YAHE - ECOLI - GREMLIN Contacts

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YAHE - Uncharacterized protein YahE

UniProt:	P77297	Sequences: MWALTADADFLAQRGQGQVEQVFARAVNIALPARQQLLTLLCEEYDNAPNSCRLALTHFDDLFRHGDKVQFDDQGITVGQHLHIEMSRCRRWLSPTLQMTAVNFHLIAWLQWHDIIHQHLGENETLFNYRGDNPFYQALNKELHIKRRAVIQAVNDKQNIASAVASMMGLGIGLTPSADDYLTGLALILFIPGHPAEKYKEEFYLGLQRGKNNTTLLSAITLEAALQQRCRENIHRFIHNIIYDIPGNATQAIEKIKHIGSSSGCDMLYGMADGCALSQTYGGNYVS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13589
Length:	287 (262)
Sequences:	281 (256)
Seq/√Len:	15.8

ECOLI - YAHE YLBF

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
26_A	39_T	5.436	1.00
21_Q	28_N	4.462	1.00
20_E	28_N	4.106	1.00
26_A	41_L	3.440	0.99
51_S	221_T	3.153	0.99
166_S	170_L	3.043	0.98
28_N	37_L	2.999	0.98
49_P	225_A	2.910	0.98
17_G	69_V	2.880	0.98
188_I	271_M	2.776	0.97
181_Y	273_D	2.418	0.94
41_L	53_R	2.380	0.93
27_V	40_L	2.327	0.92
164_V	182_L	2.263	0.91
26_A	40_L	2.259	0.91
167_M	178_A	2.157	0.89
257_K	265_C	2.107	0.88
183_T	225_A	2.092	0.87
183_T	221_T	2.051	0.86
185_L	274_G	2.051	0.86
47_N	92_W	2.009	0.85
187_L	230_C	1.996	0.84
51_S	170_L	1.991	0.84
260_G	270_G	1.958	0.83
263_S	270_G	1.958	0.83
260_G	263_S	1.958	0.83
17_G	22_V	1.940	0.83
221_T	231_R	1.903	0.81
175_T	180_D	1.855	0.80
49_P	186_A	1.845	0.79
170_L	221_T	1.833	0.79
28_N	221_T	1.795	0.77
41_L	51_S	1.785	0.77
221_T	230_C	1.772	0.76
187_L	234_I	1.706	0.74
62_L	253_I	1.682	0.72
49_P	184_G	1.678	0.72
264_G	270_G	1.662	0.72
260_G	264_G	1.662	0.72
184_G	222_L	1.623	0.70
234_I	271_M	1.621	0.70
46_D	231_R	1.615	0.69
39_T	170_L	1.607	0.69
51_S	215_T	1.598	0.68
222_L	225_A	1.578	0.67
215_T	221_T	1.573	0.67
263_S	266_D	1.567	0.67
266_D	270_G	1.567	0.67
260_G	266_D	1.567	0.67
221_T	262_S	1.558	0.66
27_V	124_E	1.549	0.66
231_R	267_M	1.503	0.64
175_T	264_G	1.499	0.63
180_D	264_G	1.499	0.63
17_G	230_C	1.473	0.62
39_T	45_Y	1.462	0.61
174_L	214_T	1.459	0.61
49_P	222_L	1.453	0.61
26_A	189_L	1.438	0.60
174_L	177_S	1.437	0.60
20_E	216_L	1.428	0.59
30_A	216_L	1.421	0.59
29_I	40_L	1.415	0.59
21_Q	37_L	1.405	0.58
28_N	39_T	1.402	0.58
41_L	267_M	1.387	0.57
256_I	259_I	1.374	0.56
39_T	50_N	1.371	0.56
171_G	176_P	1.363	0.56
173_G	176_P	1.363	0.56
17_G	31_L	1.342	0.55
26_A	45_Y	1.336	0.54
170_L	215_T	1.302	0.52
25_R	44_E	1.300	0.52
185_L	225_A	1.277	0.51
50_N	170_L	1.266	0.50
76_I	183_T	1.261	0.50
21_Q	217_L	1.259	0.50
225_A	262_S	1.253	0.49
177_S	266_D	1.248	0.49
169_G	218_S	1.243	0.49
48_A	51_S	1.233	0.48
171_G	179_D	1.216	0.47
173_G	179_D	1.216	0.47
