DUF975 - PFAM28P - GREMLIN Contacts

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DUF975 - Protein of unknown function (DUF975)

PFAM:	PF06161	Sequences: MKSRKELKAEAREALKGNYGKAILATLIILLISFLLSFLISLIGGIGLSSILSLLLSSLLSGPLSVGLAYFFLKLARGKEEVSVSDLFYGFKSKNFGKALLLYLLIGLILFLWSLIALIPLLILLISLGLLLLSSSISSSLLLALLLLLILLLLILLIVGIIISLRYSLAPYILADNPDLGAKEALKESRRLMKGNKWRLFLLDLSFIGWYLLGILTLGIGLLWVIPYMNATYAEFYLDLKKNK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	244 (237)
Sequences:	1554 (1393)
Seq/√Len:	90.5
META:	0.743

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
196_N	199_R	4.454	1.00
167_Y	190_R	3.721	1.00
116_I	120_P	3.495	1.00
193_M	200_L	3.283	1.00
14_A	235_E	3.032	1.00
180_L	185_A	2.936	1.00
77_R	238_L	2.933	1.00
4_R	202_L	2.891	1.00
211_Y	229_M	2.840	1.00
165_L	204_D	2.807	1.00
8_K	206_S	2.732	1.00
193_M	236_F	2.721	1.00
203_L	232_T	2.560	1.00
4_R	8_K	2.527	1.00
198_W	202_L	2.503	1.00
188_E	191_R	2.445	1.00
169_L	193_M	2.408	1.00
7_L	232_T	2.394	1.00
170_A	186_L	2.383	1.00
214_G	225_V	2.348	1.00
207_F	232_T	2.342	1.00
166_R	190_R	2.293	1.00
206_S	228_Y	2.221	1.00
193_M	197_K	2.212	1.00
210_W	228_Y	2.207	1.00
197_K	201_F	2.197	1.00
207_F	228_Y	2.148	1.00
200_L	236_F	2.098	1.00
8_K	12_R	2.027	1.00
158_I	162_I	1.983	1.00
173_I	185_A	1.950	1.00
77_R	176_D	1.928	1.00
176_D	237_Y	1.912	1.00
166_R	197_K	1.906	1.00
192_L	241_K	1.825	1.00
165_L	200_L	1.760	1.00
214_G	221_G	1.755	1.00
199_R	239_D	1.749	1.00
109_I	113_W	1.729	1.00
200_L	204_D	1.728	1.00
222_L	225_V	1.705	1.00
214_G	217_T	1.667	1.00
165_L	197_K	1.666	1.00
231_A	234_A	1.649	1.00
172_Y	234_A	1.647	1.00
170_A	185_A	1.614	1.00
214_G	222_L	1.586	1.00
217_T	221_G	1.564	1.00
74_K	86_D	1.534	1.00
67_G	87_L	1.524	1.00
177_N	180_L	1.512	1.00
155_I	159_V	1.501	1.00
15_L	19_Y	1.499	1.00
113_W	167_Y	1.485	1.00
168_S	204_D	1.477	1.00
204_D	233_Y	1.468	1.00
172_Y	230_N	1.461	1.00
207_F	210_W	1.458	0.99
217_T	220_I	1.444	0.99
165_L	168_S	1.438	0.99
169_L	192_L	1.432	0.99
202_L	205_L	1.429	0.99
74_K	80_E	1.425	0.99
221_G	225_V	1.414	0.99
165_L	201_F	1.413	0.99
159_V	164_S	1.402	0.99
206_S	210_W	1.397	0.99
198_W	201_F	1.383	0.99
189_S	193_M	1.381	0.99
199_R	236_F	1.371	0.99
76_A	235_E	1.362	0.99
117_A	120_P	1.357	0.99
105_L	109_I	1.323	0.99
102_L	170_A	1.308	0.99
