DUF1403 - PFAM28P - GREMLIN Contacts

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DUF1403 - Protein of unknown function (DUF1403)

PFAM:	PF07183	Sequences: HSSDLDTLPRLPAWARARAEELTEEDAAFLAGAALAHLDLVVRREPVPAGLWRQRLALRAAAACVRLAGRREDEAALRDAVHLTRPGDDPGPAGRLLLAWRRLAERPVSVDAKRLAALAELLGLAWDGDALADLADELDAAALSARPAPPAAAAAAAAVAALRPRAEVLALWLADAVLAQALGWPHPVPLLAAGLKRADLRKRGGRGRPRPGGDDLRLACHRALARAAAEALRLAADLARRAARLLAVAPKLRAKGAGAAVELLLSEDAVAPSATGLPLSDRAARRLFDRLVELGAVRELTGRDTFRLYGL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	311 (304)
Sequences:	650 (440)
Seq/√Len:	25.2
META:	0.635

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
15_A	19_A	5.629	1.00
15_A	20_E	4.886	1.00
15_A	18_R	4.856	1.00
16_R	19_A	4.388	1.00
15_A	21_E	4.329	1.00
85_R	88_D	3.907	1.00
42_V	52_W	3.733	1.00
159_V	164_P	3.690	1.00
89_D	95_R	3.314	1.00
16_R	20_E	3.261	1.00
17_A	20_E	3.094	1.00
149_P	153_A	3.023	1.00
275_T	278_P	2.966	1.00
277_L	280_S	2.731	0.99
16_R	21_E	2.719	0.99
287_L	297_V	2.685	0.99
18_R	21_E	2.673	0.99
17_A	21_E	2.616	0.99
39_D	43_R	2.579	0.99
279_L	287_L	2.185	0.97
81_V	84_T	2.160	0.97
62_A	74_E	2.140	0.97
65_V	68_A	2.096	0.96
299_E	302_G	2.060	0.96
153_A	164_P	2.043	0.96
182_L	240_R	1.965	0.95
264_L	288_F	1.963	0.94
161_A	164_P	1.951	0.94
246_L	260_A	1.887	0.93
307_R	310_G	1.872	0.93
15_A	23_T	1.852	0.93
59_R	230_E	1.840	0.92
11_L	15_A	1.834	0.92
157_A	161_A	1.833	0.92
234_L	238_L	1.828	0.92
301_T	308_L	1.804	0.92
195_L	200_L	1.793	0.91
299_E	303_R	1.779	0.91
73_D	76_A	1.759	0.90
135_A	138_L	1.752	0.90
160_A	164_P	1.752	0.90
89_D	280_S	1.747	0.90
146_R	149_P	1.731	0.90
262_E	266_S	1.719	0.89
134_L	138_L	1.704	0.89
145_A	151_A	1.619	0.86
188_V	231_A	1.610	0.86
225_A	229_A	1.606	0.86
303_R	307_R	1.590	0.85
130_A	140_A	1.586	0.85
147_P	151_A	1.574	0.85
276_G	279_L	1.572	0.85
282_R	285_R	1.541	0.83
225_A	228_A	1.540	0.83
303_R	306_F	1.539	0.83
132_A	138_L	1.509	0.82
282_R	292_V	1.507	0.82
274_A	277_L	1.503	0.82
275_T	280_S	1.503	0.82
269_A	300_L	1.443	0.79
145_A	149_P	1.438	0.79
159_V	162_L	1.430	0.78
7_T	27_A	1.426	0.78
65_V	96_L	1.413	0.78
72_E	93_A	1.390	0.76
132_A	135_A	1.382	0.76
151_A	157_A	1.378	0.76
167_E	235_A	1.370	0.75
20_E	23_T	1.370	0.75
171_L	216_L	1.369	0.75
303_R	310_G	1.368	0.75
281_D	289_D	1.363	0.75
300_L	303_R	1.355	0.74
