DUF39 - PFAM28P - GREMLIN Contacts

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DUF39 - Domain of unknown function DUF39

PFAM:	PF01837	Sequences: AVVVTAEEMIDIVKEKGVEKAAKEVDVVTTGTFGPMCSSGAFLNFGHSDPPIKMSKVWLNDVPAYAGLAAVDLYIGATELSEDDPPGEEYGGGHVIEDLVAGKDVRLRATAYGTDCYPRKELETTITLDDLNQAVLFNPRNAYQNYNVAVNLSDRTIYTYMGTLKPNLGNANYSSAGQLSPLLNDPYYRTIGIGTRIFLGGGIGYVAWEGTQHNPGVPPLGPAGTLAVIGDLKQMSPEWLRGASFTGYGVSLAVGIGIPIPILNEEIARYTAVSDEDIFTPVVDYSVDYPNRPSLGEVSYAELGKIEINGKEVPTAPLSSYKKAREIAEILKEWIEKGEFLL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	342 (342)
Sequences:	2590 (1261)
Seq/√Len:	68.2
META:	0.871

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
189_R	264_N	4.014	1.00
228_V	256_I	3.523	1.00
238_E	326_E	3.522	1.00
4_V	12_I	3.268	1.00
100_V	240_L	3.239	1.00
16_K	24_E	3.224	1.00
104_D	127_T	3.154	1.00
14_K	274_S	3.113	1.00
276_E	301_A	3.052	1.00
231_D	234_Q	3.007	1.00
305_K	312_E	2.929	1.00
188_Y	224_G	2.915	1.00
279_F	299_S	2.786	1.00
238_E	323_K	2.650	1.00
148_V	171_A	2.619	1.00
63_P	79_E	2.552	1.00
153_S	286_S	2.533	1.00
171_A	306_I	2.533	1.00
93_G	242_G	2.487	1.00
106_R	123_E	2.470	1.00
9_M	268_A	2.458	1.00
184_N	273_V	2.417	1.00
319_S	324_A	2.378	1.00
207_A	229_I	2.337	1.00
97_E	241_R	2.305	1.00
202_G	234_Q	2.274	1.00
243_A	253_A	2.212	1.00
288_D	293_P	2.204	1.00
152_L	168_L	2.203	1.00
7_E	325_R	2.188	1.00
133_Q	209_E	2.162	1.00
53_K	111_A	2.142	1.00
282_V	296_G	2.139	1.00
57_V	73_L	2.120	1.00
20_K	24_E	2.073	1.00
60_N	90_Y	2.071	1.00
57_V	66_A	2.039	1.00
239_W	330_I	2.037	1.00
108_R	123_E	2.037	1.00
41_A	75_I	2.014	1.00
45_F	54_M	2.008	1.00
203_I	334_W	2.007	1.00
137_F	207_A	2.002	1.00
189_R	266_E	1.970	1.00
262_I	271_T	1.962	1.00
208_W	229_I	1.918	1.00
220_L	297_E	1.915	1.00
178_Q	321_Y	1.883	1.00
196_R	205_Y	1.869	1.00
264_N	267_I	1.866	1.00
58_W	108_R	1.862	1.00
243_A	251_S	1.831	1.00
119_R	122_L	1.811	1.00
43_L	131_L	1.780	1.00
150_V	168_L	1.765	1.00
19_E	265_E	1.753	1.00
54_M	57_V	1.733	1.00
100_V	232_L	1.728	1.00
148_V	280_T	1.713	1.00
20_K	23_K	1.710	1.00
307_E	312_E	1.703	1.00
184_N	271_T	1.697	1.00
104_D	125_T	1.693	1.00
102_G	129_D	1.657	0.99
9_M	271_T	1.649	0.99
245_F	251_S	1.646	0.99
263_L	267_I	1.644	0.99
240_L	254_V	1.616	0.99
137_F	227_A	1.614	0.99
98_D	103_K	1.613	0.99
299_S	302_E	1.612	0.99
12_I	21_A	1.568	0.99
56_K	82_E	1.564	0.99
281_P	294_S	1.555	0.99
59_L	105_V	1.552	0.99
101_A	237_P	1.535	0.99
97_E	101_A	1.525	0.99
188_Y	215_P	1.516	0.99
189_R	270_Y	1.513	0.99
330_I	334_W	1.493	0.99
268_A	272_A	1.492	0.99
196_R	341_L	1.479	0.99
137_F	229_I	1.474	0.99
