GVPF1 - HALSA - GREMLIN Contacts

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GVPF1 - Protein GvpF 1

UniProt:	Q9HI21	Sequences: MTENLYTYGIIEQEDLELDVEGVAGAEQVYTVDYKTLSAVVSDIDTTDPERTDEDVEAHNNVLQEVLKHEEERTVVPMSFGMAFKSARTLKGVLRGARRALRSTLNDIEGTVELGVKILGPGDDTVPREEIQENVTDQLADLSINETENDLFTDRLIINKSYLVDFEKRDAFDSAIDDVEAEYDELTIQYTGPWPPYNFVDIHIGAEQQQGGR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	213 (195)
Sequences:	949 (756)
Seq/√Len:	54.1

HALSA - GVPF1 GVPF2 GVPL2 GVPL1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
168_K	171_A	5.360	1.00
40_V	66_V	4.648	1.00
162_Y	172_F	3.942	1.00
111_T	165_D	3.270	1.00
111_T	144_I	3.141	1.00
5_L	87_A	2.971	1.00
97_A	100_A	2.599	1.00
9_G	63_L	2.449	1.00
117_K	159_N	2.422	1.00
30_Y	87_A	2.418	1.00
136_T	162_Y	2.323	1.00
112_V	166_F	2.276	1.00
39_A	90_L	2.272	1.00
36_T	98_R	2.225	1.00
30_Y	43_D	2.216	1.00
88_R	91_K	2.076	1.00
115_G	194_W	2.040	1.00
12_E	106_N	1.964	1.00
107_D	145_N	1.935	1.00
149_N	198_N	1.894	0.99
149_N	161_S	1.883	0.99
118_I	188_I	1.867	0.99
191_T	194_W	1.846	0.99
4_N	46_T	1.845	0.99
35_K	98_R	1.834	0.99
8_Y	42_S	1.745	0.99
144_I	165_D	1.742	0.99
43_D	87_A	1.731	0.99
156_L	159_N	1.716	0.99
6_Y	59_H	1.711	0.99
173_D	190_Y	1.684	0.99
31_T	38_S	1.680	0.99
34_Y	98_R	1.615	0.98
76_V	104_T	1.609	0.98
103_S	107_D	1.564	0.98
27_E	42_S	1.494	0.97
98_R	102_R	1.490	0.97
23_V	58_A	1.477	0.97
24_A	42_S	1.473	0.97
5_L	43_D	1.469	0.97
115_G	198_N	1.456	0.97
116_V	188_I	1.451	0.97
112_V	169_R	1.450	0.97
53_D	56_V	1.444	0.97
90_L	110_G	1.444	0.97
136_T	148_E	1.428	0.96
44_I	49_P	1.414	0.96
143_S	176_I	1.405	0.96
12_E	109_E	1.384	0.96
13_Q	38_S	1.384	0.96
60_N	64_Q	1.347	0.95
165_D	168_K	1.340	0.95
114_L	169_R	1.307	0.94
74_T	108_I	1.292	0.94
8_Y	79_S	1.278	0.93
115_G	159_N	1.274	0.93
53_D	57_E	1.264	0.93
7_T	78_M	1.254	0.93
110_G	167_E	1.239	0.92
55_D	80_F	1.232	0.92
87_A	91_K	1.224	0.92
170_D	174_S	1.221	0.92
49_P	81_G	1.213	0.91
104_T	107_D	1.206	0.91
9_G	40_V	1.182	0.90
6_Y	195_P	1.171	0.90
80_F	195_P	1.155	0.89
136_T	140_A	1.150	0.89
56_V	80_F	1.149	0.89
32_V	105_L	1.147	0.89
9_G	66_V	1.135	0.88
118_I	158_I	1.127	0.88
134_N	182_E	1.123	0.88
138_Q	182_E	1.120	0.88
90_L	93_V	1.119	0.88
29_V	62_V	1.117	0.88
29_V	66_V	1.106	0.87
134_N	137_D	1.105	0.87
169_R	173_D	1.099	0.87
136_T	191_T	1.095	0.87
14_E	75_V	1.092	0.86
24_A	105_L	1.091	0.86
177_D	181_A	1.086	0.86
113_E	194_W	1.078	0.86
11_I	40_V	1.073	0.85
115_G	191_T	1.065	0.85
120_G	157_I	1.056	0.85
119_L	156_L	1.049	0.84
10_I	37_L	1.045	0.84
