YPFH - ECOLI - GREMLIN Contacts

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YPFH - Esterase YpfH

UniProt:	P76561	Sequences: MKHDHFVVQSPDKPAQQLLLLFHGVGDNPVAMGEIGNWFAPLFPDALVVSVGGAEPSGNPAGRQWFSVQGITEDNRQARVDAIMPTFIETVRYWQKQSGVGANATALIGFSQGAIMVLESIKAEPGLASRVIAFNGRYASLPETASTATTIHLIHGGEDPVIDLAHAVAAQEALISAGGDVTLDIVEDLGHAIDNRSMQFALDHLRYTIPKHYFDEALSGGKPGDDDVIEMM	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG14195
Length:	232 (195)
Sequences:	4070 (3098)
Seq/√Len:	221.9

ECOLI - YPFH
BACSU - MHQD

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
121_I	131_V	3.740	1.00
114_A	136_G	3.393	1.00
164_L	185_I	3.147	1.00
114_A	133_A	3.008	1.00
29_P	52_G	2.990	1.00
134_F	201_A	2.836	1.00
186_V	200_F	2.731	1.00
66_F	137_R	2.719	1.00
168_V	185_I	2.645	1.00
17_Q	46_A	2.451	1.00
132_I	201_A	2.423	1.00
19_L	48_V	2.381	1.00
157_G	187_E	2.309	1.00
106_A	205_L	2.300	1.00
106_A	130_R	2.240	1.00
22_F	87_F	2.222	1.00
27_D	31_A	2.218	1.00
182_T	207_Y	2.173	1.00
171_Q	175_I	2.078	1.00
108_I	132_I	2.030	1.00
117_V	131_V	1.999	1.00
154_I	197_S	1.961	1.00
184_D	200_F	1.955	1.00
92_R	96_K	1.929	1.00
18_L	94_W	1.852	1.00
160_P	190_G	1.826	1.00
189_L	194_D	1.815	1.00
167_A	183_L	1.790	1.00
88_I	120_S	1.772	1.00
77_Q	81_D	1.754	1.00
17_Q	104_A	1.750	1.00
157_G	185_I	1.710	1.00
84_M	119_E	1.606	1.00
101_G	104_A	1.593	1.00
172_E	175_I	1.590	1.00
95_Q	105_T	1.590	1.00
118_L	133_A	1.588	1.00
153_L	171_Q	1.580	1.00
202_L	206_R	1.580	1.00
15_A	18_L	1.580	1.00
118_L	153_L	1.523	1.00
164_L	168_V	1.522	1.00
88_I	124_E	1.472	1.00
133_A	153_L	1.457	1.00
172_E	176_S	1.436	1.00
24_G	111_S	1.432	1.00
95_Q	102_A	1.428	1.00
116_M	136_G	1.423	1.00
121_I	149_T	1.419	1.00
11_P	15_A	1.411	1.00
55_E	61_A	1.401	1.00
165_A	168_V	1.380	1.00
133_A	136_G	1.370	1.00
52_G	63_R	1.369	1.00
88_I	92_R	1.367	1.00
171_Q	181_V	1.346	1.00
195_N	199_Q	1.344	1.00
85_P	89_E	1.322	1.00
49_V	94_W	1.314	1.00
165_A	169_A	1.291	1.00
155_H	167_A	1.281	1.00
106_A	208_T	1.252	1.00
20_L	91_V	1.224	1.00
94_W	98_S	1.210	1.00
173_A	177_A	1.193	1.00
56_P	82_A	1.185	1.00
135_N	197_S	1.181	1.00
152_H	200_F	1.171	1.00
118_L	170_A	1.171	1.00
32_M	193_I	1.170	1.00
16_Q	45_D	1.146	1.00
111_S	191_H	1.143	1.00
89_E	93_Y	1.141	1.00
115_I	137_R	1.141	1.00
151_I	179_G	1.140	1.00
168_V	183_L	1.121	1.00
92_R	127_L	1.118	1.00
56_P	64_Q	1.117	1.00
157_G	188_D	1.108	1.00
28_N	31_A	1.103	1.00
171_Q	183_L	1.101	1.00
152_H	184_D	1.097	1.00
47_L	94_W	1.091	1.00
164_L	183_L	1.087	1.00
157_G	164_L	1.085	1.00
27_D	193_I	1.076	1.00
16_Q	104_A	1.073	1.00