174_L	185_A	1.285	0.99
199_R	202_L	1.280	0.99
7_L	235_E	1.274	0.99
159_V	163_I	1.274	0.99
209_G	213_L	1.263	0.99
217_T	224_W	1.260	0.99
219_G	227_P	1.245	0.98
8_K	232_T	1.241	0.98
96_F	100_L	1.235	0.98
231_A	235_E	1.222	0.98
63_P	90_G	1.220	0.98
73_L	77_R	1.206	0.98
173_I	192_L	1.186	0.98
196_N	240_L	1.186	0.98
72_F	231_A	1.177	0.98
183_K	187_K	1.172	0.98
10_E	14_A	1.171	0.98
221_G	224_W	1.161	0.97
168_S	200_L	1.133	0.97
18_N	21_K	1.103	0.97
19_Y	23_I	1.092	0.96
235_E	238_L	1.080	0.96
29_I	87_L	1.066	0.96
216_L	221_G	1.059	0.96
150_I	154_L	1.058	0.96
87_L	91_F	1.052	0.95
20_G	23_I	1.049	0.95
211_Y	214_G	1.038	0.95
230_N	234_A	1.036	0.95
98_K	102_L	1.027	0.95
159_V	162_I	1.021	0.95
84_V	88_F	1.020	0.95
158_I	164_S	1.003	0.94
49_S	52_L	0.996	0.94
180_L	188_E	0.991	0.94
22_A	75_L	0.990	0.94
206_S	209_G	0.984	0.93
58_S	63_P	0.984	0.93
63_P	67_G	0.983	0.93
9_A	16_K	0.983	0.93
109_I	167_Y	0.980	0.93
9_A	12_R	0.979	0.93
238_L	241_K	0.977	0.93
113_W	116_I	0.976	0.93
8_K	207_F	0.974	0.93
156_L	160_G	0.972	0.93
207_F	225_V	0.971	0.93
173_I	180_L	0.970	0.93
59_L	97_G	0.969	0.93
11_A	235_E	0.966	0.93
153_L	157_L	0.963	0.93
185_A	189_S	0.962	0.93
211_Y	225_V	0.962	0.93
212_L	216_L	0.959	0.93
99_A	102_L	0.957	0.93
181_G	184_E	0.956	0.92
169_L	189_S	0.948	0.92
177_N	188_E	0.936	0.92
209_G	228_Y	0.929	0.91
4_R	12_R	0.929	0.91
113_W	190_R	0.926	0.91
4_R	199_R	0.926	0.91
34_F	38_F	0.913	0.91
166_R	186_L	0.913	0.91
35_L	39_L	0.891	0.90
76_A	238_L	0.890	0.90
168_S	233_Y	0.876	0.89
3_S	6_E	0.873	0.89
229_M	232_T	0.872	0.89
59_L	96_F	0.860	0.88
86_D	89_Y	0.858	0.88
20_G	24_L	0.857	0.88
44_G	47_G	0.855	0.88
102_L	185_A	0.854	0.87
8_K	202_L	0.849	0.87
105_L	113_W	0.847	0.87
220_I	224_W	0.842	0.87
236_F	239_D	0.828	0.86
101_L	104_L	0.826	0.86
119_I	122_L	0.821	0.85
83_S	154_L	0.819	0.85
104_L	108_L	0.815	0.85
180_L	184_E	0.814	0.85
6_E	9_A	0.812	0.85
151_L	155_I	0.811	0.85
162_I	166_R	0.810	0.85
213_L	217_T	0.810	0.85
22_A	72_F	0.799	0.84
119_I	127_S	0.795	0.83
73_L	175_A	0.795	0.83
67_G	90_G	0.793	0.83
20_G	25_A	0.791	0.83
134_S	137_I	0.790	0.83
132_L	135_S	0.789	0.83
167_Y	187_K	0.789	0.83
193_M	203_L	0.789	0.83
211_Y	222_L	0.787	0.83
67_G	91_F	0.787	0.83
182_A	186_L	0.784	0.83
214_G	219_G	0.784	0.83
95_N	99_A	0.783	0.83
70_Y	74_K	0.783	0.83