64_Q	195_P	1.032	0.83
13_Q	36_T	1.031	0.83
59_H	117_K	1.027	0.83
126_V	130_E	1.025	0.83
31_T	40_V	1.021	0.82
89_T	92_G	1.010	0.82
42_S	55_D	1.005	0.81
56_V	60_N	1.004	0.81
127_P	181_A	1.002	0.81
32_V	94_L	0.997	0.81
152_F	156_L	0.994	0.81
78_M	82_M	0.994	0.81
60_N	198_N	0.992	0.81
117_K	152_F	0.990	0.80
136_T	146_E	0.980	0.80
61_N	134_N	0.978	0.80
20_V	66_V	0.977	0.80
185_E	194_W	0.962	0.79
53_D	60_N	0.962	0.79
133_E	137_D	0.962	0.79
76_V	80_F	0.950	0.78
39_A	110_G	0.939	0.77
95_R	174_S	0.939	0.77
121_P	187_T	0.938	0.77
110_G	166_F	0.932	0.76
32_V	91_K	0.915	0.75
32_V	41_V	0.914	0.75
139_L	172_F	0.914	0.75
156_L	195_P	0.912	0.75
5_L	196_P	0.897	0.73
115_G	157_I	0.896	0.73
133_E	138_Q	0.895	0.73
116_V	186_L	0.892	0.73
10_I	85_K	0.889	0.73
177_D	180_E	0.884	0.72
159_N	198_N	0.872	0.71
39_A	105_L	0.870	0.71
136_T	141_D	0.869	0.71
7_T	19_D	0.867	0.71
36_T	168_K	0.867	0.71
127_P	131_I	0.863	0.71
58_A	117_K	0.861	0.70
6_Y	197_Y	0.856	0.70
47_T	130_E	0.856	0.70
176_I	190_Y	0.850	0.69
5_L	75_V	0.839	0.68
41_V	90_L	0.839	0.68
64_Q	67_L	0.835	0.68
109_E	165_D	0.831	0.68
84_F	117_K	0.822	0.67
25_G	28_Q	0.813	0.66
123_D	130_E	0.811	0.66
131_I	167_E	0.805	0.65
119_L	189_Q	0.803	0.65
7_T	90_L	0.803	0.65
84_F	93_V	0.798	0.64
19_D	174_S	0.797	0.64
11_I	38_S	0.790	0.64
116_V	165_D	0.786	0.63
183_Y	195_P	0.786	0.63
103_S	123_D	0.782	0.63
94_L	105_L	0.781	0.63
164_V	172_F	0.781	0.63
149_N	152_F	0.781	0.63
9_G	29_V	0.780	0.63
148_E	160_K	0.779	0.63
39_A	94_L	0.777	0.62
100_A	137_D	0.775	0.62
136_T	158_I	0.760	0.61
80_F	129_E	0.756	0.60
136_T	160_K	0.755	0.60
142_L	179_V	0.754	0.60
84_F	189_Q	0.754	0.60
109_E	171_A	0.754	0.60
116_V	140_A	0.754	0.60
34_Y	95_R	0.751	0.60
114_L	190_Y	0.746	0.59
51_R	84_F	0.743	0.59
53_D	80_F	0.742	0.59
135_V	177_D	0.739	0.59
90_L	121_P	0.737	0.58
40_V	158_I	0.736	0.58
161_S	198_N	0.732	0.58
66_V	158_I	0.730	0.58
8_Y	23_V	0.730	0.58
114_L	164_V	0.728	0.57
9_G	75_V	0.713	0.56
66_V	73_R	0.713	0.56
35_K	108_I	0.712	0.56
32_V	109_E	0.710	0.55
51_R	81_G	0.706	0.55
143_S	162_Y	0.701	0.55
138_Q	178_D	0.701	0.55
104_T	108_I	0.697	0.54
98_R	171_A	0.694	0.54
56_V	189_Q	0.694	0.54
63_L	81_G	0.693	0.54
25_G	54_E	0.689	0.53
33_D	36_T	0.684	0.53
120_G	186_L	0.684	0.53
73_R	195_P	0.682	0.53
76_V	79_S	0.680	0.52
85_K	89_T	0.679	0.52
63_L	82_M	0.679	0.52
73_R	161_S	0.679	0.52
67_L	198_N	0.677	0.52
10_I	101_L	0.677	0.52
12_E	154_D	0.676	0.52
117_K	156_L	0.669	0.51
32_V	63_L	0.669	0.51
4_N	51_R	0.667	0.51
9_G	56_V	0.667	0.51
116_V	157_I	0.666	0.51