19_L	46_A	1.068	1.00
144_T	147_T	1.060	1.00
135_N	155_H	1.059	1.00
87_F	116_M	1.057	1.00
18_L	49_V	1.054	1.00
76_R	79_R	1.052	1.00
56_P	63_R	1.050	1.00
92_R	124_E	1.045	1.00
84_M	120_S	1.042	1.00
92_R	95_Q	1.021	1.00
173_A	176_S	0.988	1.00
51_V	87_F	0.987	1.00
85_P	88_I	0.984	1.00
87_F	120_S	0.983	1.00
18_L	47_L	0.974	1.00
154_I	186_V	0.972	1.00
86_T	89_E	0.971	1.00
153_L	181_V	0.971	1.00
158_E	188_D	0.970	1.00
152_H	186_V	0.963	1.00
203_D	207_Y	0.963	1.00
21_L	108_I	0.949	1.00
204_H	208_T	0.949	1.00
102_A	126_G	0.929	1.00
30_V	52_G	0.927	1.00
130_R	150_T	0.924	0.99
51_V	90_T	0.923	0.99
119_E	123_A	0.920	0.99
88_I	128_A	0.906	0.99
104_A	129_S	0.904	0.99
174_L	179_G	0.901	0.99
11_P	14_P	0.900	0.99
162_I	166_H	0.899	0.99
18_L	100_V	0.894	0.99
100_V	105_T	0.886	0.99
131_V	151_I	0.881	0.99
58_G	62_G	0.880	0.99
69_Q	74_D	0.879	0.99
111_S	159_D	0.877	0.99
117_V	136_G	0.875	0.99
90_T	94_W	0.875	0.99
163_D	166_H	0.874	0.99
21_L	32_M	0.873	0.99
38_W	195_N	0.869	0.99
91_V	128_A	0.863	0.99
103_N	127_L	0.857	0.99
92_R	126_G	0.855	0.99
151_I	174_L	0.853	0.99
106_A	129_S	0.851	0.99
168_V	172_E	0.850	0.99
200_F	203_D	0.843	0.99
40_A	44_P	0.840	0.99
199_Q	202_L	0.837	0.99
20_L	107_L	0.831	0.99
81_D	84_M	0.827	0.99
64_Q	68_V	0.814	0.99
115_I	162_I	0.812	0.99
93_Y	96_K	0.807	0.99
169_A	172_E	0.796	0.98
15_A	47_L	0.796	0.98
31_A	34_E	0.792	0.98
81_D	119_E	0.790	0.98
91_V	105_T	0.788	0.98
36_G	48_V	0.780	0.98
186_V	189_L	0.779	0.98
186_V	197_S	0.778	0.98
54_A	86_T	0.775	0.98
186_V	194_D	0.767	0.98
40_A	46_A	0.763	0.98
36_G	40_A	0.759	0.98
80_V	119_E	0.751	0.98
53_G	65_W	0.750	0.98
55_E	63_R	0.748	0.98
192_A	195_N	0.745	0.98
21_L	36_G	0.742	0.98
186_V	196_R	0.742	0.98
152_H	197_S	0.741	0.98
155_H	162_I	0.734	0.97
100_V	104_A	0.732	0.97
134_F	193_I	0.732	0.97
84_M	123_A	0.730	0.97
70_G	74_D	0.730	0.97
35_I	38_W	0.727	0.97
30_V	33_G	0.724	0.97
80_V	116_M	0.724	0.97
118_L	131_V	0.722	0.97
167_A	170_A	0.721	0.97
88_I	127_L	0.719	0.97
25_V	112_Q	0.716	0.97
28_N	63_R	0.716	0.97
155_H	164_L	0.713	0.97
108_I	134_F	0.711	0.97
29_P	51_V	0.709	0.97
28_N	52_G	0.705	0.97
168_V	171_Q	0.702	0.97
189_L	192_A	0.697	0.97
33_G	48_V	0.697	0.97
38_W	198_M	0.697	0.97
154_I	200_F	0.696	0.97
33_G	50_S	0.695	0.96
91_V	120_S	0.692	0.96
47_L	98_S	0.689	0.96
146_S	179_G	0.689	0.96
132_I	152_H	0.688	0.96
40_A	202_L	0.686	0.96
130_R	208_T	0.685	0.96
13_K	45_D	0.685	0.96
152_H	204_H	0.674	0.96
150_T	180_D	0.672	0.96
169_A	173_A	0.671	0.96
34_E	37_N	0.671	0.96
22_F	116_M	0.671	0.96
27_D	161_V	0.669	0.96
194_D	197_S	0.668	0.96