157_L	162_I	0.781	0.82
123_I	127_S	0.777	0.82
115_L	120_P	0.777	0.82
15_L	221_G	0.774	0.82
106_I	171_P	0.774	0.82
177_N	209_G	0.773	0.82
189_S	220_I	0.760	0.81
71_F	82_V	0.757	0.80
66_V	99_A	0.756	0.80
206_S	232_T	0.755	0.80
35_L	42_L	0.754	0.80
127_S	142_L	0.750	0.80
151_L	158_I	0.750	0.80
69_A	172_Y	0.748	0.80
123_I	128_L	0.746	0.79
40_I	43_I	0.745	0.79
19_Y	221_G	0.739	0.79
19_Y	210_W	0.738	0.79
97_G	101_L	0.738	0.79
18_N	23_I	0.737	0.79
152_L	156_L	0.732	0.78
88_F	91_F	0.731	0.78
173_I	178_P	0.727	0.78
156_L	159_V	0.726	0.78
205_L	208_I	0.724	0.77
167_Y	183_K	0.723	0.77
183_K	186_L	0.720	0.77
160_G	164_S	0.718	0.77
101_L	108_L	0.715	0.76
50_S	53_S	0.710	0.76
18_N	25_A	0.708	0.76
232_T	236_F	0.708	0.76
225_V	228_Y	0.707	0.76
176_D	238_L	0.707	0.76
40_I	47_G	0.705	0.75
68_L	72_F	0.699	0.75
228_Y	232_T	0.695	0.74
114_S	119_I	0.689	0.74
16_K	20_G	0.688	0.74
25_A	71_F	0.687	0.74
175_A	185_A	0.687	0.74
37_S	41_S	0.684	0.73
34_F	45_G	0.676	0.72
63_P	66_V	0.674	0.72
161_I	164_S	0.673	0.72
40_I	45_G	0.673	0.72
169_L	240_L	0.673	0.72
41_S	44_G	0.671	0.72
169_L	236_F	0.671	0.72
64_L	67_G	0.669	0.72
210_W	217_T	0.664	0.71
217_T	222_L	0.663	0.71
11_A	14_A	0.660	0.71
126_I	129_G	0.655	0.70
22_A	25_A	0.652	0.70
25_A	82_V	0.647	0.69
40_I	49_S	0.645	0.69
169_L	200_L	0.645	0.69
66_V	175_A	0.642	0.68
10_E	235_E	0.642	0.68
162_I	197_K	0.638	0.68
157_L	160_G	0.635	0.68
196_N	236_F	0.630	0.67
120_P	127_S	0.630	0.67
138_S	142_L	0.628	0.67
161_I	201_F	0.625	0.66
27_L	31_L	0.625	0.66
38_F	118_L	0.619	0.66
101_L	182_A	0.618	0.66
31_L	36_L	0.617	0.65
165_L	198_W	0.616	0.65
111_F	115_L	0.613	0.65
13_E	16_K	0.610	0.65
214_G	220_I	0.609	0.64
192_L	196_N	0.609	0.64
15_L	22_A	0.605	0.64
173_I	188_E	0.605	0.64
143_L	155_I	0.603	0.64
203_L	236_F	0.603	0.64
224_W	231_A	0.601	0.63
66_V	90_G	0.600	0.63
173_I	241_K	0.600	0.63
158_I	163_I	0.599	0.63
165_L	176_D	0.597	0.63
62_G	171_P	0.596	0.63
77_R	209_G	0.596	0.63
163_I	166_R	0.594	0.63
154_L	157_L	0.591	0.62
143_L	147_L	0.590	0.62
114_S	120_P	0.589	0.62
144_A	216_L	0.588	0.62
175_A	188_E	0.587	0.62
166_R	169_L	0.587	0.62
77_R	177_N	0.587	0.62
140_S	143_L	0.586	0.61
64_L	96_F	0.586	0.61
21_K	25_A	0.583	0.61
211_Y	215_I	0.580	0.61
182_A	185_A	0.576	0.60
36_L	44_G	0.573	0.60
36_L	39_L	0.573	0.60
18_N	75_L	0.572	0.60
