Q9HMB2 - HALSA - GREMLIN Contacts

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Q9HMB2 - Riboflavin synthase alpha subunit

UniProt:	Q9HMB2	Sequences: MRPESGTVFTGIIEETGTVERVVDDDDGRRLRIAVTGFGAFSHGESISVGGVCLTVEDWGEDWFSVFTAAETLSKTTLSAVSSGDRVNLERALPADGRLDGHVVQGHVDTTTEVVDIEQVGEDWTFTFALPDGHAQYVAPKGSIALDGISLTVADIDDEAGTFSVAVIPTTYELTSLSERSPGDRVNVEVDVLAKYVERMASYDSSVDSAGGALDAAE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	218 (195)
Sequences:	3751 (2555)
Seq/√Len:	182.9

ECOLI - RISA
BACSU - RISA
HALSA - Q9HMB2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
94_P	97_G	3.047	1.00
112_T	128_F	2.567	1.00
75_K	140_P	2.482	1.00
127_T	162_T	2.351	1.00
110_T	134_H	2.291	1.00
147_D	180_R	2.272	1.00
60_G	63_W	2.263	1.00
113_E	129_A	2.251	1.00
86_R	179_E	2.207	1.00
138_V	153_V	2.145	1.00
93_L	99_L	2.092	1.00
58_D	65_S	2.074	1.00
137_Y	198_E	2.054	1.00
136_Q	198_E	2.042	1.00
115_V	129_A	2.035	1.00
20_E	34_A	2.016	1.00
18_T	34_A	1.990	1.00
127_T	164_S	1.983	1.00
80_A	185_R	1.982	1.00
124_W	172_Y	1.959	1.00
157_D	162_T	1.896	1.00
18_T	86_R	1.889	1.00
34_A	62_D	1.875	1.00
32_R	65_S	1.806	1.00
95_A	103_V	1.805	1.00
129_A	161_G	1.757	1.00
146_L	186_V	1.739	1.00
180_R	184_D	1.733	1.00
149_I	177_L	1.725	1.00
170_T	174_L	1.710	1.00
70_A	74_S	1.709	1.00
155_D	164_S	1.661	1.00
41_F	47_I	1.652	1.00
15_E	35_V	1.618	1.00
117_I	126_F	1.608	1.00
17_G	89_L	1.608	1.00
24_D	29_R	1.577	1.00
146_L	188_V	1.576	1.00
49_V	87_V	1.574	1.00
42_S	45_E	1.573	1.00
113_E	185_R	1.569	1.00
120_V	125_T	1.567	1.00
95_A	99_L	1.560	1.00
69_A	166_A	1.539	1.00
130_L	188_V	1.536	1.00
117_I	124_W	1.510	1.00
81_V	85_D	1.509	1.00
114_V	180_R	1.506	1.00
114_V	126_F	1.501	1.00
52_V	76_T	1.479	1.00
32_R	63_W	1.470	1.00
116_D	127_T	1.434	1.00
129_A	162_T	1.424	1.00
14_E	91_R	1.404	1.00
15_E	36_T	1.404	1.00
43_H	170_T	1.367	1.00
193_L	197_V	1.362	1.00
114_V	128_F	1.330	1.00
104_V	145_A	1.326	1.00
139_A	194_A	1.318	1.00
157_D	161_G	1.306	1.00
149_I	176_S	1.297	1.00
49_V	64_F	1.292	1.00
123_D	166_A	1.277	1.00
14_E	98_R	1.269	1.00
103_V	192_V	1.252	1.00
125_T	164_S	1.245	1.00
138_V	163_F	1.239	1.00
71_E	141_K	1.232	1.00
154_A	164_S	1.227	1.00
16_T	86_R	1.227	1.00
126_F	172_Y	1.218	1.00
99_L	103_V	1.208	1.00
50_G	147_D	1.207	1.00
147_D	176_S	1.194	1.00
82_S	85_D	1.193	1.00
50_G	77_T	1.191	1.00
154_A	166_A	1.189	1.00
126_F	167_V	1.181	1.00
139_A	192_V	1.180	1.00
172_Y	178_S	1.171	1.00
138_V	144_I	1.169	1.00
112_T	146_L	1.164	1.00
34_A	63_W	1.161	1.00
128_F	165_V	1.159	1.00
20_E	63_W	1.158	1.00
103_V	193_L	1.150	1.00
