YQAM - BACSU - GREMLIN Contacts

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YQAM - Uncharacterized protein YqaM

UniProt:	P45910	Sequences: MAINKAVSIDTAFQTIMQELRERSARFLGTKQAVSEEKAEFDCPYCKDRGIVVYRVHKDTSWHLDEQLDLMVPDDMVSEDDFLLGKVCTPDKASEWKDTYSKQCECVRRKKIARLMAASGITEEFEKLLFGNFITDGKPDMIKDAYECAVEYYKDFQKIKGERQNSIALLGQPGSGKTHLLTAIMNNLIKKKSVHCMYFPYVEGMGDLKANFDNLEAKLDAMRKVEVLFIDDLFKPINGQPRATDWQVEQIQSVLNYRYLNHKPLLISSELTIDEILDIDEALGSRIHQMCRDYIVIIRGDRMQLNHRLGDWE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	313 (251)
Sequences:	1908 (1534)
Seq/√Len:	96.8

ECOLI - DNAC YDAV DNAA
BACSU - YQAM DNAI XKDC DNAA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
187_N	190_K	3.910	1.00
149_A	184_I	3.684	1.00
197_M	225_V	2.907	1.00
205_M	247_Q	2.701	1.00
226_E	263_K	2.656	1.00
181_L	268_S	2.615	1.00
44_P	47_K	2.560	1.00
92_K	105_E	2.543	1.00
81_D	86_K	2.527	1.00
179_H	183_A	2.407	1.00
81_D	85_G	2.386	1.00
109_R	113_A	2.373	1.00
83_L	86_K	2.372	1.00
285_S	300_G	2.262	1.00
229_F	268_S	2.242	1.00
184_I	266_L	2.178	1.00
214_N	217_A	2.176	1.00
194_V	226_E	2.124	1.00
146_Y	150_V	2.122	1.00
188_L	227_V	2.083	1.00
272_T	275_E	2.044	1.00
299_R	302_R	2.022	1.00
121_I	124_E	2.019	1.00
173_P	285_S	2.014	1.00
133_F	180_L	2.013	1.00
70_L	73_P	2.005	1.00
81_D	88_C	1.999	1.00
145_A	180_L	1.945	1.00
81_D	87_V	1.930	1.00
80_D	84_L	1.925	1.00
75_D	79_E	1.907	1.00
103_Q	107_V	1.906	1.00
298_I	302_R	1.906	1.00
150_V	154_K	1.884	1.00
186_N	190_K	1.872	1.00
81_D	84_L	1.871	1.00
83_L	87_V	1.855	1.00
135_T	146_Y	1.844	1.00
181_L	229_F	1.832	1.00
85_G	88_C	1.816	1.00
233_L	267_I	1.806	1.00
109_R	112_I	1.758	1.00
153_Y	187_N	1.756	1.00
130_F	153_Y	1.716	1.00
201_Y	230_I	1.704	1.00
43_C	51_I	1.700	1.00
80_D	83_L	1.670	1.00
153_Y	188_L	1.664	1.00
152_Y	156_F	1.663	1.00
201_Y	208_L	1.647	1.00
204_G	222_M	1.621	1.00
93_A	96_W	1.555	1.00
169_L	296_V	1.538	1.00
128_L	182_T	1.525	1.00
181_L	266_L	1.522	1.00
202_V	235_K	1.522	1.00
121_I	125_F	1.511	1.00
208_L	246_W	1.496	1.00
185_M	196_C	1.478	1.00
296_V	299_R	1.467	1.00
223_R	250_Q	1.461	1.00
232_D	282_A	1.446	1.00
63_H	67_Q	1.440	1.00
68_L	72_V	1.418	1.00
130_F	183_A	1.415	1.00
216_E	220_D	1.383	0.99
274_D	288_H	1.366	0.99
211_N	215_L	1.361	0.99
73_P	79_E	1.358	0.99
82_F	85_G	1.346	0.99
223_R	254_V	1.344	0.99
294_Y	302_R	1.343	0.99
61_S	65_D	1.322	0.99
41_F	53_V	1.320	0.99
111_K	115_L	1.303	0.99
185_M	229_F	1.301	0.99
198_Y	268_S	1.300	0.99
40_E	44_P	1.298	0.99