191_I	206_V	1.466	0.99
42_F	68_L	1.460	0.99
42_F	135_V	1.460	0.99
198_F	334_W	1.441	0.98
61_D	108_R	1.436	0.98
178_Q	275_D	1.435	0.98
10_I	274_S	1.431	0.98
60_N	98_D	1.430	0.98
9_M	21_A	1.408	0.98
5_T	325_R	1.363	0.98
108_R	121_E	1.357	0.98
142_A	256_I	1.355	0.98
307_E	310_G	1.344	0.97
325_R	329_E	1.340	0.97
80_L	250_V	1.324	0.97
49_D	289_Y	1.298	0.97
333_E	337_K	1.285	0.97
90_Y	98_D	1.282	0.97
34_G	174_S	1.277	0.97
128_L	134_A	1.271	0.96
134_A	232_L	1.271	0.96
296_G	302_E	1.255	0.96
10_I	178_Q	1.247	0.96
48_S	52_I	1.238	0.96
163_T	246_T	1.236	0.96
136_L	240_L	1.235	0.96
287_V	291_N	1.232	0.96
45_F	73_L	1.226	0.96
154_D	167_N	1.215	0.95
321_Y	325_R	1.208	0.95
219_P	223_A	1.207	0.95
93_G	250_V	1.205	0.95
7_E	10_I	1.202	0.95
56_K	110_T	1.197	0.95
124_T	132_N	1.197	0.95
126_I	131_L	1.192	0.95
148_V	306_I	1.189	0.95
42_F	137_F	1.186	0.95
150_V	171_A	1.181	0.95
213_H	224_G	1.181	0.95
40_G	74_Y	1.174	0.94
226_L	258_I	1.172	0.94
13_V	17_G	1.171	0.94
189_R	267_I	1.167	0.94
135_V	227_A	1.164	0.94
267_I	270_Y	1.162	0.94
308_I	313_V	1.155	0.94
197_I	228_V	1.154	0.94
127_T	130_D	1.145	0.94
338_G	341_L	1.145	0.94
187_Y	270_Y	1.138	0.93
295_L	308_I	1.136	0.93
10_I	184_N	1.135	0.93
330_I	333_E	1.133	0.93
9_M	184_N	1.118	0.93
54_M	73_L	1.118	0.93
262_I	267_I	1.116	0.93
207_A	228_V	1.113	0.93
281_P	297_E	1.105	0.92
61_D	106_R	1.103	0.92
55_S	79_E	1.101	0.92
266_E	270_Y	1.100	0.92
202_G	231_D	1.097	0.92
257_G	327_I	1.096	0.92
191_I	258_I	1.096	0.92
322_K	326_E	1.094	0.92
239_W	323_K	1.085	0.92
35_P	174_S	1.077	0.91
279_F	297_E	1.074	0.91
51_P	292_R	1.065	0.91
66_A	73_L	1.062	0.91
48_S	122_L	1.061	0.91
99_L	131_L	1.061	0.91
273_V	278_I	1.049	0.90
66_A	111_A	1.047	0.90
203_I	234_Q	1.046	0.90
333_E	336_E	1.045	0.90
99_L	105_V	1.037	0.90
113_G	120_K	1.037	0.90
128_L	232_L	1.036	0.90
4_V	9_M	1.029	0.89
190_T	260_I	1.028	0.89
41_A	232_L	1.027	0.89
61_D	81_S	1.026	0.89
147_N	283_V	1.024	0.89
97_E	242_G	1.024	0.89
58_W	110_T	1.016	0.89
55_S	58_W	1.015	0.89
329_E	333_E	1.009	0.89
61_D	83_D	1.007	0.88
75_I	98_D	1.001	0.88
18_V	268_A	1.000	0.88
9_M	272_A	0.997	0.88
157_I	286_S	0.994	0.88
106_R	125_T	0.994	0.88
10_I	272_A	0.992	0.88
198_F	257_G	0.992	0.88
128_L	131_L	0.988	0.87
150_V	295_L	0.985	0.87
9_M	12_I	0.978	0.87
241_R	323_K	0.974	0.87
323_K	326_E	0.973	0.87
59_L	126_I	0.972	0.87
232_L	240_L	0.954	0.86
287_V	293_P	0.953	0.86
13_V	272_A	0.952	0.85
266_E	269_R	0.947	0.85
56_K	79_E	0.943	0.85
59_L	107_L	0.935	0.84
175_S	183_L	0.935	0.84
218_P	221_G	0.932	0.84
17_G	21_A	0.929	0.84
74_Y	139_P	0.928	0.84