139_A	199_R	1.143	1.00
146_L	165_V	1.131	1.00
74_S	120_V	1.113	1.00
71_E	75_K	1.111	1.00
77_T	185_R	1.104	1.00
50_G	81_V	1.102	1.00
130_L	138_V	1.095	1.00
115_V	162_T	1.090	1.00
57_E	67_F	1.085	1.00
30_R	57_E	1.071	1.00
149_I	167_V	1.068	1.00
139_A	195_K	1.064	1.00
31_L	68_T	1.061	1.00
91_R	98_R	1.057	1.00
177_L	180_R	1.054	1.00
137_Y	190_V	1.054	1.00
198_E	202_S	1.049	1.00
38_F	41_F	1.041	1.00
111_T	185_R	1.037	1.00
70_A	120_V	1.036	1.00
149_I	180_R	1.026	1.00
41_F	56_V	1.018	0.99
128_F	186_V	1.010	0.99
41_F	59_W	1.009	0.99
119_Q	124_W	0.999	0.99
22_V	29_R	0.997	0.99
125_T	166_A	0.988	0.99
28_G	122_E	0.971	0.99
117_I	181_S	0.970	0.99
69_A	154_A	0.965	0.99
40_A	91_R	0.957	0.99
56_V	59_W	0.953	0.99
86_R	178_S	0.952	0.99
105_Q	192_V	0.951	0.99
94_P	99_L	0.943	0.99
112_T	188_V	0.943	0.99
140_P	155_D	0.938	0.99
181_S	184_D	0.931	0.99
114_V	186_V	0.926	0.99
135_A	161_G	0.921	0.99
16_T	176_S	0.919	0.99
45_E	100_D	0.918	0.99
15_E	37_G	0.912	0.99
23_V	30_R	0.911	0.99
17_G	33_I	0.910	0.99
144_I	163_F	0.904	0.99
125_T	154_A	0.902	0.99
92_A	98_R	0.902	0.99
77_T	187_N	0.899	0.99
40_A	98_R	0.899	0.99
126_F	177_L	0.882	0.99
167_V	172_Y	0.882	0.99
130_L	135_A	0.878	0.98
19_V	87_V	0.877	0.98
21_R	83_S	0.876	0.98
29_R	73_L	0.876	0.98
116_D	182_P	0.875	0.98
21_R	32_R	0.872	0.98
105_Q	108_V	0.871	0.98
28_G	121_G	0.870	0.98
114_V	117_I	0.869	0.98
40_A	100_D	0.864	0.98
19_V	33_I	0.848	0.98
25_D	30_R	0.837	0.98
176_S	180_R	0.831	0.98
43_H	59_W	0.826	0.98
93_L	97_G	0.824	0.98
30_R	65_S	0.822	0.98
19_V	22_V	0.814	0.98
146_L	163_F	0.812	0.97
130_L	163_F	0.803	0.97
78_L	81_V	0.800	0.97
130_L	134_H	0.794	0.97
52_V	108_V	0.794	0.97
67_F	169_P	0.788	0.97
110_T	130_L	0.785	0.97
134_H	190_V	0.782	0.97
117_I	182_P	0.780	0.97
45_E	98_R	0.774	0.97
33_I	89_L	0.774	0.97
149_I	175_T	0.771	0.97
199_R	203_Y	0.770	0.97
158_D	161_G	0.767	0.96
19_V	81_V	0.762	0.96
16_T	174_L	0.758	0.96
110_T	131_P	0.752	0.96
30_R	58_D	0.745	0.96
135_A	199_R	0.739	0.96
35_V	38_F	0.738	0.96
69_A	123_D	0.736	0.96
32_R	60_G	0.732	0.95
27_D	70_A	0.732	0.95
123_D	172_Y	0.731	0.95
163_F	188_V	0.723	0.95
79_S	185_R	0.722	0.95
54_L	72_T	0.720	0.95
193_L	201_A	0.717	0.95
194_A	200_M	0.710	0.95
20_E	62_D	0.705	0.94
73_L	79_S	0.704	0.94
156_I	199_R	0.704	0.94
136_Q	200_M	0.704	0.94
118_E	127_T	0.704	0.94
43_H	57_E	0.696	0.94
33_I	66_V	0.694	0.94
49_V	89_L	0.693	0.94
30_R	67_F	0.691	0.94
118_E	125_T	0.688	0.94
50_G	176_S	0.688	0.94
144_I	188_V	0.680	0.93
132_D	161_G	0.679	0.93
41_F	91_R	0.678	0.93
55_T	170_T	0.669	0.93
108_V	145_A	0.669	0.93
12_I	100_D	0.668	0.93
