DUF1517 - PFAM28P - GREMLIN Contacts

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DUF1517 - Protein of unknown function (DUF1517)

PFAM:	PF07466	Sequences: AARSGGRIGGGSFRSPSRSYSSPRSSGGGGGGGGSGGGYGGGYGGGGFGFPFLLPFFGFGGGGGLFGLLIFGAIAGFLVNAFRRAGGGGGGGGGGGYSSNPKVSVAKLQVGLLASARSLQRDLNRLAETADTSTPEGLAQVLQETTLALLRHPEYWVYAGAESQQVSLESAEATFNRLSLAERSKFSEETLSNVNGQLRQASAAAALPAGGSEEPGEYIVVTLLVATRGKLKLPKINSAEDLRQALRQLGSIPSDDLLALEVLWTPQAEGDTLTEDELLAEYPDLKLL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	288 (284)
Sequences:	690 (543)
Seq/√Len:	32.2
META:	0.646

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
186_F	263_L	3.726	1.00
182_E	185_K	3.283	1.00
225_V	249_L	3.132	1.00
24_R	27_G	2.994	1.00
191_L	267_Q	2.896	1.00
26_S	29_G	2.889	1.00
31_G	34_G	2.876	1.00
174_T	177_R	2.804	1.00
186_F	265_T	2.793	1.00
236_I	241_D	2.761	1.00
72_G	76_G	2.746	1.00
21_S	26_S	2.633	1.00
5_G	9_G	2.616	1.00
25_S	28_G	2.615	1.00
20_Y	23_P	2.601	1.00
147_L	151_R	2.573	1.00
172_E	176_N	2.564	1.00
122_D	125_R	2.553	1.00
30_G	33_G	2.385	0.99
237_N	241_D	2.360	0.99
108_L	159_A	2.256	0.99
50_F	53_L	2.218	0.99
132_T	176_N	2.137	0.98
81_A	85_A	2.118	0.98
132_T	137_G	2.088	0.98
117_R	120_Q	2.021	0.98
126_L	141_V	2.014	0.98
122_D	138_L	2.000	0.98
26_S	30_G	1.985	0.98
146_T	250_G	1.980	0.98
124_N	267_Q	1.933	0.97
50_F	56_F	1.926	0.97
18_R	21_S	1.895	0.97
119_L	155_Y	1.883	0.97
108_L	161_A	1.874	0.96
258_L	277_E	1.869	0.96
53_L	56_F	1.854	0.96
48_F	51_P	1.854	0.96
128_E	200_Q	1.850	0.96
238_S	241_D	1.845	0.96
221_V	271_D	1.797	0.96
134_T	229_G	1.793	0.95
27_G	30_G	1.792	0.95
110_V	242_L	1.776	0.95
135_P	138_L	1.763	0.95
70_I	74_I	1.753	0.95
164_Q	174_T	1.741	0.95
40_G	43_Y	1.737	0.95
125_R	129_T	1.721	0.94
13_F	172_E	1.705	0.94
179_S	242_L	1.703	0.94
5_G	10_G	1.688	0.94
80_N	84_R	1.683	0.94
52_F	55_P	1.665	0.93
268_A	271_D	1.657	0.93
185_K	263_L	1.649	0.93
275_E	279_L	1.640	0.93
33_G	36_G	1.640	0.93
7_R	13_F	1.631	0.93
68_L	72_G	1.628	0.92
52_F	56_F	1.618	0.92
217_E	271_D	1.617	0.92
182_E	220_V	1.616	0.92
47_G	52_F	1.615	0.92
24_R	30_G	1.554	0.91
190_T	267_Q	1.551	0.90
165_Q	230_K	1.548	0.90
6_G	10_G	1.544	0.90
121_R	269_E	1.536	0.90
214_E	271_D	1.527	0.90
143_Q	180_L	1.511	0.89
134_T	137_G	1.503	0.89
121_R	125_R	1.494	0.89
143_Q	176_N	1.491	0.89
24_R	28_G	1.469	0.88
23_P	27_G	1.466	0.88
263_L	267_Q	1.446	0.87
41_G	45_G	1.441	0.87
6_G	9_G	1.434	0.87
7_R	12_S	1.427	0.86
28_G	31_G	1.415	0.86
51_P	54_L	1.413	0.86
183_R	189_E	1.390	0.85
275_E	281_E	1.388	0.85
23_P	29_G	1.383	0.85
63_G	76_G	1.362	0.84
138_L	260_L	1.359	0.83
39_Y	43_Y	1.357	0.83
109_Q	282_Y	1.306	0.81
67_G	73_A	1.299	0.81
139_A	179_S	1.280	0.80
122_D	148_A	1.279	0.80
