DUF1839 - PFAM28P - GREMLIN Contacts

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DUF1839 - Domain of unknown function (DUF1839)

PFAM:	PF08893	Sequences: RPATYRPHALHGEERTWPETNCYVDLWIELLHALGLEPLAALGFTLAQDFEGDQWTFFKPPLEDLEALYGIDVQELAIWRPLEEHVAEQLARGRLVLVEVDSFYLPDTAGTSYRREHVKTTIAINAIDPEARRLGYFHNAGYFELEGEDFDGLFRLGAPDPPVLPPYAEFVKFDRPRLSGAELRAAARALLRRHLARRPADNPFARFAARFAADLPWLAERGLAFFHAYAFATLRQLGAAFELAASHLRWLAAHGEAGLAAAAAAFRRIAEGAKALQFKLARAVARKRPFDLAPALDPMAAAWDRAMAALAQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	312 (310)
Sequences:	900 (692)
Seq/√Len:	39.3
META:	0.821

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
187_A	247_H	5.451	1.00
132_R	151_D	5.245	1.00
100_V	122_I	4.508	1.00
135_G	142_Y	4.411	1.00
41_A	60_P	3.672	1.00
114_R	148_E	3.416	1.00
249_R	267_R	3.379	1.00
43_G	247_H	3.247	1.00
204_F	237_L	3.236	1.00
58_F	239_A	3.145	1.00
43_G	187_A	3.110	1.00
266_F	306_A	3.049	1.00
97_L	121_T	2.977	1.00
31_L	41_A	2.940	1.00
249_R	263_A	2.939	1.00
129_P	150_F	2.937	1.00
184_R	254_H	2.910	1.00
102_S	120_T	2.870	1.00
87_A	129_P	2.818	1.00
145_L	153_L	2.816	1.00
83_E	150_F	2.743	1.00
134_L	145_L	2.696	1.00
30_L	95_L	2.660	1.00
16_T	270_A	2.566	1.00
88_E	210_R	2.533	1.00
201_D	206_R	2.508	1.00
210_R	214_D	2.507	1.00
135_G	144_E	2.459	1.00
208_A	300_A	2.351	1.00
67_A	193_R	2.347	1.00
86_V	124_I	2.281	1.00
208_A	296_L	2.236	1.00
71_I	171_V	2.177	0.99
133_R	146_E	2.172	0.99
140_A	143_F	2.155	0.99
46_L	244_A	2.149	0.99
262_A	309_A	2.089	0.99
31_L	71_I	2.063	0.99
304_D	308_A	2.051	0.99
198_R	311_A	2.043	0.99
90_L	127_I	1.955	0.99
102_S	118_V	1.951	0.99
27_W	73_V	1.885	0.98
125_N	142_Y	1.842	0.98
191_L	247_H	1.836	0.98
178_L	186_A	1.807	0.98
157_G	160_D	1.735	0.97
44_F	61_P	1.728	0.97
30_L	123_A	1.722	0.97
102_S	112_S	1.718	0.97
198_R	307_M	1.707	0.97
76_L	170_F	1.705	0.97
157_G	162_P	1.700	0.97
48_Q	240_A	1.700	0.97
41_A	69_Y	1.694	0.97
26_L	120_T	1.673	0.96
208_A	297_D	1.631	0.96
37_E	40_A	1.580	0.95
179_S	182_E	1.576	0.95
104_Y	152_G	1.571	0.95
221_R	225_F	1.565	0.95
205_A	300_A	1.526	0.94
71_I	170_F	1.480	0.93
265_A	305_R	1.476	0.93
185_A	189_A	1.473	0.93
245_A	266_F	1.473	0.93
27_W	31_L	1.446	0.92
8_H	38_P	1.427	0.91
26_L	123_A	1.422	0.91
112_S	116_E	1.417	0.91
268_R	305_R	1.417	0.91
272_G	299_M	1.416	0.91
133_R	144_E	1.406	0.91
241_F	269_I	1.405	0.91
205_A	304_D	1.402	0.91
24_V	44_F	1.385	0.90
86_V	154_F	1.365	0.89
19_E	140_A	1.358	0.89
51_E	89_Q	1.350	0.89
100_V	105_L	1.342	0.89
226_F	277_Q	1.328	0.88
155_R	162_P	1.324	0.88
161_P	164_L	1.321	0.88
190_L	194_H	1.309	0.87
10_L	28_I	1.309	0.87
241_F	306_A	1.301	0.87
40_A	43_G	1.298	0.87
265_A	268_R	1.291	0.87
111_T	115_R	1.287	0.86
97_L	123_A	1.283	0.86
268_R	302_A	1.282	0.86
48_Q	55_W	1.275	0.86
23_Y	57_F	1.265	0.85
188_R	192_R	1.246	0.84
83_E	127_I	1.231	0.84
217_W	221_R	1.199	0.82
155_R	163_V	1.178	0.81
194_H	197_R	1.178	0.81
137_F	142_Y	1.164	0.80