192_A	195_L	1.354	0.74
274_A	280_S	1.351	0.74
65_V	77_L	1.338	0.74
42_V	270_V	1.337	0.73
82_H	308_L	1.334	0.73
41_V	45_E	1.333	0.73
305_T	309_Y	1.327	0.73
155_A	158_A	1.322	0.73
153_A	158_A	1.317	0.72
303_R	309_Y	1.316	0.72
185_P	246_L	1.316	0.72
37_H	40_L	1.311	0.72
52_W	149_P	1.306	0.72
73_D	198_A	1.305	0.72
15_A	25_E	1.290	0.71
139_D	143_L	1.283	0.70
272_P	276_G	1.279	0.70
285_R	294_L	1.274	0.70
133_D	138_L	1.270	0.70
158_A	161_A	1.268	0.69
179_A	241_R	1.266	0.69
29_F	35_L	1.247	0.68
52_W	231_A	1.220	0.66
237_D	241_R	1.212	0.66
147_P	152_A	1.195	0.65
158_A	164_P	1.191	0.64
286_R	290_R	1.190	0.64
36_A	40_L	1.169	0.63
244_R	280_S	1.169	0.63
81_V	98_L	1.165	0.63
250_P	254_A	1.159	0.62
306_F	310_G	1.155	0.62
274_A	283_A	1.154	0.62
291_L	299_E	1.147	0.61
33_A	36_A	1.131	0.60
154_A	191_L	1.129	0.60
19_A	23_T	1.127	0.60
282_R	295_G	1.126	0.60
213_G	217_R	1.118	0.59
167_E	170_A	1.113	0.59
272_P	282_R	1.109	0.59
283_A	289_D	1.106	0.59
53_R	223_A	1.103	0.58
86_P	101_R	1.102	0.58
39_D	49_A	1.095	0.58
57_A	61_A	1.083	0.57
275_T	279_L	1.080	0.57
179_A	249_A	1.079	0.57
13_A	63_A	1.078	0.57
144_S	149_P	1.069	0.56
193_A	227_A	1.069	0.56
138_L	144_S	1.068	0.56
230_E	233_R	1.060	0.55
224_L	233_R	1.056	0.55
27_A	174_A	1.049	0.54
8_L	16_R	1.048	0.54
59_R	74_E	1.047	0.54
68_A	96_L	1.043	0.54
278_P	287_L	1.042	0.54
123_G	127_D	1.041	0.54
42_V	48_P	1.038	0.54
78_R	268_D	1.035	0.53
149_P	152_A	1.031	0.53
48_P	260_A	1.024	0.53
8_L	11_L	1.020	0.52
139_D	142_A	1.017	0.52
97_L	229_A	1.013	0.52
153_A	159_V	1.013	0.52
97_L	177_V	1.010	0.52
148_A	153_A	1.010	0.52
49_A	248_V	1.008	0.52
246_L	262_E	1.005	0.51
48_P	264_L	1.004	0.51
297_V	301_T	1.003	0.51
137_E	147_P	0.995	0.51
291_L	303_R	0.993	0.50
197_R	270_V	0.991	0.50
10_R	27_A	0.986	0.50
274_A	279_L	0.982	0.50
77_L	106_R	0.978	0.49
277_L	287_L	0.977	0.49
18_R	23_T	0.971	0.49
119_A	127_D	0.970	0.49
119_A	126_W	0.966	0.48
252_L	257_A	0.966	0.48
37_H	42_V	0.965	0.48
299_E	307_R	0.964	0.48
80_A	94_G	0.961	0.48
248_V	252_L	0.961	0.48
84_T	194_G	0.958	0.48
84_T	97_L	0.956	0.48
67_L	96_L	0.955	0.48
42_V	197_R	0.947	0.47
81_V	97_L	0.937	0.46
77_L	97_L	0.935	0.46
304_D	309_Y	0.935	0.46
48_P	51_L	0.931	0.46
77_L	274_A	0.929	0.46
13_A	23_T	0.917	0.45
254_A	283_A	0.916	0.45
84_T	89_D	0.915	0.45
103_L	172_W	0.910	0.44
