SCP2 - BACSU - GREMLIN Contacts

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SCP2 - Stress response protein SCP2

UniProt:	P81100	Sequences: MAISLEKGQRIDLTKGKAGLSKLMVGLGWDPVSSGGGFFSKLLGGGGPNIDCDASVLMLENGKFTDKKNLIYFGNLKSRCGGVQHTGDNLTGDGAGDDEQIMIDLDKVPGNIDKLVFVVNIYDCVRRKQDFGMIQNAFIRVVDQSNHEEMLKYNLRDNYAGRTSLITAEIYRSGSEWKFAAVGEGTNDTRLEDIISRYV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	199 (178)
Sequences:	2739 (1465)
Seq/√Len:	109.8

BACSU - SCP2 YCEE G16U

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
56_V	115_L	5.461	1.00
60_E	113_D	3.574	1.00
168_A	179_F	3.507	1.00
65_T	69_N	3.368	1.00
188_D	193_D	3.307	1.00
149_E	152_K	3.234	1.00
104_D	107_K	3.048	1.00
58_M	83_V	2.955	1.00
171_Y	178_K	2.852	1.00
28_G	138_F	2.716	1.00
114_K	169_E	2.610	1.00
77_K	84_Q	2.573	1.00
10_R	180_A	2.530	1.00
58_M	112_I	2.486	1.00
24_M	100_Q	2.397	1.00
69_N	79_R	2.316	1.00
30_D	136_N	2.307	1.00
192_E	196_S	2.211	1.00
3_I	11_I	2.139	1.00
86_T	102_M	2.107	1.00
140_R	149_E	2.040	1.00
118_V	194_I	2.030	1.00
173_S	178_K	2.021	1.00
21_S	106_D	1.903	1.00
22_K	104_D	1.875	1.00
86_T	100_Q	1.823	1.00
108_V	115_L	1.770	1.00
143_D	148_E	1.746	1.00
139_I	168_A	1.735	1.00
56_V	101_I	1.716	1.00
10_R	178_K	1.701	1.00
103_I	117_F	1.651	1.00
21_S	145_S	1.630	1.00
80_C	109_P	1.597	1.00
73_F	122_Y	1.566	1.00
59_L	116_V	1.542	1.00
55_S	118_V	1.515	1.00
84_Q	102_M	1.463	1.00
116_V	169_E	1.433	1.00
26_G	97_D	1.417	1.00
143_D	146_N	1.417	1.00
55_S	120_N	1.415	1.00
57_L	64_F	1.398	1.00
169_E	180_A	1.395	1.00
82_G	108_V	1.394	1.00
153_Y	183_G	1.349	1.00
20_L	23_L	1.331	1.00
97_D	140_R	1.330	1.00
51_D	99_E	1.329	1.00
89_N	98_D	1.323	0.99
24_M	144_Q	1.317	0.99
171_Y	180_A	1.302	0.99
58_M	108_V	1.290	0.99
6_E	9_Q	1.278	0.99
33_S	135_Q	1.250	0.99
56_V	117_F	1.247	0.99
117_F	170_I	1.231	0.99
52_C	134_I	1.223	0.99
51_D	88_D	1.220	0.99
65_T	111_N	1.215	0.99
25_V	117_F	1.213	0.99
161_G	187_N	1.196	0.99
22_K	144_Q	1.182	0.99
62_G	114_K	1.175	0.99
164_S	186_T	1.170	0.99
78_S	82_G	1.165	0.99
88_D	92_G	1.143	0.99
23_L	170_I	1.138	0.98
14_T	17_K	1.124	0.98
12_D	16_G	1.111	0.98
58_M	69_N	1.098	0.98
59_L	114_K	1.080	0.98
190_R	193_D	1.073	0.98
25_V	141_V	1.070	0.98
103_I	170_I	1.062	0.98
66_D	69_N	1.062	0.98
24_M	142_V	1.059	0.98
22_K	106_D	1.048	0.97
88_D	99_E	1.046	0.97
139_I	179_F	1.029	0.97
