YIEGIA - PFAM28P - GREMLIN Contacts

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YIEGIA - YIEGIA protein

PFAM:	PF14045	Sequences: VILLGIIAGTLARLLMLRTDYRQYPTYPHGYIIHLSLGFIAAALGAVAVPALLEKEFTAVTFLALAAQQFREVRNMERETLTNLEETELVPRGAAYIEGIAKVFEARNYLVIFTALLTSLAYILFNIWAGIIAGIIALLILKRLMSGKTIGDIADVEPAKIRFDGPLLYVDDIYIMNVGLPESREKILEEGLGVIIKPKNDNARATLANLGQRQAILHDASTILGVKRDVGEPELTPLARRDLDTGRVGLFILPQEKDIEKLIEAVKRVPVLESAKRKPLE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	281 (280)
Sequences:	525 (377)
Seq/√Len:	22.5
META:	0.535

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
185_E	189_E	7.454	1.00
157_E	197_K	4.663	1.00
263_I	267_K	3.859	1.00
194_V	266_V	3.724	1.00
121_A	133_A	3.580	1.00
158_P	259_I	3.566	1.00
190_E	227_K	3.542	1.00
168_L	251_F	3.012	1.00
155_D	199_K	2.973	1.00
183_S	234_E	2.953	0.99
154_A	196_I	2.871	0.99
99_G	147_G	2.805	0.99
194_V	262_L	2.800	0.99
122_Y	130_G	2.784	0.99
159_A	171_D	2.763	0.99
156_V	267_K	2.750	0.99
172_D	242_D	2.707	0.99
173_I	249_G	2.617	0.99
208_A	241_R	2.596	0.99
155_D	197_K	2.585	0.99
228_R	236_T	2.519	0.98
10_T	35_L	2.487	0.98
167_L	174_Y	2.445	0.98
10_T	39_F	2.442	0.98
151_G	267_K	2.375	0.97
35_L	39_F	2.365	0.97
220_A	262_L	2.293	0.97
161_I	191_G	2.116	0.95
88_E	277_R	2.084	0.95
91_P	218_H	2.044	0.94
136_I	140_I	1.993	0.93
14_L	35_L	1.993	0.93
8_A	134_G	1.991	0.93
159_A	195_I	1.906	0.91
162_R	172_D	1.888	0.91
192_L	259_I	1.886	0.91
160_K	171_D	1.868	0.91
159_A	170_V	1.844	0.90
242_D	247_R	1.843	0.90
43_A	60_V	1.824	0.89
217_L	239_A	1.774	0.88
157_E	171_D	1.771	0.88
84_L	208_A	1.765	0.88
30_G	33_I	1.735	0.87
52_L	55_K	1.725	0.87
187_I	251_F	1.683	0.85
117_L	137_A	1.662	0.84
166_P	177_N	1.658	0.84
150_I	154_A	1.648	0.84
154_A	207_L	1.629	0.83
78_R	98_E	1.613	0.83
195_I	247_R	1.568	0.81
75_N	79_E	1.534	0.79
21_Y	34_H	1.525	0.79
193_G	249_G	1.523	0.79
192_L	262_L	1.516	0.78
150_I	207_L	1.496	0.77
110_L	145_M	1.490	0.77
158_P	192_L	1.480	0.77
206_T	226_V	1.478	0.77
117_L	133_A	1.447	0.75
36_S	80_T	1.436	0.74
181_P	185_E	1.423	0.74
217_L	231_G	1.413	0.73
34_H	104_F	1.411	0.73
239_A	248_V	1.410	0.73
26_T	265_A	1.386	0.72
88_E	214_Q	1.382	0.72
53_L	124_L	1.378	0.71
206_T	277_R	1.358	0.70
254_P	257_K	1.345	0.69
156_V	266_V	1.327	0.68
60_V	118_T	1.308	0.67
68_Q	112_I	1.292	0.66
60_V	65_L	1.285	0.66
130_G	134_G	1.284	0.66
115_A	182_E	1.261	0.64
220_A	266_V	1.239	0.63
6_I	116_L	1.238	0.63
132_I	136_I	1.236	0.63
244_D	258_D	1.228	0.62
217_L	250_L	1.221	0.62
9_G	13_R	1.219	0.62
169_Y	174_Y	1.216	0.61
21_Y	96_Y	1.215	0.61
52_L	56_E	1.214	0.61
228_R	231_G	1.203	0.61
183_S	186_K	1.185	0.59
31_Y	111_V	1.179	0.59
202_N	278_K	1.171	0.58