51_P	55_P	1.263	0.79
8_I	145_T	1.263	0.79
173_A	251_S	1.256	0.78
19_S	22_S	1.252	0.78
180_L	250_G	1.249	0.78
107_K	178_L	1.240	0.77
41_G	44_G	1.235	0.77
109_Q	182_E	1.232	0.77
136_E	269_E	1.230	0.77
16_P	23_P	1.223	0.76
32_G	37_G	1.217	0.76
46_G	50_F	1.212	0.76
115_S	215_P	1.205	0.75
145_T	262_V	1.193	0.75
132_T	138_L	1.180	0.74
148_A	271_D	1.178	0.74
42_G	50_F	1.176	0.73
178_L	182_E	1.176	0.73
221_V	277_E	1.176	0.73
144_E	148_A	1.155	0.72
29_G	33_G	1.142	0.71
188_E	204_A	1.142	0.71
36_G	39_Y	1.142	0.71
170_S	223_L	1.125	0.70
8_I	141_V	1.121	0.70
111_G	142_L	1.115	0.69
27_G	32_G	1.103	0.69
110_V	161_A	1.101	0.68
223_L	249_L	1.098	0.68
134_T	278_L	1.094	0.68
47_G	50_F	1.090	0.68
181_A	284_D	1.083	0.67
69_L	73_A	1.066	0.66
100_N	106_A	1.065	0.66
19_S	25_S	1.056	0.65
108_L	241_D	1.053	0.65
249_L	271_D	1.046	0.64
135_P	177_R	1.045	0.64
28_G	37_G	1.043	0.64
179_S	196_G	1.038	0.64
265_T	287_L	1.033	0.63
21_S	31_G	1.032	0.63
274_T	279_L	1.032	0.63
218_Y	273_L	1.027	0.63
24_R	29_G	1.008	0.61
111_G	119_L	1.003	0.61
273_L	276_D	0.994	0.60
30_G	34_G	0.989	0.60
207_L	211_G	0.986	0.60
32_G	35_S	0.983	0.59
75_A	79_V	0.978	0.59
259_A	272_T	0.978	0.59
70_I	202_S	0.970	0.58
162_E	284_D	0.969	0.58
109_Q	178_L	0.964	0.58
66_F	70_I	0.962	0.58
197_Q	274_T	0.960	0.58
17_S	20_Y	0.949	0.57
5_G	11_G	0.946	0.56
226_A	253_P	0.945	0.56
120_Q	158_Y	0.943	0.56
70_I	77_F	0.942	0.56
4_S	271_D	0.941	0.56
218_Y	276_D	0.939	0.56
265_T	281_E	0.938	0.56
182_E	222_T	0.937	0.56
21_S	84_R	0.935	0.56
39_Y	42_G	0.925	0.55
2_A	8_I	0.924	0.55
138_L	271_D	0.922	0.55
159_A	242_L	0.919	0.54
152_H	274_T	0.905	0.53
172_E	226_A	0.902	0.53
204_A	207_L	0.898	0.53
16_P	25_S	0.893	0.52
225_V	228_R	0.888	0.52
163_S	286_K	0.887	0.52
155_Y	192_S	0.887	0.52
144_E	153_P	0.884	0.51
235_K	241_D	0.883	0.51
34_G	48_F	0.882	0.51
147_L	180_L	0.880	0.51
70_I	73_A	0.879	0.51
15_S	25_S	0.876	0.51
144_E	151_R	0.872	0.50
161_A	236_I	0.871	0.50
140_Q	199_R	0.868	0.50
15_S	19_S	0.863	0.50
8_I	262_V	0.860	0.49
93_G	134_T	0.860	0.49
160_G	284_D	0.859	0.49
105_V	260_L	0.859	0.49
277_E	287_L	0.857	0.49
163_S	226_A	0.854	0.49
107_K	160_G	0.853	0.49
21_S	25_S	0.848	0.48
71_F	75_A	0.842	0.48
118_S	121_R	0.841	0.48
159_A	234_P	0.837	0.48
158_Y	275_E	0.831	0.47
22_S	25_S	0.830	0.47
224_L	278_L	0.828	0.47
147_L	150_L	0.826	0.47
124_N	159_A	0.824	0.46
208_P	211_G	0.822	0.46
113_L	218_Y	0.821	0.46
126_L	242_L	0.818	0.46
22_S	30_G	0.815	0.46
29_G	32_G	0.814	0.46
119_L	148_A	0.810	0.45
108_L	154_E	0.806	0.45
142_L	145_T	0.802	0.45
16_P	190_T	0.798	0.44
101_P	168_L	0.798	0.44
34_G	37_G	0.796	0.44
54_L	72_G	0.796	0.44
169_E	271_D	0.791	0.44
54_L	59_F	0.790	0.44
228_R	252_I	0.790	0.44