133_L	137_I	0.572	0.60
177_N	241_K	0.571	0.59
157_L	163_I	0.569	0.59
61_S	65_S	0.569	0.59
66_V	76_A	0.568	0.59
219_G	224_W	0.568	0.59
169_L	237_Y	0.566	0.59
22_A	71_F	0.563	0.58
113_W	186_L	0.562	0.58
98_K	101_L	0.559	0.58
152_L	155_I	0.557	0.58
168_S	240_L	0.554	0.57
104_L	107_G	0.553	0.57
193_M	201_F	0.552	0.57
97_G	100_L	0.551	0.57
203_L	207_F	0.551	0.57
51_I	57_S	0.550	0.57
188_E	192_L	0.549	0.57
7_L	239_D	0.549	0.57
12_R	16_K	0.548	0.56
73_L	86_D	0.547	0.56
126_I	130_L	0.547	0.56
18_N	22_A	0.547	0.56
49_S	53_S	0.545	0.56
45_G	50_S	0.545	0.56
34_F	48_L	0.545	0.56
109_I	112_L	0.545	0.56
217_T	227_P	0.544	0.56
30_L	226_I	0.544	0.56
141_L	147_L	0.543	0.56
151_L	154_L	0.542	0.56
97_G	174_L	0.540	0.55
21_K	71_F	0.540	0.55
47_G	51_I	0.539	0.55
171_P	234_A	0.538	0.55
138_S	145_L	0.538	0.55
209_G	241_K	0.537	0.55
106_I	120_P	0.535	0.55
105_L	193_M	0.534	0.54
107_G	111_F	0.533	0.54
149_L	156_L	0.531	0.54
26_T	41_S	0.529	0.54
3_S	14_A	0.528	0.54
102_L	174_L	0.527	0.54
23_I	224_W	0.526	0.53
80_E	196_N	0.526	0.53
55_L	58_S	0.523	0.53
125_L	135_S	0.523	0.53
222_L	229_M	0.522	0.53
229_M	233_Y	0.519	0.52
201_F	209_G	0.519	0.52
113_W	117_A	0.517	0.52
189_S	197_K	0.517	0.52
14_A	19_Y	0.515	0.52
73_L	234_A	0.515	0.52
124_L	240_L	0.514	0.52
12_R	209_G	0.514	0.52
225_V	234_A	0.514	0.52
149_L	153_L	0.514	0.52
203_L	229_M	0.514	0.52
4_R	206_S	0.513	0.52
75_L	208_I	0.510	0.51
136_S	139_S	0.509	0.51
21_K	74_K	0.509	0.51
73_L	237_Y	0.506	0.51
178_P	185_A	0.505	0.51
70_Y	90_G	0.505	0.51
102_L	105_L	0.504	0.50
190_R	193_M	0.504	0.50
20_G	91_F	0.504	0.50
54_L	181_G	0.503	0.50
169_L	172_Y	0.503	0.50
67_G	106_I	0.502	0.50
66_V	102_L	0.502	0.50
132_L	136_S	0.502	0.50
203_L	237_Y	0.501	0.50
167_Y	170_A	0.501	0.50
165_L	190_R	0.500	0.50

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
2kogA	1	0.168	15.9	0.938	Contact Map
1n7lA	1	0.1557	12.1	0.941	Contact Map
4y3uB	1	0.1148	9.8	0.944	Contact Map
4kytB	2	0.1107	8.8	0.945	Contact Map
2m8rA	1	0.1803	5.3	0.95	Contact Map
3tx3A	2	0.2623	5.3	0.95	Contact Map
3hd7A	1	0.168	5.2	0.951	Contact Map
2xq2A	2	0.3607	3.9	0.954	Contact Map
2wswA	3	0.2869	3	0.956	Contact Map
3dl8C	1	0.1434	2.5	0.958	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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