176_P	179_D	1.216	0.47
169_G	214_T	1.203	0.47
171_G	180_D	1.202	0.46
173_G	180_D	1.202	0.46
171_G	175_T	1.202	0.46
176_P	180_D	1.202	0.46
36_Q	207_L	1.197	0.46
27_V	39_T	1.196	0.46
170_L	178_A	1.190	0.46
17_G	29_I	1.188	0.46
224_A	230_C	1.173	0.45
45_Y	48_A	1.150	0.44
182_L	222_L	1.145	0.43
115_I	151_I	1.145	0.43
23_F	256_I	1.144	0.43
169_G	176_P	1.141	0.43
169_G	173_G	1.141	0.43
48_A	231_R	1.134	0.43
183_T	267_M	1.126	0.42
220_I	224_A	1.120	0.42
26_A	50_N	1.117	0.42
23_F	28_N	1.108	0.41
164_V	207_L	1.107	0.41
40_L	170_L	1.104	0.41
171_G	270_G	1.099	0.41
173_G	260_G	1.099	0.41
176_P	263_S	1.099	0.41
173_G	263_S	1.099	0.41
171_G	263_S	1.099	0.41
171_G	260_G	1.099	0.41
176_P	270_G	1.099	0.41
173_G	270_G	1.099	0.41
176_P	260_G	1.099	0.41
274_G	277_L	1.096	0.40
117_H	244_D	1.093	0.40
39_T	183_T	1.092	0.40
177_S	234_I	1.088	0.40
173_G	184_G	1.086	0.40
171_G	184_G	1.086	0.40
176_P	184_G	1.086	0.40
262_S	273_D	1.074	0.39
19_V	22_V	1.073	0.39
191_I	201_E	1.071	0.39
41_L	46_D	1.063	0.39
86_M	257_K	1.052	0.38
174_L	180_D	1.048	0.38
26_A	221_T	1.044	0.38
175_T	179_D	1.043	0.38
164_V	203_F	1.034	0.37
21_Q	170_L	1.022	0.36
50_N	232_E	1.006	0.36
177_S	261_S	0.989	0.35
47_N	261_S	0.979	0.34
169_G	179_D	0.978	0.34
256_I	267_M	0.975	0.34
169_G	180_D	0.965	0.33
169_G	175_T	0.965	0.33
37_L	221_T	0.955	0.33
183_T	222_L	0.953	0.33
256_I	273_D	0.952	0.33
179_D	260_G	0.946	0.32
179_D	263_S	0.946	0.32
179_D	270_G	0.946	0.32
50_N	220_I	0.940	0.32
175_T	270_G	0.934	0.32
175_T	263_S	0.934	0.32
180_D	263_S	0.934	0.32
175_T	260_G	0.934	0.32
180_D	270_G	0.934	0.32
180_D	260_G	0.934	0.32
168_M	182_L	0.933	0.32
228_Q	256_I	0.933	0.32
164_V	186_A	0.923	0.31
84_I	188_I	0.922	0.31
66_G	218_S	0.911	0.31
41_L	170_L	0.910	0.31
116_I	250_T	0.908	0.31
63_F	220_I	0.899	0.30
179_D	184_G	0.886	0.30
19_V	42_C	0.886	0.30
27_V	166_S	0.884	0.29
28_N	230_C	0.873	0.29
180_D	184_G	0.872	0.29
175_T	184_G	0.872	0.29
169_G	263_S	0.871	0.29
169_G	270_G	0.871	0.29
169_G	260_G	0.871	0.29
205_L	251_Q	0.867	0.29
267_M	273_D	0.867	0.29
39_T	221_T	0.866	0.29
26_A	181_Y	0.862	0.28
84_I	93_L	0.860	0.28
216_L	219_A	0.858	0.28
71_F	115_I	0.857	0.28
48_A	92_W	0.856	0.28
26_A	215_T	0.855	0.28
20_E	37_L	0.852	0.28
183_T	234_I	0.850	0.28
46_D	273_D	0.846	0.28
62_L	197_E	0.843	0.28
164_V	210_G	0.843	0.28
48_A	261_S	0.840	0.27
171_G	264_G	0.838	0.27
173_G	264_G	0.838	0.27
176_P	264_G	0.838	0.27
172_I	268_L	0.834	0.27
72_D	118_Q	0.825	0.27
135_F	231_R	0.820	0.26
188_I	241_I	0.819	0.26
52_C	126_L	0.819	0.26