58_M	115_L	1.022	0.97
138_F	152_K	1.016	0.97
62_G	113_D	1.015	0.97
69_N	78_S	1.012	0.97
102_M	144_Q	1.009	0.97
71_I	78_S	1.006	0.97
24_M	102_M	0.999	0.97
25_V	103_I	0.982	0.96
51_D	85_H	0.950	0.95
74_G	122_Y	0.941	0.95
87_G	94_G	0.939	0.95
73_F	120_N	0.938	0.95
57_L	120_N	0.933	0.95
173_S	176_E	0.929	0.95
12_D	15_K	0.914	0.94
67_K	70_L	0.913	0.94
142_V	149_E	0.907	0.94
87_G	101_I	0.903	0.94
65_T	112_I	0.901	0.94
130_D	133_M	0.888	0.93
91_T	94_G	0.885	0.93
186_T	193_D	0.885	0.93
58_M	78_S	0.873	0.93
58_M	65_T	0.856	0.92
174_G	178_K	0.850	0.92
50_I	134_I	0.850	0.92
89_N	94_G	0.848	0.92
11_I	151_L	0.846	0.92
10_R	171_Y	0.843	0.91
192_E	195_I	0.841	0.91
7_K	15_K	0.831	0.91
52_C	99_E	0.826	0.91
26_G	140_R	0.822	0.90
28_G	140_R	0.819	0.90
191_L	195_I	0.818	0.90
3_I	12_D	0.809	0.90
12_D	17_K	0.799	0.89
21_S	104_D	0.791	0.89
22_K	102_M	0.786	0.88
166_I	169_E	0.780	0.88
9_Q	161_G	0.773	0.88
51_D	92_G	0.767	0.87
70_L	75_N	0.760	0.87
162_R	184_E	0.759	0.87
172_R	177_W	0.756	0.86
31_P	93_D	0.755	0.86
162_R	186_T	0.753	0.86
55_S	73_F	0.748	0.86
74_G	191_L	0.747	0.86
87_G	99_E	0.746	0.86
90_L	123_D	0.742	0.85
119_V	139_I	0.739	0.85
120_N	186_T	0.737	0.85
69_N	80_C	0.734	0.85
138_F	142_V	0.733	0.85
8_G	178_K	0.732	0.85
32_V	50_I	0.731	0.84
20_L	143_D	0.729	0.84
113_D	172_R	0.728	0.84
137_A	155_L	0.727	0.84
108_V	112_I	0.727	0.84
23_L	105_L	0.720	0.84
113_D	175_S	0.717	0.83
119_V	167_T	0.713	0.83
108_V	172_R	0.709	0.83
128_K	131_F	0.703	0.82
193_D	196_S	0.691	0.81
120_N	193_D	0.690	0.81
169_E	182_V	0.687	0.81
53_D	73_F	0.686	0.81
76_L	85_H	0.684	0.80
75_N	78_S	0.682	0.80
58_M	82_G	0.681	0.80
164_S	188_D	0.679	0.80
29_W	99_E	0.677	0.80
69_N	109_P	0.677	0.80
30_D	135_Q	0.675	0.79
54_A	119_V	0.674	0.79
58_M	80_C	0.672	0.79
10_R	173_S	0.672	0.79
77_K	107_K	0.670	0.79
29_W	51_D	0.670	0.79
108_V	177_W	0.668	0.79
57_L	67_K	0.667	0.79
4_S	11_I	0.666	0.79
8_G	185_G	0.665	0.78
28_G	152_K	0.661	0.78
85_H	99_E	0.660	0.78
118_V	195_I	0.660	0.78
188_D	194_I	0.658	0.78
153_Y	181_A	0.653	0.77
91_T	95_A	0.652	0.77
9_Q	180_A	0.652	0.77
8_G	181_A	0.651	0.77
118_V	188_D	0.650	0.77
131_F	134_I	0.649	0.77
93_D	96_G	0.646	0.76
64_F	195_I	0.644	0.76
89_N	95_A	0.643	0.76
99_E	121_I	0.642	0.76
5_L	99_E	0.639	0.76
3_I	6_E	0.637	0.75
25_V	101_I	0.633	0.75
64_F	70_L	0.631	0.75
20_L	150_M	0.629	0.75
12_D	176_E	0.628	0.74