197_V	201_A	0.665	0.92
194_A	197_V	0.664	0.92
190_V	195_K	0.661	0.92
180_R	186_V	0.660	0.92
59_W	63_W	0.656	0.92
14_E	97_G	0.653	0.92
41_F	45_E	0.653	0.92
22_V	83_S	0.641	0.91
68_T	72_T	0.641	0.91
139_A	196_Y	0.639	0.91
10_T	99_L	0.639	0.91
117_I	172_Y	0.639	0.91
29_R	70_A	0.638	0.91
25_D	28_G	0.637	0.91
20_E	32_R	0.637	0.91
50_G	85_D	0.636	0.91
94_P	98_R	0.635	0.91
137_Y	199_R	0.633	0.91
20_E	83_S	0.629	0.90
54_L	68_T	0.629	0.90
118_E	164_S	0.626	0.90
37_G	174_L	0.626	0.90
49_V	81_V	0.623	0.90
78_L	87_V	0.618	0.89
112_T	130_L	0.614	0.89
128_F	146_L	0.608	0.89
127_T	157_D	0.606	0.89
42_S	59_W	0.604	0.88
78_L	85_D	0.601	0.88
120_V	123_D	0.599	0.88
33_I	49_V	0.598	0.88
107_H	143_S	0.595	0.88
69_A	165_V	0.595	0.88
45_E	92_A	0.595	0.88
138_V	188_V	0.593	0.87
38_F	64_F	0.590	0.87
16_T	178_S	0.589	0.87
77_T	147_D	0.589	0.87
115_V	182_P	0.589	0.87
92_A	105_Q	0.588	0.87
201_A	204_D	0.587	0.87
143_S	193_L	0.583	0.87
43_H	174_L	0.582	0.86
45_E	91_R	0.581	0.86
138_V	190_V	0.579	0.86
143_S	149_I	0.576	0.86
43_H	56_V	0.574	0.86
8_V	11_G	0.574	0.86
125_T	155_D	0.565	0.85
73_L	78_L	0.563	0.85
47_I	59_W	0.560	0.84
75_K	154_A	0.560	0.84
88_N	176_S	0.558	0.84
167_V	171_T	0.550	0.83
12_I	92_A	0.548	0.83
115_V	127_T	0.546	0.83
70_A	166_A	0.545	0.83
69_A	122_E	0.545	0.83
128_F	163_F	0.544	0.83
63_W	66_V	0.542	0.82
86_R	116_D	0.539	0.82
199_R	202_S	0.539	0.82
110_T	190_V	0.539	0.82
35_V	89_L	0.538	0.82
146_L	177_L	0.538	0.82
117_I	178_S	0.538	0.82
136_Q	203_Y	0.535	0.82
143_S	175_T	0.535	0.82
49_V	54_L	0.534	0.81
153_V	163_F	0.532	0.81
19_V	78_L	0.531	0.81
103_V	143_S	0.531	0.81
93_L	145_A	0.531	0.81
196_Y	200_M	0.530	0.81
132_D	158_D	0.529	0.81
190_V	194_A	0.527	0.81
167_V	177_L	0.525	0.80
49_V	66_V	0.523	0.80
102_H	150_S	0.523	0.80
23_V	32_R	0.520	0.80
114_V	182_P	0.516	0.79
113_E	182_P	0.511	0.79
143_S	169_P	0.511	0.79
116_D	162_T	0.510	0.78
43_H	58_D	0.510	0.78
58_D	63_W	0.508	0.78
35_V	64_F	0.507	0.78
158_D	162_T	0.501	0.77
135_A	156_I	0.500	0.77
197_V	200_M	0.500	0.77

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
1kzlA	1	0.9128	100	0.13	Contact Map
4g6iA	3	0.8945	100	0.134	Contact Map
1i8dA	3	0.9128	100	0.141	Contact Map
3a35A	1	0.8349	100	0.182	Contact Map
3ddyA	1	0.7936	100	0.194	Contact Map
4tkoB	1	0.5046	48.2	0.955	Contact Map
2f1mA	2	0.5321	22.6	0.962	Contact Map
2wg5A	3	0.2798	19.1	0.964	Contact Map
3h43A	5	0.2936	14.3	0.966	Contact Map
4tseA	2	0.5229	14.2	0.966	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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