299_E	306_F	0.902	0.44
136_D	139_D	0.902	0.44
251_K	255_K	0.900	0.44
65_V	76_A	0.900	0.44
306_F	309_Y	0.898	0.44
298_R	303_R	0.893	0.43
175_D	245_L	0.891	0.43
138_L	151_A	0.885	0.43
148_A	154_A	0.881	0.42
94_G	256_G	0.881	0.42
105_E	115_L	0.870	0.42
116_A	119_A	0.870	0.42
143_L	151_A	0.867	0.41
292_V	301_T	0.867	0.41
178_L	244_R	0.867	0.41
290_R	299_E	0.863	0.41
302_G	307_R	0.862	0.41
200_L	209_P	0.857	0.41
17_A	23_T	0.857	0.41
256_G	279_L	0.855	0.40
33_A	285_R	0.852	0.40
83_L	166_A	0.846	0.40
26_D	98_L	0.846	0.40
279_L	301_T	0.838	0.39
262_E	275_T	0.837	0.39
106_R	296_A	0.836	0.39
233_R	270_V	0.836	0.39
216_L	221_H	0.834	0.39
140_A	155_A	0.834	0.39
16_R	25_E	0.831	0.39
71_R	167_E	0.827	0.39
86_P	258_G	0.825	0.38
302_G	306_F	0.825	0.38
144_S	147_P	0.821	0.38
48_P	288_F	0.818	0.38
97_L	198_A	0.818	0.38
200_L	220_C	0.816	0.38
132_A	140_A	0.814	0.38
263_L	272_P	0.814	0.38
227_A	289_D	0.810	0.37
77_L	107_P	0.808	0.37
55_R	268_D	0.805	0.37
235_A	256_G	0.805	0.37
155_A	162_L	0.803	0.37
133_D	137_E	0.803	0.37
144_S	153_A	0.802	0.37
254_A	260_A	0.797	0.36
33_A	40_L	0.796	0.36
273_S	279_L	0.795	0.36
16_R	224_L	0.787	0.36
176_A	217_R	0.787	0.36
13_A	242_A	0.785	0.36
93_A	191_L	0.782	0.35
299_E	310_G	0.780	0.35
270_V	274_A	0.780	0.35
213_G	267_E	0.779	0.35
131_L	134_L	0.779	0.35
233_R	283_A	0.778	0.35
52_W	278_P	0.777	0.35
19_A	24_E	0.776	0.35
154_A	190_L	0.775	0.35
274_A	278_P	0.775	0.35
11_L	44_R	0.774	0.35
271_A	283_A	0.774	0.35
158_A	162_L	0.773	0.35
273_S	278_P	0.772	0.35
116_A	239_A	0.768	0.35
108_V	180_Q	0.767	0.34
299_E	309_Y	0.764	0.34
115_L	118_L	0.764	0.34
53_R	77_L	0.763	0.34
183_G	229_A	0.760	0.34
244_R	258_G	0.759	0.34
293_E	301_T	0.759	0.34
208_R	213_G	0.757	0.34
75_A	259_A	0.752	0.34
116_A	243_A	0.751	0.33
41_V	232_L	0.751	0.33
83_L	279_L	0.743	0.33
39_D	45_E	0.743	0.33
63_A	192_A	0.741	0.33
82_H	258_G	0.740	0.33
205_G	247_A	0.739	0.33
118_L	134_L	0.734	0.32
85_R	89_D	0.733	0.32
290_R	303_R	0.733	0.32
289_D	295_G	0.728	0.32
97_L	239_A	0.728	0.32
286_R	307_R	0.724	0.32
132_A	248_V	0.724	0.32
219_A	284_A	0.722	0.32
171_L	243_A	0.721	0.32
136_D	169_L	0.716	0.31
110_V	113_K	0.716	0.31
223_A	236_A	0.715	0.31
195_L	256_G	0.713	0.31
286_R	291_L	0.710	0.31
66_R	280_S	0.708	0.31
80_A	167_E	0.707	0.31
175_D	225_A	0.706	0.31
47_V	239_A	0.704	0.30