68_L	73_L	0.926	0.84
282_V	298_V	0.925	0.84
47_H	71_V	0.925	0.84
214_N	217_V	0.924	0.84
16_K	20_K	0.922	0.84
254_V	327_I	0.920	0.83
45_F	57_V	0.919	0.83
11_D	15_E	0.917	0.83
296_G	307_E	0.916	0.83
58_W	82_E	0.915	0.83
57_V	64_A	0.912	0.83
47_H	51_P	0.912	0.83
274_S	277_D	0.909	0.83
54_M	109_A	0.906	0.82
269_R	272_A	0.902	0.82
12_I	16_K	0.900	0.82
39_S	252_L	0.899	0.82
142_A	258_I	0.899	0.82
41_A	136_L	0.895	0.82
49_D	290_P	0.890	0.81
145_N	223_A	0.887	0.81
199_L	228_V	0.874	0.80
138_N	141_N	0.867	0.80
276_E	299_S	0.867	0.80
289_Y	292_R	0.866	0.80
5_T	329_E	0.865	0.79
236_S	323_K	0.862	0.79
21_A	268_A	0.860	0.79
267_I	271_T	0.859	0.79
288_D	292_R	0.858	0.79
275_D	321_Y	0.856	0.79
64_A	105_V	0.855	0.79
19_E	23_K	0.854	0.79
41_A	99_L	0.851	0.78
22_A	262_I	0.851	0.78
282_V	308_I	0.844	0.78
168_L	308_I	0.843	0.78
55_S	80_L	0.842	0.78
55_S	111_A	0.839	0.77
175_S	319_S	0.836	0.77
137_F	208_W	0.831	0.77
306_I	315_T	0.829	0.77
9_M	262_I	0.826	0.76
42_F	74_Y	0.824	0.76
64_A	73_L	0.823	0.76
9_M	13_V	0.815	0.75
217_V	223_A	0.815	0.75
87_G	244_S	0.814	0.75
329_E	336_E	0.812	0.75
43_L	75_I	0.809	0.75
184_N	274_S	0.809	0.75
75_I	95_V	0.809	0.75
196_R	203_I	0.804	0.74
262_I	268_A	0.802	0.74
195_T	259_P	0.800	0.74
13_V	21_A	0.795	0.73
174_S	319_S	0.788	0.73
188_Y	213_H	0.779	0.72
168_L	282_V	0.778	0.72
80_L	83_D	0.775	0.72
199_L	230_G	0.775	0.72
145_N	183_L	0.774	0.71
164_L	170_N	0.773	0.71
237_P	241_R	0.771	0.71
12_I	25_V	0.770	0.71
100_V	128_L	0.769	0.71
193_I	229_I	0.768	0.71
68_L	139_P	0.768	0.71
230_G	235_M	0.766	0.71
127_T	131_L	0.765	0.71
62_V	95_V	0.762	0.70
273_V	277_D	0.759	0.70
214_N	222_P	0.757	0.70
43_L	73_L	0.757	0.70
110_T	121_E	0.757	0.70
218_P	297_E	0.753	0.69
150_V	296_G	0.752	0.69
42_F	45_F	0.750	0.69
34_G	239_W	0.749	0.69
14_K	276_E	0.749	0.69
218_P	223_A	0.748	0.69
100_V	237_P	0.747	0.69
1_A	27_V	0.744	0.68
10_I	14_K	0.743	0.68
175_S	223_A	0.743	0.68
203_I	339_E	0.742	0.68
217_V	221_G	0.739	0.68
168_L	313_V	0.738	0.68
150_V	282_V	0.737	0.68
49_D	292_R	0.735	0.67
190_T	267_I	0.727	0.67
334_W	339_E	0.727	0.67
19_E	269_R	0.726	0.67
236_S	240_L	0.722	0.66
80_L	112_Y	0.720	0.66
41_A	135_V	0.718	0.66
206_V	226_L	0.717	0.66
221_G	297_E	0.714	0.65
88_E	246_T	0.713	0.65
200_G	240_L	0.712	0.65
56_K	63_P	0.712	0.65
126_I	130_D	0.711	0.65
9_M	18_V	0.707	0.64
96_I	232_L	0.706	0.64
215_P	224_G	0.705	0.64
35_P	253_A	0.701	0.64
81_S	86_P	0.698	0.63
172_N	316_A	0.694	0.63
104_D	128_L	0.692	0.63
64_A	95_V	0.692	0.63
71_V	78_T	0.691	0.63
18_V	272_A	0.689	0.62
11_D	14_K	0.685	0.62
55_S	250_V	0.684	0.62