25_R	205_L	0.811	0.26
222_L	231_R	0.810	0.26
38_L	166_S	0.805	0.26
25_R	39_T	0.801	0.26
184_G	268_L	0.800	0.26
184_G	270_G	0.797	0.25
184_G	260_G	0.797	0.25
184_G	263_S	0.797	0.25
54_L	114_D	0.797	0.25
169_G	184_G	0.795	0.25
39_T	49_P	0.794	0.25
215_T	267_M	0.792	0.25
268_L	271_M	0.791	0.25
235_H	262_S	0.788	0.25
77_T	154_V	0.786	0.25
176_P	214_T	0.783	0.25
171_G	214_T	0.783	0.25
173_G	214_T	0.783	0.25
253_I	256_I	0.779	0.25
41_L	178_A	0.778	0.25
171_G	218_S	0.773	0.24
173_G	218_S	0.773	0.24
176_P	218_S	0.773	0.24
170_L	259_I	0.767	0.24
169_G	174_L	0.762	0.24
125_T	129_Y	0.762	0.24
39_T	51_S	0.758	0.24
39_T	261_S	0.757	0.24
26_A	78_V	0.755	0.24
44_E	267_M	0.754	0.24
171_G	266_D	0.753	0.24
173_G	266_D	0.753	0.24
176_P	266_D	0.753	0.24
20_E	23_F	0.752	0.24
46_D	267_M	0.752	0.24
57_T	168_M	0.751	0.23
49_P	185_L	0.751	0.23
20_E	223_E	0.748	0.23
165_A	213_N	0.746	0.23
68_K	141_K	0.737	0.23
73_D	177_S	0.734	0.23
187_L	224_A	0.734	0.23
89_C	256_I	0.731	0.23
163_A	269_Y	0.725	0.22
67_D	224_A	0.723	0.22
186_A	230_C	0.719	0.22
35_Q	275_C	0.719	0.22
64_R	90_R	0.717	0.22
54_L	199_Y	0.716	0.22
39_T	189_L	0.714	0.22
170_L	189_L	0.713	0.22
188_I	261_S	0.712	0.22
74_Q	100_T	0.711	0.22
38_L	50_N	0.709	0.22
21_Q	52_C	0.708	0.22
119_H	241_I	0.708	0.22
19_V	29_I	0.704	0.22
38_L	98_Q	0.704	0.22
112_W	118_Q	0.701	0.21
186_A	203_F	0.700	0.21
160_I	188_I	0.698	0.21
28_N	217_L	0.692	0.21
66_G	274_G	0.692	0.21
174_L	218_S	0.689	0.21
75_G	153_A	0.688	0.21
39_T	269_Y	0.688	0.21
178_A	203_F	0.684	0.21
215_T	256_I	0.682	0.21
50_N	267_M	0.680	0.21
152_Q	262_S	0.680	0.21
58_H	234_I	0.675	0.20
108_A	238_I	0.671	0.20
25_R	69_V	0.671	0.20
112_W	115_I	0.669	0.20
99_M	191_I	0.668	0.20
181_Y	189_L	0.667	0.20
179_D	264_G	0.666	0.20
164_V	226_L	0.665	0.20
85_E	107_I	0.665	0.20
21_Q	221_T	0.665	0.20
58_H	189_L	0.663	0.20
160_I	185_L	0.662	0.20
49_P	229_R	0.658	0.20
54_L	73_D	0.656	0.20
120_L	124_E	0.651	0.20
167_M	195_P	0.651	0.20
23_F	266_D	0.648	0.19
174_L	264_G	0.648	0.19
150_V	156_D	0.648	0.19
232_E	269_Y	0.646	0.19
46_D	237_F	0.642	0.19
37_L	237_F	0.641	0.19
40_L	193_G	0.637	0.19
48_A	134_P	0.637	0.19
105_H	108_A	0.636	0.19
92_W	261_S	0.635	0.19
54_L	157_K	0.633	0.19
203_F	274_G	0.631	0.19
164_V	230_C	0.630	0.19
214_T	218_S	0.628	0.19
129_Y	133_N	0.626	0.19
26_A	170_L	0.622	0.19
22_V	65_H	0.616	0.18
217_L	257_K	0.615	0.18
49_P	234_I	0.614	0.18
52_C	185_L	0.612	0.18
225_A	230_C	0.610	0.18
132_D	258_H	0.609	0.18
119_H	157_K	0.606	0.18
92_W	170_L	0.605	0.18
94_S	164_V	0.602	0.18