115_I	139_A	0.666	0.96
89_E	92_R	0.666	0.96
35_I	40_A	0.664	0.95
110_F	135_N	0.664	0.95
159_D	191_H	0.662	0.95
122_K	179_G	0.657	0.95
148_A	180_D	0.656	0.95
25_V	115_I	0.655	0.95
91_V	94_W	0.654	0.95
20_L	94_W	0.653	0.95
57_S	71_I	0.646	0.95
75_N	140_S	0.636	0.94
158_E	190_G	0.635	0.94
25_V	58_G	0.634	0.94
134_F	197_S	0.633	0.94
75_N	119_E	0.629	0.94
153_L	167_A	0.627	0.94
77_Q	140_S	0.627	0.94
153_L	170_A	0.618	0.93
39_F	202_L	0.618	0.93
107_L	117_V	0.615	0.93
29_P	50_S	0.614	0.93
84_M	116_M	0.613	0.93
47_L	100_V	0.613	0.93
79_R	83_I	0.611	0.93
138_Y	170_A	0.609	0.93
25_V	68_V	0.609	0.93
93_Y	98_S	0.603	0.93
37_N	40_A	0.601	0.92
150_T	208_T	0.599	0.92
32_M	50_S	0.598	0.92
110_F	193_I	0.589	0.92
68_V	112_Q	0.589	0.92
88_I	126_G	0.588	0.92
107_L	121_I	0.587	0.92
203_D	206_R	0.586	0.91
140_S	143_E	0.585	0.91
50_S	108_I	0.582	0.91
12_D	15_A	0.580	0.91
156_G	189_L	0.579	0.91
22_F	117_V	0.577	0.91
121_I	151_I	0.577	0.91
156_G	188_D	0.573	0.91
129_S	150_T	0.561	0.90
134_F	152_H	0.560	0.90
82_A	85_P	0.560	0.90
118_L	138_Y	0.558	0.89
78_A	81_D	0.557	0.89
133_A	167_A	0.556	0.89
146_S	149_T	0.553	0.89
87_F	90_T	0.552	0.89
64_Q	112_Q	0.551	0.89
53_G	112_Q	0.549	0.89
184_D	196_R	0.547	0.88
70_G	73_E	0.547	0.88
25_V	53_G	0.546	0.88
25_V	64_Q	0.546	0.88
107_L	128_A	0.544	0.88
78_A	82_A	0.539	0.88
122_K	139_A	0.539	0.88
49_V	57_S	0.537	0.88
17_Q	101_G	0.535	0.87
88_I	125_P	0.532	0.87
108_I	201_A	0.532	0.87
68_V	79_R	0.531	0.87
119_E	139_A	0.530	0.87
134_F	154_I	0.528	0.87
12_D	16_Q	0.527	0.87
77_Q	143_E	0.525	0.86
25_V	28_N	0.525	0.86
68_V	83_I	0.525	0.86
57_S	62_G	0.525	0.86
124_E	128_A	0.523	0.86
122_K	174_L	0.521	0.86
39_F	48_V	0.519	0.86
35_I	193_I	0.517	0.85
96_K	126_G	0.517	0.85
36_G	39_F	0.514	0.85
35_I	198_M	0.513	0.85
27_D	110_F	0.511	0.85
122_K	177_A	0.510	0.85
157_G	168_V	0.510	0.85
48_V	52_G	0.510	0.85
153_L	183_L	0.507	0.84
19_L	108_I	0.507	0.84
75_N	141_L	0.506	0.84
135_N	162_I	0.505	0.84
20_L	105_T	0.504	0.84
27_D	33_G	0.500	0.84
138_Y	153_L	0.500	0.84
156_G	191_H	0.500	0.84

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
3b5eA	2	0.8621	100	0.476	Contact Map
1fj2A	2	0.9009	100	0.483	Contact Map
3u0vA	1	0.8879	100	0.487	Contact Map
1auoA	2	0.8879	100	0.488	Contact Map
3og9A	1	0.8621	100	0.493	Contact Map
2r8bA	1	0.8621	100	0.503	Contact Map
2h1iA	3	0.8707	100	0.507	Contact Map
3cn9A	1	0.8621	100	0.517	Contact Map
4f21A	1	0.8966	100	0.525	Contact Map
1ycdA	1	0.8103	100	0.531	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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