36_T	102_R	0.664	0.51
79_S	82_M	0.664	0.51
76_V	156_L	0.660	0.50
171_A	174_S	0.656	0.50
113_E	195_P	0.653	0.49
32_V	96_G	0.648	0.49
178_D	182_E	0.648	0.49
168_K	181_A	0.646	0.49
79_S	83_A	0.641	0.48
138_Q	145_N	0.639	0.48
162_Y	194_W	0.639	0.48
29_V	185_E	0.635	0.48
78_M	187_T	0.635	0.48
74_T	106_N	0.633	0.47
175_A	178_D	0.625	0.46
95_R	129_E	0.624	0.46
114_L	173_D	0.622	0.46
113_E	198_N	0.622	0.46
36_T	118_I	0.622	0.46
8_Y	22_G	0.620	0.46
37_L	105_L	0.618	0.46
55_D	81_G	0.617	0.46
166_F	186_L	0.615	0.45
172_F	176_I	0.615	0.45
78_M	86_S	0.615	0.45
39_A	78_M	0.611	0.45
56_V	194_W	0.610	0.45
51_R	56_V	0.608	0.45
29_V	42_S	0.605	0.44
138_Q	175_A	0.604	0.44
74_T	166_F	0.603	0.44
79_S	86_S	0.601	0.44
116_V	177_D	0.600	0.44
28_Q	164_V	0.599	0.44
22_G	29_V	0.598	0.44
63_L	194_W	0.597	0.43
24_A	143_S	0.594	0.43
114_L	172_F	0.594	0.43
62_V	196_P	0.590	0.43
5_L	30_Y	0.588	0.43
118_I	186_L	0.586	0.42
42_S	81_G	0.585	0.42
101_L	106_N	0.584	0.42
97_A	121_P	0.583	0.42
67_L	195_P	0.581	0.42
76_V	145_N	0.575	0.41
130_E	141_D	0.573	0.41
114_L	152_F	0.572	0.41
180_E	184_D	0.571	0.41
138_Q	179_V	0.568	0.40
98_R	138_Q	0.566	0.40
60_N	149_N	0.565	0.40
115_G	162_Y	0.561	0.40
123_D	127_P	0.560	0.40
24_A	55_D	0.556	0.39
140_A	169_R	0.554	0.39
86_S	184_D	0.550	0.39
6_Y	76_V	0.549	0.39
74_T	109_E	0.543	0.38
25_G	107_D	0.543	0.38
14_E	88_R	0.541	0.38
60_N	67_L	0.537	0.37
44_I	189_Q	0.535	0.37
97_A	133_E	0.534	0.37
118_I	194_W	0.533	0.37
77_P	199_F	0.532	0.37
5_L	60_N	0.531	0.37
183_Y	186_L	0.530	0.37
94_L	112_V	0.529	0.37
60_N	84_F	0.528	0.36
145_N	170_D	0.528	0.36
95_R	132_Q	0.528	0.36
99_R	175_A	0.526	0.36
182_E	202_I	0.524	0.36
5_L	90_L	0.523	0.36
137_D	140_A	0.519	0.36
143_S	197_Y	0.519	0.36
10_I	76_V	0.512	0.35
109_E	166_F	0.511	0.35
10_I	16_L	0.508	0.34
146_E	162_Y	0.507	0.34
11_I	15_D	0.507	0.34
116_V	190_Y	0.507	0.34
101_L	195_P	0.503	0.34
28_Q	131_I	0.503	0.34
189_Q	194_W	0.503	0.34
38_S	200_V	0.502	0.34
142_L	168_K	0.501	0.34
55_D	115_G	0.500	0.34
17_E	72_E	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
4qsgA	1	0.9249	100	0.131	Contact Map
4atyA	2	0.8263	11.5	0.955	Contact Map
1svvA	4	0.7653	10.4	0.956	Contact Map
3u0kA	1	0.3709	10.4	0.956	Contact Map
3v4gA	5	0.4178	9.9	0.956	Contact Map
4chmA	1	0.4507	9.1	0.957	Contact Map
3k40A	2	0.7512	7	0.959	Contact Map
1x9aA	2	0.2488	6.3	0.96	Contact Map
3nojA	5	0.4413	6.1	0.961	Contact Map
2v25A	1	0.1831	5.7	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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