28_G	32_G	0.790	0.44
64_G	68_L	0.781	0.43
58_G	76_G	0.780	0.43
105_V	202_S	0.778	0.43
123_L	149_L	0.776	0.43
41_G	46_G	0.775	0.43
108_L	233_L	0.770	0.42
42_G	45_G	0.767	0.42
7_R	185_K	0.766	0.42
229_G	232_K	0.760	0.41
33_G	44_G	0.760	0.41
105_V	169_E	0.759	0.41
33_G	37_G	0.759	0.41
171_A	261_E	0.754	0.41
276_D	280_A	0.751	0.41
127_A	283_P	0.750	0.41
42_G	47_G	0.748	0.40
138_L	275_E	0.748	0.40
22_S	27_G	0.747	0.40
74_I	78_L	0.744	0.40
85_A	243_R	0.743	0.40
148_A	153_P	0.743	0.40
114_A	276_D	0.741	0.40
134_T	258_L	0.740	0.40
107_K	284_D	0.740	0.40
182_E	224_L	0.738	0.40
132_T	194_V	0.733	0.39
107_K	162_E	0.733	0.39
247_R	278_L	0.729	0.39
229_G	263_L	0.728	0.39
30_G	36_G	0.726	0.39
74_I	85_A	0.726	0.39
273_L	279_L	0.725	0.39
121_R	223_L	0.722	0.38
230_K	256_D	0.722	0.38
171_A	221_V	0.722	0.38
218_Y	275_E	0.721	0.38
226_A	259_A	0.718	0.38
109_Q	222_T	0.717	0.38
180_L	263_L	0.716	0.38
31_G	37_G	0.716	0.38
46_G	52_F	0.714	0.38
131_D	252_I	0.713	0.38
216_G	271_D	0.710	0.37
173_A	238_S	0.710	0.37
34_G	38_G	0.708	0.37
225_V	262_V	0.703	0.37
236_I	245_A	0.701	0.37
148_A	156_W	0.699	0.37
155_Y	160_G	0.698	0.36
71_F	79_V	0.696	0.36
228_R	258_L	0.695	0.36
152_H	155_Y	0.695	0.36
85_A	88_G	0.693	0.36
202_S	252_I	0.689	0.36
141_V	182_E	0.689	0.36
57_F	66_F	0.687	0.36
219_I	273_L	0.686	0.36
269_E	278_L	0.685	0.35
203_A	243_R	0.685	0.35
182_E	263_L	0.683	0.35
100_N	103_V	0.683	0.35
34_G	41_G	0.682	0.35
179_S	182_E	0.681	0.35
106_A	227_T	0.681	0.35
244_Q	248_Q	0.675	0.35
79_V	240_E	0.673	0.35
223_L	260_L	0.672	0.34
25_S	30_G	0.671	0.34
241_D	255_D	0.669	0.34
16_P	55_P	0.669	0.34
141_V	237_N	0.667	0.34
111_G	133_S	0.665	0.34
267_Q	273_L	0.664	0.34
38_G	42_G	0.663	0.34
33_G	38_G	0.660	0.34
68_L	76_G	0.654	0.33
25_S	29_G	0.652	0.33
103_V	280_A	0.651	0.33
177_R	287_L	0.651	0.33
260_L	263_L	0.649	0.33
35_S	70_I	0.648	0.33
77_F	88_G	0.647	0.33
50_F	54_L	0.644	0.32
15_S	20_Y	0.639	0.32
83_R	86_G	0.637	0.32
126_L	145_T	0.636	0.32
74_I	99_S	0.636	0.32
192_S	267_Q	0.636	0.32
145_T	187_S	0.635	0.32
190_T	271_D	0.634	0.32
73_A	77_F	0.633	0.32
191_L	263_L	0.633	0.32
260_L	276_D	0.633	0.32
20_Y	25_S	0.632	0.32
97_Y	256_D	0.632	0.32
119_L	245_A	0.628	0.31
141_V	259_A	0.625	0.31
71_F	257_L	0.625	0.31
19_S	82_F	0.623	0.31
247_R	253_P	0.623	0.31
84_R	268_A	0.622	0.31
104_S	279_L	0.622	0.31
53_L	70_I	0.620	0.31
9_G	132_T	0.614	0.30
133_S	184_S	0.611	0.30
267_Q	271_D	0.610	0.30
73_A	95_G	0.607	0.30
14_R	88_G	0.605	0.30
59_F	82_F	0.605	0.30
270_G	273_L	0.603	0.30
185_K	282_Y	0.597	0.29
75_A	229_G	0.595	0.29
153_P	243_R	0.592	0.29
182_E	282_Y	0.591	0.29
229_G	234_P	0.590	0.29
25_S	35_S	0.589	0.29
207_L	249_L	0.587	0.28
74_I	97_Y	0.584	0.28
