YMAE - BACSU - GREMLIN Contacts

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YMAE - Uncharacterized protein YmaE

UniProt:	O31787	Sequences: MPYYICNTCGVQHAQTVDPPNSCLICEDERQYIHPDGQTWTTLEDMREKGNLQNILKKEEEHLYSIKTEPEFAIGQTAHLIQHKGFNVLWDCMTYLDQKTIDQINELGGIQAIALSHPHYYSTQVEWAEAFQAPIYIHEDDKEWVTRPSNHIHFWSGETLNMKPGLDLYRLGGHFKGGAVLHWSKGNEGKGCLLTGDIITVAADRNWVSFMYSYPNLIPLPASKVEEIAAKVKPLQFNRLYNAFSKVVKENADESVQRSAVRYIKALNSELFHT	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	274 (260)
Sequences:	414 (313)
Seq/√Len:	19.4

BACSU - YMAE

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
240_L	252_A	4.815	1.00
145_V	154_F	4.736	1.00
120_Y	243_A	4.723	1.00
199_I	232_V	3.995	1.00
178_G	198_I	3.980	1.00
63_L	194_L	3.286	1.00
167_D	182_H	3.037	0.99
142_K	154_F	2.850	0.99
103_Q	106_E	2.814	0.99
54_N	100_T	2.721	0.98
8_T	32_Y	2.695	0.98
261_V	265_K	2.676	0.98
109_G	131_F	2.645	0.98
62_H	82_Q	2.619	0.98
129_E	149_S	2.589	0.98
82_Q	107_L	2.440	0.97
173_G	220_L	2.384	0.96
128_A	133_A	2.256	0.95
60_E	239_R	2.245	0.94
87_N	109_G	2.240	0.94
128_A	151_H	2.238	0.94
55_I	69_E	2.220	0.94
251_N	254_E	2.174	0.93
132_Q	151_H	2.149	0.93
94_T	122_S	2.123	0.93
253_D	257_Q	1.963	0.89
13_H	24_L	1.951	0.89
110_I	131_F	1.853	0.86
128_A	134_P	1.818	0.85
87_N	131_F	1.781	0.84
139_E	156_S	1.779	0.84
120_Y	123_T	1.760	0.83
120_Y	178_G	1.749	0.83
36_D	39_T	1.718	0.82
6_C	9_C	1.683	0.80
68_T	100_T	1.680	0.80
8_T	31_Q	1.674	0.80
65_S	79_H	1.652	0.79
12_Q	266_A	1.652	0.79
236_Q	253_D	1.644	0.79
120_Y	194_L	1.638	0.78
169_Y	235_L	1.635	0.78
81_I	194_L	1.629	0.78
24_L	146_T	1.622	0.78
88_V	169_Y	1.610	0.77
50_G	95_Y	1.607	0.77
22_S	27_E	1.580	0.76
206_N	255_S	1.576	0.76
4_Y	20_P	1.542	0.74
161_N	164_P	1.539	0.74
173_G	228_I	1.537	0.74
54_N	66_I	1.534	0.74
54_N	68_T	1.528	0.73
23_C	26_C	1.512	0.72
80_L	87_N	1.506	0.72
125_V	149_S	1.492	0.71
64_Y	107_L	1.465	0.70
229_A	257_Q	1.418	0.67
257_Q	261_V	1.409	0.67
31_Q	216_N	1.409	0.67
121_Y	138_H	1.407	0.67
191_G	197_D	1.403	0.66
233_K	257_Q	1.396	0.66
98_Q	102_D	1.363	0.64
11_V	124_Q	1.360	0.64
90_W	155_W	1.341	0.63
96_L	133_A	1.338	0.63
220_L	228_I	1.330	0.62
228_I	253_D	1.300	0.60
68_T	94_T	1.294	0.60
94_T	123_T	1.289	0.60
88_V	181_L	1.277	0.59
222_A	267_L	1.269	0.59
112_A	166_L	1.267	0.58
202_A	207_W	1.262	0.58
12_Q	212_Y	1.259	0.58
168_L	179_A	1.246	0.57
5_I	99_K	1.244	0.57
5_I	41_T	1.244	0.57
140_D	266_A	1.241	0.57
238_N	253_D	1.236	0.56
213_S	216_N	1.231	0.56
115_L	120_Y	1.216	0.55