230_V	240_R	1.167	0.58
12_A	16_M	1.163	0.58
44_L	48_A	1.158	0.58
65_L	267_K	1.144	0.57
135_I	150_I	1.137	0.56
60_V	80_T	1.137	0.56
278_K	281_E	1.133	0.56
200_N	203_A	1.124	0.55
67_A	237_P	1.109	0.54
264_E	267_K	1.109	0.54
201_D	204_R	1.109	0.54
200_N	275_A	1.109	0.54
117_L	129_A	1.108	0.54
6_I	39_F	1.089	0.53
53_L	173_I	1.080	0.52
182_E	185_E	1.075	0.52
22_R	38_G	1.066	0.51
157_E	195_I	1.064	0.51
44_L	222_T	1.057	0.51
67_A	98_E	1.056	0.51
52_L	68_Q	1.054	0.50
163_F	168_L	1.053	0.50
175_I	202_N	1.047	0.50
79_E	83_N	1.045	0.50
121_A	160_K	1.038	0.49
64_A	196_I	1.032	0.49
38_G	44_L	1.027	0.49
188_L	199_K	1.026	0.48
178_V	187_I	1.023	0.48
80_T	122_Y	1.021	0.48
187_I	249_G	1.006	0.47
159_A	193_G	1.003	0.47
150_I	250_L	1.000	0.47
67_A	89_L	0.996	0.46
30_G	103_V	0.995	0.46
129_A	132_I	0.988	0.46
46_A	115_A	0.987	0.46
165_G	173_I	0.985	0.46
131_I	188_L	0.985	0.46
201_D	280_L	0.978	0.45
196_I	216_I	0.974	0.45
232_E	243_L	0.974	0.45
57_F	61_T	0.971	0.45
10_T	52_L	0.968	0.45
5_G	119_S	0.965	0.44
264_E	268_R	0.960	0.44
114_T	117_L	0.959	0.44
26_T	112_I	0.958	0.44
39_F	55_K	0.957	0.44
183_S	232_E	0.956	0.44
89_L	98_E	0.956	0.44
20_D	38_G	0.950	0.43
12_A	60_V	0.929	0.42
226_V	241_R	0.925	0.42
220_A	250_L	0.924	0.42
186_K	232_E	0.924	0.42
63_L	265_A	0.922	0.41
31_Y	118_T	0.922	0.41
162_R	169_Y	0.919	0.41
16_M	73_V	0.918	0.41
227_K	241_R	0.913	0.41
125_F	129_A	0.909	0.41
82_T	112_I	0.909	0.41
49_V	58_T	0.900	0.40
47_V	239_A	0.900	0.40
36_S	58_T	0.899	0.40
8_A	118_T	0.892	0.39
99_G	110_L	0.889	0.39
85_E	240_R	0.888	0.39
230_V	234_E	0.885	0.39
90_V	98_E	0.883	0.39
42_A	269_V	0.876	0.38
89_L	200_N	0.874	0.38
22_R	104_F	0.874	0.38
140_I	144_L	0.872	0.38
220_A	252_I	0.872	0.38
169_Y	249_G	0.871	0.38
95_A	156_V	0.866	0.38
56_E	65_L	0.865	0.38
117_L	155_D	0.864	0.38
39_F	113_F	0.863	0.38
8_A	114_T	0.858	0.37
110_L	254_P	0.850	0.37
121_A	125_F	0.848	0.37
34_H	279_P	0.846	0.36
229_D	243_L	0.844	0.36
118_T	121_A	0.843	0.36
231_G	235_L	0.842	0.36
186_K	227_K	0.841	0.36
33_I	219_D	0.839	0.36
68_Q	72_E	0.837	0.36
186_K	208_A	0.830	0.35
43_A	68_Q	0.830	0.35
66_A	108_N	0.829	0.35
172_D	249_G	0.824	0.35
259_I	263_I	0.823	0.35
217_L	240_R	0.823	0.35
57_F	172_D	0.821	0.35
19_T	26_T	0.818	0.35
6_I	43_A	0.810	0.34
47_V	112_I	0.804	0.34
29_H	58_T	0.800	0.34
197_K	247_R	0.798	0.33
73_V	108_N	0.796	0.33
24_Y	34_H	0.794	0.33
111_V	141_L	0.793	0.33
30_G	206_T	0.792	0.33
158_P	194_V	0.789	0.33
163_F	174_Y	0.788	0.33
27_Y	178_V	0.785	0.33
163_F	188_L	0.780	0.32
242_D	278_K	0.780	0.32
79_E	207_L	0.779	0.32
4_L	118_T	0.779	0.32
95_A	141_L	0.776	0.32
95_A	111_V	0.775	0.32
11_L	185_E	0.770	0.32
194_V	220_A	0.766	0.32