16_R	27_A	0.702	0.30
71_R	98_L	0.700	0.30
37_H	99_A	0.698	0.30
38_L	91_G	0.697	0.30
216_L	224_L	0.695	0.30
172_W	287_L	0.695	0.30
54_Q	267_E	0.694	0.30
145_A	153_A	0.692	0.30
54_Q	178_L	0.692	0.30
231_A	245_L	0.691	0.30
116_A	131_L	0.690	0.30
56_L	234_L	0.690	0.30
6_D	13_A	0.687	0.29
11_L	26_D	0.686	0.29
68_A	110_V	0.681	0.29
302_G	309_Y	0.679	0.29
145_A	150_P	0.677	0.29
19_A	25_E	0.675	0.29
170_A	284_A	0.674	0.29
280_S	311_L	0.672	0.29
175_D	239_A	0.671	0.28
302_G	310_G	0.670	0.28
276_G	297_V	0.670	0.28
215_D	311_L	0.670	0.28
80_A	256_G	0.670	0.28
30_L	44_R	0.667	0.28
291_L	302_G	0.665	0.28
171_L	220_C	0.664	0.28
215_D	255_K	0.660	0.28
88_D	239_A	0.660	0.28
216_L	282_R	0.659	0.28
229_A	233_R	0.659	0.28
235_A	283_A	0.659	0.28
97_L	193_A	0.658	0.28
27_A	80_A	0.657	0.28
66_R	177_V	0.656	0.28
151_A	177_V	0.654	0.27
63_A	201_R	0.654	0.27
252_L	255_K	0.651	0.27
250_P	253_R	0.645	0.27
100_W	176_A	0.644	0.27
107_P	115_L	0.643	0.27
250_P	288_F	0.643	0.27
291_L	295_G	0.643	0.27
145_A	160_A	0.642	0.27
40_L	116_A	0.637	0.27
231_A	287_L	0.637	0.27
65_V	93_A	0.634	0.26
32_G	35_L	0.633	0.26
182_L	187_P	0.632	0.26
114_R	173_L	0.630	0.26
65_V	101_R	0.625	0.26
231_A	248_V	0.625	0.26
54_Q	82_H	0.624	0.26
178_L	237_D	0.623	0.26
15_A	191_L	0.622	0.26
145_A	271_A	0.622	0.26
91_G	103_L	0.621	0.26
99_A	233_R	0.620	0.26
228_A	243_A	0.619	0.26
101_R	267_E	0.618	0.25
65_V	256_G	0.618	0.25
51_L	100_W	0.615	0.25
201_R	217_R	0.612	0.25
121_L	124_L	0.612	0.25
248_V	269_A	0.612	0.25
7_T	10_R	0.611	0.25
30_L	247_A	0.611	0.25
17_A	25_E	0.610	0.25
106_R	180_Q	0.610	0.25
273_S	297_V	0.609	0.25
303_R	308_L	0.608	0.25
106_R	176_A	0.607	0.25
80_A	283_A	0.604	0.25
98_L	176_A	0.602	0.25
233_R	259_A	0.599	0.24
281_D	292_V	0.595	0.24
27_A	93_A	0.595	0.24
149_P	161_A	0.593	0.24
113_K	188_V	0.593	0.24
153_A	160_A	0.592	0.24
181_A	185_P	0.588	0.24
260_A	270_V	0.588	0.24
16_R	24_E	0.587	0.24
76_A	297_V	0.587	0.24
146_R	215_D	0.587	0.24
120_E	124_L	0.585	0.24
34_A	42_V	0.585	0.24
131_L	135_A	0.582	0.24
88_D	164_P	0.581	0.23
66_R	279_L	0.581	0.23
290_R	294_L	0.580	0.23
46_P	279_L	0.580	0.23
272_P	275_T	0.579	0.23
83_L	98_L	0.578	0.23
60_A	68_A	0.577	0.23
147_P	150_P	0.575	0.23
36_A	64_C	0.574	0.23
290_R	310_G	0.573	0.23
285_R	293_E	0.572	0.23
271_A	305_T	0.572	0.23
237_D	240_R	0.571	0.23