11_V	137_I	1.208	0.55
175_F	216_N	1.205	0.54
191_G	252_A	1.198	0.54
103_Q	107_L	1.197	0.54
167_D	235_L	1.188	0.53
210_F	215_P	1.177	0.53
159_T	167_D	1.167	0.52
193_L	246_K	1.161	0.52
114_A	168_L	1.158	0.51
212_Y	266_A	1.158	0.51
228_I	231_K	1.158	0.51
71_E	246_K	1.157	0.51
171_L	200_T	1.151	0.51
240_L	256_V	1.150	0.51
83_H	166_L	1.143	0.51
79_H	245_S	1.138	0.50
59_E	79_H	1.129	0.50
233_K	253_D	1.127	0.50
179_A	198_I	1.126	0.49
91_D	97_D	1.102	0.48
28_D	86_F	1.096	0.48
81_I	166_L	1.095	0.47
239_R	250_E	1.094	0.47
77_T	109_G	1.093	0.47
88_V	164_P	1.078	0.46
204_D	218_I	1.078	0.46
77_T	242_N	1.074	0.46
171_L	198_I	1.072	0.46
145_V	148_P	1.071	0.46
67_K	245_S	1.069	0.46
29_E	44_E	1.049	0.45
92_C	128_A	1.045	0.44
66_I	164_P	1.036	0.44
43_L	95_Y	1.030	0.43
161_N	165_G	1.025	0.43
165_G	223_S	1.007	0.42
20_P	221_P	1.001	0.42
194_L	197_D	0.999	0.41
140_D	176_K	0.987	0.41
6_C	10_G	0.977	0.40
88_V	112_A	0.975	0.40
115_L	122_S	0.972	0.40
121_Y	248_V	0.968	0.40
65_S	244_F	0.965	0.39
64_Y	82_Q	0.965	0.39
255_S	258_R	0.958	0.39
12_Q	245_S	0.951	0.38
85_G	156_S	0.946	0.38
133_A	218_I	0.943	0.38
96_L	100_T	0.941	0.38
197_D	201_V	0.937	0.38
78_A	90_W	0.925	0.37
94_T	217_L	0.924	0.37
175_F	213_S	0.921	0.37
99_K	107_L	0.918	0.37
10_G	121_Y	0.914	0.36
183_W	192_C	0.911	0.36
29_E	88_V	0.910	0.36
86_F	176_K	0.910	0.36
136_Y	142_K	0.909	0.36
62_H	185_K	0.905	0.36
87_N	96_L	0.904	0.36
126_E	147_R	0.893	0.35
77_T	87_N	0.893	0.35
64_Y	256_V	0.893	0.35
29_E	176_K	0.890	0.35
125_V	147_R	0.883	0.34
31_Q	38_Q	0.881	0.34
3_Y	12_Q	0.879	0.34
23_C	28_D	0.879	0.34
40_W	155_W	0.877	0.34
78_A	89_L	0.874	0.34
195_T	240_L	0.871	0.34
94_T	266_A	0.871	0.34
48_E	184_S	0.870	0.34
26_C	31_Q	0.866	0.33
178_G	257_Q	0.866	0.33
114_A	138_H	0.865	0.33
226_E	264_I	0.862	0.33
45_D	248_V	0.861	0.33
90_W	198_I	0.859	0.33
182_H	234_P	0.859	0.33
171_L	178_G	0.858	0.33
131_F	136_Y	0.857	0.33
11_V	115_L	0.857	0.33
155_W	191_G	0.851	0.33
157_G	211_M	0.850	0.33
166_L	236_Q	0.850	0.33
92_C	115_L	0.848	0.32
77_T	124_Q	0.848	0.32
251_N	258_R	0.847	0.32
7_N	39_T	0.845	0.32
67_K	244_F	0.843	0.32
73_A	255_S	0.839	0.32
229_A	260_A	0.834	0.32
38_Q	216_N	0.831	0.32
87_N	108_G	0.829	0.31
9_C	30_R	0.827	0.31
72_F	122_S	0.827	0.31
83_H	86_F	0.826	0.31
9_C	23_C	0.817	0.31
198_I	201_V	0.812	0.30
92_C	121_Y	0.810	0.30
126_E	205_R	0.809	0.30
112_A	209_S	0.808	0.30
91_D	127_W	0.807	0.30
207_W	255_S	0.806	0.30
32_Y	78_A	0.804	0.30
13_H	46_M	0.803	0.30
5_I	46_M	0.803	0.30
13_H	32_Y	0.802	0.30