28_G	149_E	0.623	0.74
59_L	169_E	0.620	0.73
157_D	160_A	0.619	0.73
10_R	184_E	0.618	0.73
92_G	98_D	0.617	0.73
165_L	188_D	0.612	0.72
129_Q	133_M	0.612	0.72
114_K	171_Y	0.612	0.72
169_E	185_G	0.611	0.72
166_I	186_T	0.611	0.72
170_I	179_F	0.610	0.72
162_R	185_G	0.606	0.72
105_L	177_W	0.606	0.72
127_R	131_F	0.604	0.72
14_T	176_E	0.601	0.71
71_I	83_V	0.600	0.71
84_Q	104_D	0.597	0.71
22_K	145_S	0.597	0.71
30_D	91_T	0.597	0.71
65_T	79_R	0.591	0.70
129_Q	134_I	0.587	0.69
27_L	54_A	0.587	0.69
30_D	96_G	0.586	0.69
142_V	150_M	0.585	0.69
28_G	97_D	0.584	0.69
30_D	93_D	0.582	0.69
30_D	94_G	0.578	0.68
70_L	191_L	0.574	0.68
53_D	88_D	0.574	0.68
88_D	98_D	0.573	0.68
75_N	79_R	0.570	0.67
166_I	194_I	0.569	0.67
159_Y	165_L	0.564	0.66
22_K	148_E	0.562	0.66
29_W	88_D	0.562	0.66
116_V	166_I	0.559	0.66
97_D	138_F	0.558	0.65
27_L	121_I	0.558	0.65
117_F	139_I	0.554	0.65
86_T	141_V	0.554	0.65
100_Q	142_V	0.553	0.65
49_N	90_L	0.549	0.64
155_L	167_T	0.549	0.64
89_N	92_G	0.548	0.64
159_Y	162_R	0.548	0.64
75_N	122_Y	0.547	0.64
14_T	18_A	0.546	0.64
72_Y	75_N	0.546	0.64
52_C	88_D	0.546	0.64
7_K	131_F	0.544	0.64
5_L	88_D	0.541	0.63
143_D	150_M	0.539	0.63
141_V	168_A	0.536	0.62
72_Y	191_L	0.536	0.62
25_V	179_F	0.534	0.62
92_G	99_E	0.533	0.62
30_D	98_D	0.533	0.62
76_L	96_G	0.531	0.62
7_K	27_L	0.530	0.62
5_L	9_Q	0.528	0.61
64_F	116_V	0.528	0.61
31_P	135_Q	0.527	0.61
186_T	195_I	0.526	0.61
92_G	97_D	0.526	0.61
57_L	70_L	0.521	0.60
120_N	194_I	0.521	0.60
102_M	142_V	0.521	0.60
59_L	64_F	0.521	0.60
14_T	19_G	0.518	0.60
55_S	85_H	0.518	0.60
34_S	47_G	0.517	0.60
83_V	117_F	0.515	0.59
48_P	128_K	0.513	0.59
89_N	93_D	0.513	0.59
50_I	129_Q	0.512	0.59
8_G	171_Y	0.507	0.58
105_L	172_R	0.507	0.58
114_K	166_I	0.503	0.58
112_I	145_S	0.502	0.57
131_F	137_A	0.501	0.57
61_N	64_F	0.500	0.57

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
2kxtA	1	0.8492	100	0.051	Contact Map
3ibzA	1	0.8693	100	0.052	Contact Map
2qngA	1	0.8342	100	0.119	Contact Map
2qz7A	1	0.8241	100	0.127	Contact Map
4pj0O	1	0.3719	12.9	0.949	Contact Map
3wu2O	1	0.3719	12.4	0.949	Contact Map
2pe4A	1	0.8794	10.2	0.951	Contact Map
2bm3A	1	0.4724	4.4	0.959	Contact Map
2ciuA	1	0.4975	3.6	0.96	Contact Map
3kcpB	1	0.4623	3.5	0.961	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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