15_L	199_K	0.765	0.31
113_F	191_G	0.764	0.31
71_R	109_Y	0.759	0.31
184_R	268_R	0.758	0.31
169_Y	172_D	0.758	0.31
96_Y	273_E	0.756	0.31
47_V	64_A	0.754	0.31
2_I	264_E	0.749	0.31
35_L	167_L	0.746	0.30
190_E	241_R	0.746	0.30
12_A	115_A	0.745	0.30
21_Y	279_P	0.745	0.30
8_A	80_T	0.744	0.30
116_L	232_E	0.742	0.30
160_K	172_D	0.741	0.30
7_I	131_I	0.739	0.30
27_Y	279_P	0.737	0.30
98_E	237_P	0.737	0.30
114_T	137_A	0.736	0.30
84_L	274_S	0.734	0.30
231_G	253_L	0.733	0.30
11_L	117_L	0.729	0.29
43_A	141_L	0.726	0.29
84_L	116_L	0.721	0.29
232_E	248_V	0.721	0.29
248_V	253_L	0.717	0.29
256_E	260_E	0.715	0.29
68_Q	96_Y	0.712	0.28
7_I	120_L	0.712	0.28
235_L	253_L	0.710	0.28
134_G	214_Q	0.706	0.28
119_S	122_Y	0.706	0.28
210_L	230_V	0.705	0.28
156_V	260_E	0.701	0.28
74_R	92_R	0.700	0.28
30_G	38_G	0.697	0.28
116_L	120_L	0.694	0.27
219_D	226_V	0.694	0.27
173_I	247_R	0.692	0.27
61_T	224_L	0.689	0.27
42_A	83_N	0.689	0.27
57_F	130_G	0.688	0.27
85_E	227_K	0.686	0.27
177_N	224_L	0.686	0.27
115_A	166_P	0.684	0.27
68_Q	223_I	0.684	0.27
57_F	143_R	0.681	0.27
12_A	143_R	0.680	0.27
65_L	113_F	0.679	0.27
172_D	193_G	0.678	0.27
29_H	36_S	0.678	0.27
271_V	274_S	0.674	0.26
47_V	58_T	0.674	0.26
4_L	207_L	0.672	0.26
227_K	253_L	0.672	0.26
19_T	31_Y	0.670	0.26
140_I	143_R	0.670	0.26
186_K	190_E	0.666	0.26
111_V	252_I	0.666	0.26
102_K	146_S	0.661	0.26
83_N	126_N	0.660	0.26
15_L	46_A	0.659	0.26
48_A	64_A	0.658	0.25
52_L	254_P	0.658	0.25
204_R	227_K	0.657	0.25
194_V	223_I	0.655	0.25
143_R	154_A	0.654	0.25
91_P	160_K	0.654	0.25
201_D	245_T	0.651	0.25
167_L	218_H	0.649	0.25
186_K	241_R	0.645	0.25
161_I	181_P	0.642	0.25
36_S	111_V	0.641	0.25
219_D	247_R	0.640	0.25
78_R	88_E	0.640	0.25
4_L	103_V	0.640	0.25
87_T	196_I	0.639	0.25
26_T	87_T	0.634	0.24
26_T	102_K	0.634	0.24
10_T	72_E	0.634	0.24
35_L	145_M	0.629	0.24
37_L	67_A	0.627	0.24
85_E	111_V	0.627	0.24
208_A	226_V	0.626	0.24
150_I	157_E	0.625	0.24
29_H	99_G	0.624	0.24
131_I	181_P	0.619	0.23
234_E	261_K	0.619	0.23
44_L	200_N	0.619	0.23
151_G	268_R	0.619	0.23
209_N	219_D	0.617	0.23
164_D	169_Y	0.616	0.23
37_L	68_Q	0.616	0.23
246_G	279_P	0.616	0.23
190_E	247_R	0.615	0.23
169_Y	191_G	0.615	0.23
21_Y	27_Y	0.613	0.23
131_I	135_I	0.613	0.23
190_E	208_A	0.612	0.23
21_Y	33_I	0.612	0.23
27_Y	60_V	0.611	0.23
71_R	177_N	0.610	0.23
44_L	66_A	0.608	0.23
132_I	185_E	0.607	0.23
17_L	21_Y	0.607	0.23
209_N	226_V	0.606	0.23
33_I	269_V	0.606	0.23
164_D	244_D	0.606	0.23
150_I	267_K	0.603	0.23
139_L	224_L	0.601	0.23
193_G	262_L	0.601	0.23
224_L	262_L	0.600	0.23
18_R	130_G	0.597	0.22
159_A	162_R	0.594	0.22
245_T	266_V	0.593	0.22
214_Q	231_G	0.589	0.22
60_V	104_F	0.589	0.22
21_Y	40_I	0.588	0.22