136_D	142_A	0.570	0.23
282_R	286_R	0.569	0.23
109_S	176_A	0.569	0.23
307_R	311_L	0.568	0.23
224_L	257_A	0.567	0.23
294_L	309_Y	0.566	0.23
248_V	262_E	0.566	0.23
76_A	283_A	0.565	0.23
8_L	13_A	0.559	0.22
117_A	135_A	0.558	0.22
144_S	151_A	0.558	0.22
96_L	270_V	0.556	0.22
34_A	70_R	0.555	0.22
256_G	260_A	0.554	0.22
6_D	10_R	0.554	0.22
153_A	161_A	0.552	0.22
152_A	156_A	0.551	0.22
136_D	143_L	0.551	0.22
8_L	23_T	0.551	0.22
190_L	238_L	0.551	0.22
184_W	228_A	0.550	0.22
47_V	68_A	0.549	0.22
121_L	126_W	0.549	0.22
10_R	41_V	0.549	0.22
295_G	303_R	0.548	0.22
137_E	141_A	0.548	0.22
78_R	310_G	0.547	0.22
130_A	248_V	0.547	0.22
101_R	193_A	0.543	0.22
126_W	129_D	0.542	0.21
60_A	171_L	0.540	0.21
181_A	188_V	0.539	0.21
226_R	234_L	0.539	0.21
76_A	248_V	0.536	0.21
124_L	130_A	0.536	0.21
100_W	304_D	0.535	0.21
100_W	160_A	0.535	0.21
273_S	293_E	0.534	0.21
51_L	308_L	0.533	0.21
71_R	259_A	0.533	0.21
34_A	38_L	0.530	0.21
148_A	152_A	0.529	0.21
45_E	59_R	0.529	0.21
166_A	248_V	0.529	0.21
73_D	213_G	0.529	0.21
8_L	21_E	0.529	0.21
54_Q	67_L	0.528	0.21
121_L	125_A	0.528	0.21
131_L	232_L	0.528	0.21
81_V	193_A	0.527	0.21
144_S	155_A	0.522	0.21
183_G	186_H	0.522	0.21
42_V	114_R	0.521	0.20
60_A	192_A	0.521	0.20
182_L	226_R	0.520	0.20
281_D	285_R	0.519	0.20
142_A	145_A	0.519	0.20
117_A	187_P	0.517	0.20
170_A	195_L	0.516	0.20
215_D	257_A	0.515	0.20
270_V	276_G	0.515	0.20
29_F	32_G	0.515	0.20
71_R	82_H	0.513	0.20
252_L	292_V	0.513	0.20
100_W	308_L	0.513	0.20
177_V	192_A	0.513	0.20
67_L	167_E	0.511	0.20
157_A	301_T	0.511	0.20
37_H	62_A	0.511	0.20
75_A	145_A	0.509	0.20
13_A	26_D	0.509	0.20
55_R	58_L	0.508	0.20
172_W	264_L	0.507	0.20
260_A	288_F	0.506	0.20
52_W	59_R	0.505	0.20
98_L	106_R	0.504	0.20
146_R	151_A	0.503	0.20
48_P	256_G	0.500	0.19

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
3eqxA	2	0.9486	87.1	0.953	Contact Map
4rayA	4	0.2251	35.9	0.967	Contact Map
2o03A	2	0.1929	34.8	0.968	Contact Map
2fu4A	2	0.209	31.2	0.968	Contact Map
3mwmA	2	0.1768	29.8	0.969	Contact Map
2w57A	2	0.209	21.1	0.971	Contact Map
3eyyA	2	0.2154	19.8	0.971	Contact Map
2htjA	1	0.1801	15.1	0.973	Contact Map
4mtdA	2	0.2412	14.7	0.973	Contact Map
1z6rA	3	0.1704	14.5	0.973	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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