132_N	179_H	1.284	0.99
110_K	113_A	1.278	0.99
137_G	301_D	1.270	0.99
47_K	51_I	1.256	0.99
106_C	109_R	1.244	0.99
151_E	155_D	1.243	0.99
115_L	118_A	1.243	0.99
202_V	254_V	1.240	0.99
273_I	291_C	1.214	0.98
297_I	302_R	1.210	0.98
258_R	265_L	1.195	0.98
282_A	286_R	1.195	0.98
80_D	86_K	1.184	0.98
76_M	79_E	1.184	0.98
196_C	229_F	1.178	0.98
114_R	117_A	1.171	0.98
252_Q	256_N	1.165	0.98
234_F	270_E	1.159	0.98
170_L	295_I	1.156	0.98
209_K	244_T	1.152	0.98
152_Y	264_P	1.150	0.98
145_A	296_V	1.146	0.98
48_D	52_V	1.138	0.98
134_I	301_D	1.137	0.98
83_L	88_C	1.135	0.98
46_C	51_I	1.131	0.98
284_G	288_H	1.128	0.98
60_T	63_H	1.114	0.97
295_I	302_R	1.110	0.97
91_D	94_S	1.105	0.97
73_P	77_V	1.101	0.97
184_I	210_A	1.099	0.97
141_M	183_A	1.092	0.97
70_L	74_D	1.087	0.97
80_D	87_V	1.082	0.97
270_E	282_A	1.068	0.97
84_L	87_V	1.059	0.96
137_G	143_K	1.058	0.96
202_V	223_R	1.053	0.96
257_Y	261_N	1.051	0.96
142_I	296_V	1.051	0.96
168_A	269_S	1.050	0.96
142_I	145_A	1.041	0.96
265_L	291_C	1.039	0.96
125_F	128_L	1.035	0.96
129_L	190_K	1.029	0.96
173_P	203_E	1.023	0.96
85_G	89_T	1.022	0.96
74_D	79_E	1.017	0.95
122_T	125_F	1.015	0.95
209_K	212_F	1.014	0.95
175_S	296_V	1.013	0.95
89_T	93_A	1.001	0.95
267_I	291_C	1.001	0.95
219_L	223_R	0.996	0.95
172_Q	175_S	0.993	0.95
133_F	146_Y	0.991	0.95
259_Y	289_Q	0.991	0.95
130_F	184_I	0.990	0.95
63_H	66_E	0.989	0.95
152_Y	167_I	0.988	0.95
202_V	250_Q	0.986	0.95
150_V	187_N	0.983	0.95
80_D	85_G	0.982	0.95
232_D	286_R	0.979	0.94
38_K	61_S	0.970	0.94
97_K	100_Y	0.961	0.94
200_P	203_E	0.958	0.94
166_S	234_F	0.957	0.94
141_M	297_I	0.950	0.93
219_L	254_V	0.945	0.93
81_D	89_T	0.943	0.93
82_F	87_V	0.938	0.93
112_I	115_L	0.934	0.93
83_L	93_A	0.927	0.93
166_S	264_P	0.927	0.93
73_P	76_M	0.926	0.93
148_C	294_Y	0.915	0.92
74_D	77_V	0.910	0.92
80_D	88_C	0.903	0.92
70_L	79_E	0.894	0.91
91_D	95_E	0.893	0.91
197_M	221_A	0.889	0.91
115_L	193_S	0.886	0.91
82_F	88_C	0.882	0.91
148_C	151_E	0.881	0.91
127_K	132_N	0.881	0.91
212_F	215_L	0.878	0.90
129_L	183_A	0.877	0.90
234_F	282_A	0.876	0.90
202_V	253_S	0.874	0.90
69_D	73_P	0.873	0.90
89_T	95_E	0.871	0.90
208_L	213_D	0.870	0.90
234_F	241_P	0.868	0.90
86_K	89_T	0.863	0.90
243_A	247_Q	0.851	0.89
184_I	229_F	0.849	0.89
88_C	96_W	0.843	0.89
106_C	110_K	0.836	0.88
189_I	196_C	0.835	0.88
129_L	186_N	0.833	0.88
99_T	104_C	0.829	0.88
96_W	106_C	0.828	0.88
57_H	60_T	0.824	0.87
58_K	62_W	0.819	0.87
172_Q	281_E	0.819	0.87