27_G	34_G	0.584	0.28
138_L	220_V	0.584	0.28
146_T	274_T	0.582	0.28
281_E	287_L	0.582	0.28
193_N	219_I	0.582	0.28
59_F	62_G	0.580	0.28
142_L	182_E	0.579	0.28
97_Y	169_E	0.579	0.28
142_L	147_L	0.578	0.28
188_E	251_S	0.575	0.28
169_E	231_L	0.573	0.28
147_L	153_P	0.570	0.27
238_S	253_P	0.569	0.27
107_K	281_E	0.567	0.27
45_G	51_P	0.566	0.27
91_G	202_S	0.565	0.27
204_A	239_A	0.565	0.27
220_V	271_D	0.564	0.27
227_T	260_L	0.563	0.27
107_K	265_T	0.562	0.27
98_S	232_K	0.561	0.27
38_G	41_G	0.559	0.27
163_S	220_V	0.558	0.27
175_F	185_K	0.557	0.27
46_G	51_P	0.557	0.27
108_L	270_G	0.556	0.26
100_N	218_Y	0.555	0.26
47_G	51_P	0.553	0.26
29_G	87_G	0.553	0.26
261_E	266_P	0.553	0.26
178_L	224_L	0.551	0.26
113_L	217_E	0.551	0.26
185_K	220_V	0.550	0.26
272_T	279_L	0.549	0.26
216_G	274_T	0.549	0.26
42_G	51_P	0.549	0.26
242_L	271_D	0.549	0.26
96_G	100_N	0.549	0.26
93_G	97_Y	0.548	0.26
77_F	81_A	0.546	0.26
65_L	82_F	0.545	0.26
127_A	172_E	0.544	0.26
144_E	175_F	0.542	0.26
142_L	249_L	0.541	0.25
4_S	56_F	0.540	0.25
156_W	243_R	0.539	0.25
22_S	26_S	0.539	0.25
218_Y	279_L	0.539	0.25
42_G	46_G	0.538	0.25
46_G	69_L	0.538	0.25
75_A	78_L	0.537	0.25
47_G	55_P	0.537	0.25
276_D	281_E	0.536	0.25
267_Q	272_T	0.535	0.25
111_G	153_P	0.535	0.25
135_P	226_A	0.534	0.25
212_S	276_D	0.534	0.25
64_G	69_L	0.534	0.25
33_G	40_G	0.534	0.25
145_T	226_A	0.533	0.25
109_Q	112_L	0.532	0.25
120_Q	127_A	0.530	0.25
241_D	248_Q	0.529	0.25
35_S	43_Y	0.529	0.25
261_E	264_W	0.525	0.25
174_T	257_L	0.523	0.24
278_L	282_Y	0.521	0.24
67_G	72_G	0.521	0.24
92_G	262_V	0.521	0.24
23_P	33_G	0.520	0.24
78_L	202_S	0.519	0.24
29_G	205_A	0.518	0.24
46_G	60_G	0.517	0.24
8_I	13_F	0.516	0.24
37_G	41_G	0.515	0.24
178_L	194_V	0.515	0.24
156_W	287_L	0.515	0.24
156_W	184_S	0.514	0.24
103_V	275_E	0.514	0.24
2_A	281_E	0.513	0.24
103_V	156_W	0.513	0.24
110_V	191_L	0.512	0.24
4_S	15_S	0.512	0.24
43_Y	46_G	0.510	0.24
19_S	28_G	0.510	0.24
112_L	116_A	0.509	0.24
218_Y	223_L	0.509	0.24
78_L	178_L	0.508	0.23
188_E	271_D	0.506	0.23
75_A	125_R	0.506	0.23
280_A	283_P	0.505	0.23
134_T	138_L	0.504	0.23
53_L	76_G	0.503	0.23
247_R	279_L	0.503	0.23
150_L	233_L	0.502	0.23
50_F	61_G	0.500	0.23

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
3rfyA	2	0.6146	16.9	0.965	Contact Map
3ajiB	1	0.2535	15.7	0.966	Contact Map
4ml2A	1	0.0938	13.9	0.966	Contact Map
2pk2A	3	0	11.4	0.968	Contact Map
2z86A	2	0.4514	8.7	0.969	Contact Map
4m9rA	2	0.3125	7.9	0.97	Contact Map
2krkA	1	0.2917	7.5	0.97	Contact Map
2mu3A	1	0.2257	7.4	0.97	Contact Map
3k9dA	2	0.5694	6.8	0.971	Contact Map
2ga1A	2	0.1736	6.8	0.971	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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