97_D	100_T	0.798	0.30
229_A	240_L	0.796	0.30
153_H	164_P	0.793	0.29
7_N	81_I	0.792	0.29
155_W	214_Y	0.791	0.29
6_C	30_R	0.787	0.29
91_D	215_P	0.787	0.29
115_L	242_N	0.783	0.29
137_I	179_A	0.781	0.29
76_Q	216_N	0.779	0.29
115_L	124_Q	0.777	0.29
230_A	236_Q	0.776	0.29
115_L	169_Y	0.776	0.29
248_V	260_A	0.775	0.29
23_C	30_R	0.774	0.28
256_V	260_A	0.774	0.28
104_I	224_K	0.771	0.28
210_F	260_A	0.765	0.28
6_C	23_C	0.765	0.28
192_C	239_R	0.763	0.28
34_H	86_F	0.758	0.28
248_V	252_A	0.757	0.28
190_K	238_N	0.757	0.28
101_I	209_S	0.756	0.28
33_I	50_G	0.754	0.27
252_A	263_Y	0.750	0.27
255_S	262_R	0.748	0.27
20_P	170_R	0.747	0.27
129_E	151_H	0.738	0.27
42_T	95_Y	0.738	0.27
11_V	25_I	0.729	0.26
18_D	264_I	0.727	0.26
192_C	241_Y	0.726	0.26
84_K	180_V	0.725	0.26
189_G	197_D	0.723	0.26
84_K	99_K	0.722	0.26
229_A	264_I	0.718	0.26
88_V	242_N	0.717	0.26
20_P	60_E	0.714	0.25
138_H	198_I	0.714	0.25
12_Q	120_Y	0.712	0.25
135_I	254_E	0.712	0.25
25_I	31_Q	0.711	0.25
32_Y	214_Y	0.707	0.25
162_M	237_F	0.707	0.25
139_E	162_M	0.706	0.25
240_L	262_R	0.702	0.25
53_Q	192_C	0.701	0.25
3_Y	222_A	0.700	0.25
85_G	163_K	0.699	0.25
158_E	170_R	0.693	0.24
178_G	200_T	0.691	0.24
129_E	132_Q	0.691	0.24
19_P	27_E	0.687	0.24
113_I	128_A	0.686	0.24
60_E	63_L	0.684	0.24
73_A	246_K	0.684	0.24
105_N	131_F	0.684	0.24
68_T	72_F	0.683	0.24
173_G	221_P	0.680	0.24
171_L	231_K	0.679	0.24
72_F	235_L	0.678	0.24
93_M	122_S	0.677	0.24
4_Y	220_L	0.674	0.24
159_T	234_P	0.666	0.23
81_I	165_G	0.665	0.23
11_V	122_S	0.663	0.23
125_V	129_E	0.662	0.23
10_G	72_F	0.659	0.23
66_I	106_E	0.656	0.23
56_L	64_Y	0.654	0.23
92_C	120_Y	0.654	0.23
124_Q	137_I	0.652	0.23
126_E	204_D	0.648	0.22
185_K	190_K	0.648	0.22
141_D	175_F	0.647	0.22
95_Y	207_W	0.646	0.22
184_S	232_V	0.645	0.22
181_L	201_V	0.645	0.22
233_K	236_Q	0.642	0.22
91_D	120_Y	0.642	0.22
125_V	151_H	0.640	0.22
80_L	261_V	0.640	0.22
33_I	252_A	0.639	0.22
168_L	198_I	0.638	0.22
9_C	26_C	0.638	0.22
48_E	164_P	0.638	0.22
79_H	124_Q	0.636	0.22
31_Q	175_F	0.636	0.22
81_I	104_I	0.636	0.22
224_K	229_A	0.633	0.22
25_I	213_S	0.633	0.22
62_H	157_G	0.631	0.22
143_E	176_K	0.631	0.22
32_Y	258_R	0.629	0.22
50_G	94_T	0.629	0.22
29_E	262_R	0.628	0.22
171_L	228_I	0.622	0.21
227_E	231_K	0.622	0.21
222_A	264_I	0.619	0.21
89_L	108_G	0.619	0.21
208_V	240_L	0.618	0.21
133_A	179_A	0.617	0.21
76_Q	210_F	0.617	0.21
209_S	263_Y	0.617	0.21
254_E	258_R	0.617	0.21
162_M	184_S	0.616	0.21
5_I	70_P	0.616	0.21
224_K	227_E	0.616	0.21
246_K	263_Y	0.616	0.21