152_L	286_S	0.684	0.62
208_W	227_A	0.681	0.62
152_L	295_L	0.679	0.61
188_Y	223_A	0.677	0.61
99_L	128_L	0.676	0.61
55_S	112_Y	0.676	0.61
158_Y	247_G	0.673	0.61
332_K	336_E	0.671	0.60
10_I	268_A	0.669	0.60
77_A	252_L	0.667	0.60
43_L	134_A	0.667	0.60
58_W	79_E	0.666	0.60
302_E	307_E	0.665	0.60
188_Y	217_V	0.662	0.59
193_I	208_W	0.660	0.59
124_T	133_Q	0.659	0.59
51_P	290_P	0.658	0.59
184_N	219_P	0.657	0.59
221_G	293_P	0.656	0.59
168_L	295_L	0.654	0.58
53_K	112_Y	0.652	0.58
169_G	314_P	0.650	0.58
1_A	4_V	0.648	0.58
98_D	101_A	0.648	0.58
270_Y	273_V	0.646	0.58
296_G	308_I	0.646	0.58
180_S	183_L	0.646	0.58
23_K	265_E	0.644	0.57
280_T	300_Y	0.639	0.57
152_L	157_I	0.639	0.57
7_E	178_Q	0.633	0.56
43_L	130_D	0.630	0.56
268_A	271_T	0.629	0.56
156_T	165_K	0.629	0.56
58_W	61_D	0.628	0.55
326_E	330_I	0.628	0.55
274_S	299_S	0.627	0.55
222_P	292_R	0.624	0.55
129_D	309_N	0.624	0.55
112_Y	244_S	0.623	0.55
298_V	302_E	0.623	0.55
202_G	334_W	0.623	0.55
145_N	175_S	0.622	0.55
288_D	291_N	0.622	0.55
80_L	88_E	0.621	0.55
9_M	25_V	0.620	0.54
296_G	313_V	0.620	0.54
5_T	8_E	0.617	0.54
15_E	20_K	0.616	0.54
171_A	282_V	0.615	0.54
14_K	301_A	0.614	0.54
100_V	252_L	0.614	0.54
152_L	313_V	0.613	0.54
63_P	82_E	0.610	0.53
221_G	281_P	0.609	0.53
214_N	219_P	0.609	0.53
135_V	209_E	0.608	0.53
259_P	335_I	0.607	0.53
41_A	131_L	0.606	0.53
152_L	287_V	0.604	0.53
42_F	54_M	0.603	0.52
221_G	294_S	0.603	0.52
280_T	297_E	0.603	0.52
236_S	330_I	0.602	0.52
21_A	271_T	0.602	0.52
22_A	268_A	0.602	0.52
172_N	315_T	0.601	0.52
36_M	39_S	0.600	0.52
101_A	232_L	0.599	0.52
184_N	270_Y	0.599	0.52
145_N	218_P	0.597	0.52
135_V	208_W	0.596	0.52
173_Y	275_D	0.594	0.51
42_F	79_E	0.594	0.51
55_S	66_A	0.593	0.51
52_I	122_L	0.593	0.51
298_V	306_I	0.593	0.51
23_K	337_K	0.591	0.51
129_D	262_I	0.591	0.51
202_G	230_G	0.590	0.51
142_A	216_G	0.590	0.51
43_L	59_L	0.589	0.51
19_E	264_N	0.589	0.51
93_G	246_T	0.588	0.51
11_D	178_Q	0.588	0.51
125_T	128_L	0.587	0.51
245_F	286_S	0.586	0.50
97_E	237_P	0.583	0.50
222_P	280_T	0.583	0.50
197_I	256_I	0.583	0.50
3_V	6_A	0.581	0.50
193_I	205_Y	0.579	0.50
135_V	232_L	0.578	0.49
4_V	25_V	0.577	0.49
335_I	340_F	0.576	0.49
125_T	153_S	0.576	0.49
331_L	335_I	0.573	0.49
271_T	278_I	0.573	0.49
43_L	128_L	0.569	0.48
56_K	121_E	0.568	0.48
157_I	290_P	0.568	0.48
269_R	273_V	0.567	0.48
82_E	108_R	0.566	0.48
175_S	275_D	0.565	0.48
83_D	86_P	0.565	0.48
48_S	124_T	0.564	0.48
171_A	296_G	0.564	0.48
209_E	229_I	0.563	0.48
199_L	256_I	0.563	0.48
65_Y	95_V	0.562	0.48
13_V	176_A	0.562	0.48
44_N	70_A	0.560	0.47
283_V	294_S	0.560	0.47