207_D	221_A	0.814	0.87
212_F	247_Q	0.813	0.87
219_L	250_Q	0.810	0.87
84_L	88_C	0.806	0.86
124_E	262_H	0.805	0.86
131_G	266_L	0.802	0.86
104_C	107_V	0.792	0.85
88_C	94_S	0.791	0.85
254_V	258_R	0.790	0.85
59_D	63_H	0.789	0.85
37_E	41_F	0.788	0.85
235_K	270_E	0.788	0.85
208_L	212_F	0.786	0.85
202_V	249_E	0.783	0.85
107_V	110_K	0.783	0.85
220_D	224_K	0.778	0.84
97_K	106_C	0.778	0.84
154_K	192_K	0.777	0.84
101_S	108_R	0.776	0.84
211_N	218_K	0.764	0.83
200_P	256_N	0.764	0.83
98_D	101_S	0.763	0.83
256_N	285_S	0.763	0.83
288_H	293_D	0.762	0.83
39_A	46_C	0.759	0.83
295_I	299_R	0.757	0.83
98_D	107_V	0.756	0.83
38_K	43_C	0.753	0.82
99_T	109_R	0.752	0.82
113_A	120_G	0.748	0.82
100_Y	104_C	0.746	0.82
210_A	216_E	0.745	0.82
99_T	103_Q	0.740	0.81
200_P	279_I	0.740	0.81
43_C	46_C	0.738	0.81
149_A	167_I	0.738	0.81
81_D	93_A	0.736	0.81
84_L	89_T	0.736	0.81
201_Y	234_F	0.735	0.81
267_I	287_I	0.734	0.81
171_G	231_D	0.733	0.81
189_I	285_S	0.732	0.80
93_A	104_C	0.728	0.80
89_T	94_S	0.727	0.80
114_R	118_A	0.727	0.80
250_Q	253_S	0.724	0.80
101_S	106_C	0.723	0.80
295_I	300_G	0.721	0.79
145_A	204_G	0.719	0.79
89_T	92_K	0.716	0.79
84_L	107_V	0.709	0.78
115_L	195_H	0.707	0.78
92_K	95_E	0.706	0.78
82_F	109_R	0.704	0.78
125_F	182_T	0.704	0.78
145_A	294_Y	0.698	0.77
42_D	46_C	0.698	0.77
39_A	43_C	0.697	0.77
56_V	60_T	0.696	0.77
40_E	43_C	0.693	0.77
245_D	249_E	0.693	0.77
98_D	104_C	0.693	0.77
271_L	276_I	0.685	0.76
100_Y	106_C	0.683	0.76
39_A	42_D	0.681	0.76
234_F	267_I	0.678	0.75
208_L	215_L	0.678	0.75
108_R	112_I	0.677	0.75
57_H	63_H	0.670	0.74
276_I	284_G	0.669	0.74
141_M	145_A	0.667	0.74
229_F	266_L	0.665	0.74
168_A	287_I	0.665	0.74
44_P	77_V	0.664	0.74
208_L	219_L	0.662	0.73
199_F	222_M	0.661	0.73
168_A	276_I	0.660	0.73
101_S	104_C	0.657	0.73
235_K	282_A	0.657	0.73
259_Y	287_I	0.655	0.73
207_D	218_K	0.655	0.73
157_Q	192_K	0.654	0.73
82_F	89_T	0.644	0.71
195_H	226_E	0.643	0.71
134_I	137_G	0.643	0.71
216_E	219_L	0.642	0.71
154_K	224_K	0.641	0.71
166_S	290_M	0.637	0.71
168_A	251_I	0.637	0.71
295_I	298_I	0.636	0.70
188_L	246_W	0.633	0.70
157_Q	276_I	0.631	0.70
124_E	127_K	0.631	0.70
197_M	227_V	0.630	0.70
91_D	96_W	0.630	0.70
209_K	246_W	0.627	0.69
95_E	101_S	0.625	0.69
93_A	97_K	0.624	0.69
212_F	250_Q	0.620	0.69
185_M	268_S	0.619	0.68
234_F	258_R	0.617	0.68
75_D	78_S	0.615	0.68
94_S	102_K	0.613	0.68
143_K	147_E	0.610	0.67
123_E	126_E	0.609	0.67
223_R	253_S	0.608	0.67
203_E	207_D	0.600	0.66
71_M	78_S	0.598	0.66
