
80_P	92_V	0.941	0.78
55_V	104_Q	0.923	0.77
56_P	72_R	0.916	0.76
9_A	13_L	0.915	0.76
52_L	55_V	0.905	0.75
58_E	67_H	0.903	0.75
15_F	19_F	0.902	0.75
79_E	84_G	0.902	0.75
178_E	181_I	0.891	0.74
50_N	101_L	0.888	0.74
175_I	186_E	0.885	0.74
64_L	88_S	0.882	0.73
131_F	218_F	0.881	0.73
145_L	148_I	0.874	0.73
137_L	214_F	0.871	0.72
9_A	16_W	0.870	0.72
33_A	85_R	0.863	0.72
127_A	146_G	0.850	0.71
194_S	198_L	0.847	0.70
92_V	196_A	0.841	0.70
8_I	11_L	0.838	0.69
144_G	148_I	0.837	0.69
87_I	120_V	0.835	0.69
114_H	153_A	0.832	0.69
4_I	7_T	0.829	0.69
42_T	180_F	0.826	0.68
144_G	147_I	0.825	0.68
10_A	13_L	0.821	0.68
24_N	191_K	0.819	0.68
215_V	218_F	0.817	0.68
60_V	76_R	0.813	0.67
206_V	213_R	0.807	0.67
176_V	183_N	0.807	0.67
91_S	189_V	0.806	0.66
109_A	112_L	0.802	0.66
18_Q	22_K	0.799	0.66
150_F	210_E	0.797	0.66
187_N	190_N	0.796	0.65
52_L	73_R	0.796	0.65
37_R	45_R	0.787	0.65
117_F	120_V	0.784	0.64
123_A	153_A	0.780	0.64
141_N	145_L	0.776	0.63
151_S	155_F	0.776	0.63
57_V	97_V	0.776	0.63
97_V	101_L	0.774	0.63
172_K	186_E	0.772	0.63
14_S	206_V	0.771	0.63
103_H	114_H	0.764	0.62
25_F	196_A	0.764	0.62
129_L	136_L	0.751	0.61
116_I	155_F	0.747	0.61
24_N	92_V	0.745	0.60
172_K	176_V	0.744	0.60
14_S	203_A	0.744	0.60
97_V	206_V	0.743	0.60
45_R	180_F	0.739	0.60
10_A	14_S	0.739	0.60
25_F	29_S	0.738	0.60
16_W	198_L	0.735	0.59
155_F	158_L	0.734	0.59
101_L	104_Q	0.729	0.59
49_I	178_E	0.728	0.59
215_V	219_L	0.724	0.58
176_V	190_N	0.723	0.58
173_Q	177_S	0.723	0.58
13_L	16_W	0.722	0.58
88_S	190_N	0.722	0.58
72_R	75_V	0.721	0.58
116_I	153_A	0.720	0.58
35_S	45_R	0.719	0.58
68_Y	110_L	0.716	0.57
133_G	142_L	0.714	0.57
27_K	148_I	0.713	0.57
70_P	82_Y	0.711	0.57
118_P	156_F	0.706	0.56
13_L	205_L	0.706	0.56
165_F	185_E	0.701	0.56
119_V	141_N	0.700	0.56
21_V	165_F	0.698	0.55
176_V	181_I	0.697	0.55
52_L	100_A	0.695	0.55
131_F	206_V	0.694	0.55
14_S	25_F	0.694	0.55
130_L	153_A	0.689	0.54
191_K	195_A	0.687	0.54
214_F	219_L	0.686	0.54
124_S	134_G	0.682	0.54
119_V	136_L	0.681	0.54
146_G	150_F	0.678	0.53
174_I	178_E	0.677	0.53
45_R	178_E	0.674	0.53
176_V	179_G	0.673	0.53
50_N	91_S	0.666	0.52
137_L	146_G	0.666	0.52
175_I	178_E	0.664	0.52
204_A	208_L	0.661	0.51
29_S	89_A	0.661	0.51
6_L	9_A	0.656	0.51
212_L	215_V	0.652	0.50
9_A	18_Q	0.648	0.50
126_V	129_L	0.647	0.50
154_V	157_Q	0.643	0.49
117_F	204_A	0.637	0.49
112_L	116_I	0.637	0.49
203_A	207_S	0.636	0.49
64_L	78_S	0.631	0.48
49_I	177_S	0.631	0.48
11_L	15_F	0.631	0.48
14_S	18_Q	0.627	0.48
157_Q	210_E	0.626	0.48
198_L	201_V	0.626	0.48
40_A	82_Y	0.623	0.47