129_E	184_S	0.614	0.21
89_L	97_D	0.614	0.21
42_T	45_D	0.613	0.21
128_A	212_Y	0.613	0.21
124_Q	242_N	0.613	0.21
128_A	137_I	0.612	0.21
11_V	72_F	0.611	0.21
126_E	139_E	0.610	0.21
34_H	212_Y	0.609	0.21
232_V	235_L	0.606	0.21
11_V	94_T	0.605	0.21
78_A	93_M	0.601	0.20
246_K	249_K	0.600	0.20
211_M	214_Y	0.599	0.20
31_Q	215_P	0.593	0.20
28_D	176_K	0.587	0.20
204_D	262_R	0.586	0.20
12_Q	94_T	0.586	0.20
220_L	231_K	0.584	0.20
85_G	161_N	0.581	0.20
35_P	44_E	0.580	0.20
12_Q	218_I	0.579	0.19
163_K	166_L	0.578	0.19
24_L	32_Y	0.578	0.19
224_K	267_L	0.577	0.19
83_H	165_G	0.576	0.19
101_I	265_K	0.575	0.19
43_L	47_R	0.575	0.19
89_L	96_L	0.575	0.19
39_T	45_D	0.575	0.19
82_Q	131_F	0.574	0.19
212_Y	221_P	0.573	0.19
142_K	182_H	0.573	0.19
145_V	256_V	0.571	0.19
204_D	258_R	0.571	0.19
6_C	26_C	0.570	0.19
26_C	175_F	0.568	0.19
45_D	165_G	0.566	0.19
47_R	235_L	0.565	0.19
238_N	252_A	0.564	0.19
12_Q	125_V	0.564	0.19
202_A	248_V	0.563	0.19
139_E	183_W	0.562	0.19
188_E	197_D	0.557	0.19
179_A	214_Y	0.556	0.19
34_H	255_S	0.554	0.19
99_K	236_Q	0.548	0.18
138_H	155_W	0.545	0.18
169_Y	234_P	0.545	0.18
8_T	34_H	0.545	0.18
96_L	232_V	0.543	0.18
222_A	229_A	0.541	0.18
225_V	263_Y	0.540	0.18
110_I	260_A	0.539	0.18
77_T	245_S	0.539	0.18
18_D	223_S	0.538	0.18
25_I	216_N	0.537	0.18
140_D	159_T	0.534	0.18
106_E	110_I	0.534	0.18
137_I	154_F	0.534	0.18
63_L	143_E	0.531	0.18
153_H	247_V	0.531	0.18
188_E	191_G	0.527	0.17
173_G	231_K	0.526	0.17
116_S	119_H	0.526	0.17
158_E	209_S	0.526	0.17
162_M	182_H	0.524	0.17
93_M	120_Y	0.524	0.17
36_D	165_G	0.524	0.17
161_N	250_E	0.522	0.17
40_W	157_G	0.521	0.17
86_F	242_N	0.520	0.17
189_G	208_V	0.520	0.17
104_I	168_L	0.518	0.17
102_D	106_E	0.516	0.17
31_Q	213_S	0.516	0.17
221_P	264_I	0.514	0.17
27_E	114_A	0.513	0.17
170_R	173_G	0.513	0.17
252_A	262_R	0.512	0.17
77_T	169_Y	0.509	0.17
130_A	193_L	0.508	0.17
112_A	136_Y	0.508	0.17
222_A	225_V	0.503	0.17
29_E	240_L	0.502	0.17
46_M	73_A	0.500	0.17

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
4fekA	1	0.781	99.7	0.854	Contact Map
2p97A	6	0.719	99.7	0.855	Contact Map
4c1hA	1	0.7482	99.7	0.858	Contact Map
4dikA	2	0.7993	99.6	0.863	Contact Map
2q9uA	3	0.7883	99.6	0.865	Contact Map
2zo4A	1	0.7555	99.6	0.865	Contact Map
4c1gA	1	0.7336	99.6	0.865	Contact Map
1k07A	1	0.7847	99.6	0.866	Contact Map
1m2xA	2	0.7299	99.6	0.867	Contact Map
2yntA	2	0.7482	99.6	0.867	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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