249_E	254_V	0.591	0.65
38_K	42_D	0.585	0.64
168_A	234_F	0.585	0.64
143_K	150_V	0.585	0.64
258_R	264_P	0.584	0.64
170_L	201_Y	0.583	0.64
145_A	199_F	0.582	0.64
203_E	221_A	0.579	0.63
136_D	301_D	0.578	0.63
200_P	206_G	0.575	0.63
97_K	102_K	0.571	0.62
83_L	89_T	0.570	0.62
200_P	251_I	0.569	0.62
78_S	83_L	0.569	0.62
294_Y	298_I	0.567	0.62
268_S	289_Q	0.566	0.62
119_S	227_V	0.565	0.61
241_P	244_T	0.565	0.61
244_T	250_Q	0.565	0.61
167_I	227_V	0.565	0.61
232_D	235_K	0.565	0.61
95_E	105_E	0.565	0.61
96_W	103_Q	0.563	0.61
147_E	151_E	0.559	0.61
60_T	255_L	0.555	0.60
121_I	198_Y	0.555	0.60
178_T	186_N	0.555	0.60
81_D	97_K	0.553	0.60
206_G	250_Q	0.552	0.60
169_L	172_Q	0.551	0.59
173_P	209_K	0.550	0.59
273_I	293_D	0.549	0.59
93_A	106_C	0.549	0.59
266_L	290_M	0.548	0.59
166_S	251_I	0.548	0.59
83_L	99_T	0.547	0.59
94_S	99_T	0.546	0.59
147_E	154_K	0.546	0.59
207_D	222_M	0.544	0.59
257_Y	260_L	0.544	0.59
41_F	44_P	0.544	0.59
104_C	108_R	0.543	0.58
120_G	261_N	0.541	0.58
149_A	180_L	0.540	0.58
119_S	122_T	0.540	0.58
250_Q	254_V	0.538	0.58
170_L	272_T	0.537	0.58
201_Y	205_M	0.534	0.57
276_I	300_G	0.534	0.57
270_E	302_R	0.532	0.57
296_V	301_D	0.532	0.57
37_E	74_D	0.530	0.57
163_R	289_Q	0.526	0.56
93_A	99_T	0.525	0.56
68_L	252_Q	0.524	0.56
97_K	103_Q	0.523	0.56
49_R	52_V	0.523	0.56
205_M	243_A	0.521	0.55
128_L	204_G	0.521	0.55
179_H	301_D	0.520	0.55
256_N	260_L	0.520	0.55
173_P	235_K	0.520	0.55
169_L	294_Y	0.519	0.55
205_M	209_K	0.519	0.55
108_R	193_S	0.517	0.55
164_Q	264_P	0.516	0.55
82_F	86_K	0.515	0.54
125_F	218_K	0.515	0.54
143_K	146_Y	0.514	0.54
144_D	148_C	0.513	0.54
168_A	200_P	0.511	0.54
205_M	250_Q	0.511	0.54
248_V	283_L	0.511	0.54
154_K	158_K	0.510	0.54
230_I	287_I	0.508	0.53
154_K	181_L	0.508	0.53
173_P	249_E	0.505	0.53
103_Q	108_R	0.503	0.53
204_G	253_S	0.503	0.53
106_C	112_I	0.503	0.53
137_G	294_Y	0.501	0.52
241_P	258_R	0.501	0.52
168_A	253_S	0.500	0.52

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
4m4wJ	3	0.7796	100	0.467	Contact Map
2qgzA	1	0.5623	100	0.496	Contact Map
2w58A	2	0.5815	100	0.587	Contact Map
3ec2A	1	0.5208	100	0.607	Contact Map
2z4sA	1	0.5655	100	0.611	Contact Map
1l8qA	1	0.5655	99.9	0.637	Contact Map
3bosA	2	0.5591	99.9	0.675	Contact Map
2vhjA	3	0.8211	99.9	0.695	Contact Map
2kjqA	1	0.4696	99.7	0.738	Contact Map
1g5tA	2	0.393	99.7	0.745	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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