38_T	41_E	0.622	0.47
42_T	46_I	0.620	0.47
63_T	79_E	0.618	0.47
42_T	97_V	0.614	0.46
175_I	181_I	0.614	0.46
7_T	213_R	0.613	0.46
216_M	219_L	0.613	0.46
131_F	143_I	0.611	0.46
80_P	83_Y	0.611	0.46
214_F	218_F	0.609	0.46
110_L	114_H	0.608	0.46
59_P	101_L	0.605	0.45
100_A	104_Q	0.605	0.45
132_L	143_I	0.603	0.45
71_T	115_K	0.603	0.45
26_E	30_K	0.600	0.45
131_F	146_G	0.599	0.45
109_A	166_N	0.593	0.44
71_T	119_V	0.589	0.44
94_S	97_V	0.589	0.44
125_G	151_S	0.589	0.44
108_G	115_K	0.588	0.44
32_E	36_G	0.588	0.44
21_V	25_F	0.587	0.43
7_T	129_L	0.587	0.43
47_L	100_A	0.584	0.43
90_I	180_F	0.581	0.43
20_K	23_S	0.580	0.43
138_G	145_L	0.575	0.42
145_L	149_L	0.573	0.42
112_L	159_I	0.572	0.42
117_F	180_F	0.571	0.42
109_A	170_R	0.570	0.42
154_V	214_F	0.569	0.42
130_L	207_S	0.566	0.41
91_S	192_V	0.564	0.41
19_F	26_E	0.564	0.41
142_L	145_L	0.561	0.41
9_A	209_F	0.559	0.40
58_E	72_R	0.557	0.40
112_L	155_F	0.557	0.40
151_S	154_V	0.556	0.40
4_I	8_I	0.554	0.40
46_I	204_A	0.554	0.40
130_L	145_L	0.554	0.40
128_P	214_F	0.552	0.40
120_V	127_A	0.550	0.40
35_S	182_R	0.549	0.39
91_S	109_A	0.549	0.39
105_E	109_A	0.544	0.39
16_W	158_L	0.544	0.39
166_N	173_Q	0.542	0.39
60_V	69_D	0.541	0.39
186_E	190_N	0.539	0.38
75_V	91_S	0.538	0.38
25_F	64_L	0.537	0.38
176_V	189_V	0.536	0.38
17_A	202_A	0.536	0.38
150_F	201_V	0.536	0.38
114_H	159_I	0.535	0.38
28_Y	190_N	0.535	0.38
110_L	159_I	0.535	0.38
26_E	172_K	0.534	0.38
75_V	117_F	0.532	0.38
127_A	153_A	0.529	0.37
169_S	194_S	0.528	0.37
97_V	174_I	0.527	0.37
7_T	127_A	0.526	0.37
137_L	142_L	0.525	0.37
55_V	75_V	0.525	0.37
7_T	11_L	0.524	0.37
59_P	80_P	0.524	0.37
140_L	143_I	0.523	0.37
20_K	24_N	0.522	0.37
109_A	116_I	0.522	0.37
165_F	169_S	0.517	0.36
14_S	213_R	0.512	0.36
41_E	45_R	0.510	0.35
157_Q	203_A	0.510	0.35
15_F	145_L	0.510	0.35
91_S	186_E	0.509	0.35
120_V	157_Q	0.509	0.35
105_E	108_G	0.508	0.35
132_L	141_N	0.506	0.35
82_Y	103_H	0.506	0.35
26_E	148_I	0.505	0.35
152_A	217_I	0.504	0.35
172_K	194_S	0.503	0.35
151_S	211_L	0.500	0.34

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
4aw6A	2	0.8933	95.5	0.93	Contact Map
4il3A	1	0.8844	94.8	0.933	Contact Map
3cqbA	4	0.44	54	0.958	Contact Map
3c37A	1	0.8356	43.9	0.961	Contact Map
4jixA	2	0.4356	33.4	0.963	Contact Map
1hv5A	2	0.5733	25.6	0.965	Contact Map
1c7kA	1	0.5644	19.7	0.967	Contact Map
4jiuA	1	0.4267	17.6	0.968	Contact Map
1cgeA	1	0.5689	17	0.968	Contact Map
4xctA	1	0.5556	14.3	0.969	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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