82_T	86_E	0.588	0.22
131_I	172_D	0.588	0.22
23_Q	177_N	0.587	0.22
22_R	34_H	0.587	0.22
36_S	83_N	0.586	0.22
231_G	236_T	0.586	0.22
67_A	90_V	0.585	0.22
24_Y	275_A	0.584	0.22
219_D	269_V	0.584	0.22
11_L	266_V	0.581	0.22
52_L	185_E	0.581	0.22
35_L	106_A	0.581	0.22
201_D	256_E	0.580	0.22
172_D	196_I	0.579	0.22
39_F	131_I	0.579	0.22
44_L	68_Q	0.578	0.22
56_E	60_V	0.576	0.21
72_E	75_N	0.575	0.21
102_K	223_I	0.575	0.21
3_L	260_E	0.574	0.21
87_T	94_A	0.573	0.21
143_R	199_K	0.573	0.21
52_L	253_L	0.573	0.21
157_E	160_K	0.572	0.21
29_H	141_L	0.569	0.21
220_A	248_V	0.569	0.21
243_L	253_L	0.568	0.21
175_I	181_P	0.568	0.21
37_L	202_N	0.567	0.21
151_G	186_K	0.565	0.21
98_E	236_T	0.564	0.21
158_P	263_I	0.564	0.21
34_H	38_G	0.563	0.21
60_V	187_I	0.563	0.21
270_P	273_E	0.562	0.21
187_I	193_G	0.562	0.21
177_N	232_E	0.560	0.21
186_K	191_G	0.557	0.21
141_L	223_I	0.556	0.21
147_G	272_L	0.554	0.20
68_Q	115_A	0.551	0.20
48_A	51_A	0.549	0.20
4_L	131_I	0.549	0.20
20_D	71_R	0.549	0.20
204_R	241_R	0.547	0.20
265_A	280_L	0.546	0.20
35_L	263_I	0.546	0.20
120_L	144_L	0.543	0.20
171_D	269_V	0.542	0.20
89_L	237_P	0.539	0.20
133_A	137_A	0.538	0.20
132_I	170_V	0.537	0.20
189_E	260_E	0.533	0.20
8_A	160_K	0.533	0.20
174_Y	232_E	0.533	0.20
200_N	210_L	0.532	0.19
121_A	260_E	0.531	0.19
41_A	213_R	0.531	0.19
2_I	10_T	0.531	0.19
257_K	266_V	0.530	0.19
53_L	220_A	0.529	0.19
170_V	233_P	0.528	0.19
52_L	264_E	0.528	0.19
186_K	244_D	0.528	0.19
11_L	14_L	0.527	0.19
40_I	176_M	0.524	0.19
239_A	250_L	0.524	0.19
88_E	279_P	0.524	0.19
90_V	210_L	0.524	0.19
19_T	102_K	0.523	0.19
23_Q	255_Q	0.522	0.19
49_V	120_L	0.518	0.19
124_L	138_L	0.518	0.19
21_Y	104_F	0.517	0.19
163_F	244_D	0.516	0.19
79_E	82_T	0.516	0.19
195_I	249_G	0.513	0.19
25_P	28_P	0.513	0.19
254_P	270_P	0.512	0.19
5_G	120_L	0.511	0.19
142_K	178_V	0.511	0.19
229_D	236_T	0.510	0.19
132_I	135_I	0.508	0.18
65_L	189_E	0.508	0.18
129_A	204_R	0.508	0.18
150_I	183_S	0.508	0.18
3_L	136_I	0.506	0.18
186_K	234_E	0.504	0.18
139_L	181_P	0.503	0.18
99_G	231_G	0.502	0.18
85_E	141_L	0.502	0.18
172_D	244_D	0.501	0.18
185_E	188_L	0.501	0.18
103_V	208_A	0.500	0.18

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
3af5A	1	0.4093	17	0.977	Contact Map
4px7A	1	0.242	13.3	0.978	Contact Map
3aqpA	1	0.4235	11	0.979	Contact Map
2m20A	2	0.2135	8.9	0.98	Contact Map
3qe7A	2	0.4306	7.8	0.98	Contact Map
4citA	1	0.3986	7	0.981	Contact Map
2ycbA	2	0.4164	5.9	0.981	Contact Map
3aqoA	1	0.2883	5.9	0.981	Contact Map
2p1lB	2	0.0854	5.5	0.981	Contact Map
4oh3A	2	0.2384	5.5	0.982	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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