29_I	125_T	0.601	0.18
178_A	275_C	0.601	0.18
237_F	256_I	0.600	0.18
179_D	214_T	0.599	0.18
61_D	276_A	0.599	0.18
35_Q	90_R	0.598	0.18
40_L	97_L	0.596	0.18
57_T	275_C	0.596	0.18
41_L	50_N	0.596	0.18
25_R	71_F	0.594	0.18
203_F	224_A	0.593	0.18
213_N	228_Q	0.589	0.17
27_V	189_L	0.589	0.17
26_A	185_L	0.589	0.17
180_D	214_T	0.588	0.17
175_T	214_T	0.588	0.17
47_N	232_E	0.587	0.17
106_L	245_I	0.587	0.17
169_G	264_G	0.586	0.17
254_E	259_I	0.586	0.17
65_H	132_D	0.585	0.17
71_F	271_M	0.585	0.17
190_F	271_M	0.584	0.17
230_C	267_M	0.584	0.17
178_A	270_G	0.583	0.17
178_A	260_G	0.583	0.17
178_A	263_S	0.583	0.17
42_C	59_F	0.583	0.17
17_G	48_A	0.579	0.17
50_N	269_Y	0.577	0.17
262_S	271_M	0.573	0.17
50_N	224_A	0.572	0.17
50_N	221_T	0.571	0.17
35_Q	155_N	0.571	0.17
26_A	53_R	0.568	0.17
46_D	181_Y	0.566	0.17
92_W	189_L	0.566	0.17
14_R	18_Q	0.563	0.17
50_N	185_L	0.560	0.16
179_D	266_D	0.557	0.16
35_Q	234_I	0.555	0.16
207_L	217_L	0.552	0.16
93_L	133_N	0.552	0.16
215_T	219_A	0.550	0.16
175_T	266_D	0.548	0.16
180_D	266_D	0.548	0.16
29_I	113_H	0.547	0.16
27_V	170_L	0.546	0.16
179_D	218_S	0.542	0.16
168_M	255_K	0.542	0.16
66_G	207_L	0.541	0.16
170_L	181_Y	0.540	0.16
106_L	238_I	0.540	0.16
115_I	140_N	0.539	0.16
147_R	193_G	0.538	0.16
109_W	248_N	0.538	0.16
152_Q	243_Y	0.537	0.16
101_A	187_L	0.534	0.16
180_D	218_S	0.533	0.16
175_T	218_S	0.533	0.16
221_T	267_M	0.533	0.16
48_A	221_T	0.530	0.16
170_L	217_L	0.530	0.16
27_V	64_R	0.530	0.16
112_W	220_I	0.529	0.16
133_N	136_Y	0.528	0.15
197_E	227_Q	0.526	0.15
217_L	266_D	0.526	0.15
208_Q	271_M	0.525	0.15
225_A	241_I	0.525	0.15
146_K	247_G	0.524	0.15
52_C	206_G	0.524	0.15
114_D	191_I	0.522	0.15
28_N	174_L	0.516	0.15
16_Q	67_D	0.513	0.15
36_Q	206_G	0.511	0.15
170_L	183_T	0.508	0.15
185_L	275_C	0.508	0.15
52_C	215_T	0.504	0.15
46_D	172_I	0.503	0.15
214_T	270_G	0.502	0.15
214_T	263_S	0.502	0.15
214_T	260_G	0.502	0.15
27_V	70_Q	0.502	0.15
187_L	238_I	0.502	0.15
96_T	235_H	0.501	0.15
19_V	49_P	0.501	0.15
186_A	231_R	0.500	0.15

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
4ifdJ	1	0.3066	13.6	0.96	Contact Map
2vnuD	1	0.2753	13.5	0.96	Contact Map
5a1uG	1	0.2091	13.3	0.96	Contact Map
1jalA	1	0.2544	11.7	0.961	Contact Map
1eoqA	1	0.2509	9.9	0.962	Contact Map
2r7dA	1	0.2474	8.4	0.963	Contact Map
4p6zG	1	0.2857	8.1	0.964	Contact Map
2od5A	4	0.2997	7.7	0.964	Contact Map
4q9vA	2	0.223	6.1	0.966	Contact Map
3nbxX	1	0.5226	5.8	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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