104_D	122_L	0.557	0.47
135_V	229_I	0.557	0.47
207_A	227_A	0.555	0.47
46_G	51_P	0.555	0.47
12_I	18_V	0.555	0.47
179_L	328_A	0.554	0.47
290_P	293_P	0.553	0.46
68_L	135_V	0.550	0.46
224_G	244_S	0.550	0.46
165_K	246_T	0.550	0.46
190_T	195_T	0.550	0.46
51_P	289_Y	0.549	0.46
109_A	122_L	0.549	0.46
242_G	264_N	0.547	0.46
86_P	112_Y	0.547	0.46
150_V	308_I	0.546	0.46
86_P	244_S	0.544	0.45
184_N	278_I	0.543	0.45
165_K	316_A	0.542	0.45
54_M	79_E	0.542	0.45
203_I	206_V	0.542	0.45
119_R	124_T	0.542	0.45
49_D	293_P	0.541	0.45
104_D	155_R	0.541	0.45
67_G	139_P	0.538	0.45
45_F	67_G	0.538	0.45
323_K	330_I	0.538	0.45
174_S	318_L	0.538	0.45
322_K	325_R	0.537	0.45
197_I	258_I	0.537	0.45
82_E	110_T	0.537	0.45
193_I	207_A	0.536	0.44
336_E	339_E	0.536	0.44
40_G	44_N	0.535	0.44
237_P	278_I	0.534	0.44
148_V	282_V	0.534	0.44
45_F	107_L	0.533	0.44
161_M	172_N	0.533	0.44
188_Y	214_N	0.532	0.44
199_L	202_G	0.532	0.44
136_L	202_G	0.531	0.44
20_K	106_R	0.530	0.44
75_I	100_V	0.530	0.44
220_L	279_F	0.528	0.44
133_Q	245_F	0.527	0.43
83_D	88_E	0.526	0.43
49_D	84_D	0.522	0.43
156_T	163_T	0.520	0.43
331_L	342_L	0.519	0.42
245_F	318_L	0.519	0.42
2_V	16_K	0.517	0.42
65_Y	75_I	0.517	0.42
337_K	341_L	0.516	0.42
296_G	309_N	0.515	0.42
197_I	206_V	0.515	0.42
68_L	79_E	0.514	0.42
79_E	82_E	0.514	0.42
45_F	68_L	0.514	0.42
296_G	306_I	0.512	0.42
13_V	271_T	0.512	0.42
124_T	292_R	0.512	0.42
47_H	50_P	0.512	0.42
287_V	292_R	0.511	0.42
147_N	281_P	0.511	0.42
228_V	254_V	0.511	0.42
97_E	136_L	0.510	0.41
105_V	125_T	0.510	0.41
183_L	223_A	0.510	0.41
289_Y	293_P	0.508	0.41
236_S	258_I	0.507	0.41
317_P	320_S	0.507	0.41
105_V	127_T	0.506	0.41
59_L	75_I	0.506	0.41
103_K	242_G	0.506	0.41
240_L	252_L	0.506	0.41
24_E	316_A	0.505	0.41
125_T	322_K	0.505	0.41
9_M	267_I	0.505	0.41
105_V	128_L	0.504	0.41
75_I	96_I	0.503	0.41
283_V	289_Y	0.503	0.41
294_S	297_E	0.502	0.40
155_R	166_P	0.502	0.40
147_N	285_Y	0.502	0.40
16_K	21_A	0.502	0.40
176_A	179_L	0.501	0.40
192_G	195_T	0.501	0.40
35_P	251_S	0.501	0.40
171_A	298_V	0.500	0.40
29_T	32_T	0.500	0.40

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
3canA	2	0.4064	17.3	0.98	Contact Map
1veeA	1	0.2427	16.7	0.98	Contact Map
3p1xA	2	0.2018	15.5	0.98	Contact Map
1q16B	2	0.1988	12.7	0.981	Contact Map
3g98A	1	0.117	12	0.981	Contact Map
3ewtE	1	0.0205	11.8	0.981	Contact Map
4u0yA	1	0.0877	11.4	0.982	Contact Map
4l4yA	2	0.1404	8.7	0.983	Contact Map
1c5eA	3	0.2485	8.2	0.983	Contact Map
2eb4A	5	0.1754	7.6	0.983	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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