104_Y	148_E	1.161	0.80
302_A	305_R	1.156	0.80
226_F	278_F	1.155	0.80
66_E	197_R	1.146	0.79
69_Y	103_F	1.142	0.79
218_L	225_F	1.141	0.79
16_T	267_R	1.139	0.79
71_I	173_F	1.139	0.79
49_D	206_R	1.131	0.78
151_D	156_L	1.126	0.78
279_K	286_R	1.121	0.78
34_L	173_F	1.112	0.77
273_A	299_M	1.093	0.76
78_I	168_A	1.089	0.75
269_I	302_A	1.080	0.75
112_S	118_V	1.073	0.74
8_H	11_H	1.062	0.74
162_P	166_P	1.049	0.73
255_G	258_G	1.048	0.73
2_P	144_E	1.044	0.72
161_P	166_P	1.043	0.72
77_A	233_T	1.041	0.72
50_F	72_D	1.032	0.71
126_A	135_G	1.030	0.71
45_T	58_F	1.027	0.71
44_F	58_F	1.025	0.71
89_Q	97_L	1.025	0.71
116_E	228_A	1.022	0.71
120_T	152_G	1.018	0.70
252_A	259_L	1.010	0.70
180_G	186_A	1.006	0.69
82_L	154_F	1.003	0.69
7_P	13_E	1.003	0.69
130_E	133_R	1.003	0.69
127_I	165_P	0.998	0.69
161_P	165_P	0.996	0.69
132_R	148_E	0.989	0.68
237_L	273_A	0.980	0.67
242_E	246_S	0.961	0.66
268_R	298_P	0.952	0.65
145_L	154_F	0.951	0.65
37_E	254_H	0.950	0.65
36_L	177_R	0.947	0.65
12_G	15_R	0.946	0.65
61_P	194_H	0.945	0.65
260_A	264_A	0.944	0.64
217_W	225_F	0.944	0.64
51_E	56_T	0.941	0.64
77_A	232_A	0.940	0.64
62_L	73_V	0.932	0.63
204_F	241_F	0.927	0.63
83_E	154_F	0.926	0.63
160_D	163_V	0.922	0.63
55_W	80_R	0.921	0.63
201_D	209_A	0.915	0.62
2_P	135_G	0.910	0.62
118_V	165_P	0.899	0.61
247_H	251_L	0.898	0.61
268_R	271_E	0.897	0.60
268_R	272_G	0.894	0.60
88_E	91_A	0.890	0.60
46_L	191_L	0.889	0.60
159_P	163_V	0.885	0.59
202_N	300_A	0.882	0.59
182_E	186_A	0.882	0.59
186_A	189_A	0.879	0.59
23_Y	59_K	0.879	0.59
8_H	39_L	0.874	0.58
22_C	59_K	0.873	0.58
301_A	304_D	0.873	0.58
94_R	172_K	0.870	0.58
204_F	269_I	0.870	0.58
211_F	296_L	0.869	0.58
57_F	99_E	0.866	0.58
49_D	53_D	0.865	0.58
87_A	127_I	0.864	0.58
124_I	134_L	0.861	0.57
297_D	301_A	0.857	0.57
155_R	166_P	0.851	0.56
42_L	194_H	0.845	0.56
39_L	246_S	0.845	0.56
267_R	271_E	0.836	0.55
77_A	122_I	0.833	0.55
176_P	180_G	0.833	0.55
139_N	197_R	0.832	0.55
112_S	122_I	0.829	0.54
48_Q	244_A	0.828	0.54
55_W	244_A	0.827	0.54
27_W	236_Q	0.826	0.54
216_P	220_E	0.823	0.54
18_P	140_A	0.821	0.54
155_R	159_P	0.821	0.54
104_Y	114_R	0.820	0.54
126_A	133_R	0.819	0.54
234_L	276_L	0.816	0.53
43_G	190_L	0.815	0.53
59_K	231_F	0.812	0.53
115_R	120_T	0.811	0.53
184_R	188_R	0.811	0.53
261_A	264_A	0.811	0.53
214_D	217_W	0.805	0.52
53_D	56_T	0.805	0.52
80_R	210_R	0.804	0.52
15_R	246_S	0.802	0.52
80_R	84_E	0.802	0.52
89_Q	123_A	0.795	0.51
30_L	171_V	0.793	0.51
194_H	198_R	0.793	0.51
7_P	140_A	0.790	0.51
229_Y	280_L	0.790	0.51
175_R	222_G	0.788	0.51
164_L	167_Y	0.788	0.51
120_T	123_A	0.784	0.50
188_R	260_A	0.783	0.50
17_W	236_Q	0.783	0.50
244_A	266_F	0.783	0.50
52_G	88_E	0.781	0.50
249_R	260_A	0.777	0.50
202_N	304_D	0.776	0.50
277_Q	286_R	0.775	0.50
104_Y	162_P	0.774	0.49
157_G	161_P	0.774	0.49
42_L	45_T	0.772	0.49
66_E	72_D	0.771	0.49
26_L	270_A	0.768	0.49
189_A	192_R	0.768	0.49
59_K	167_Y	0.766	0.49
55_W	79_W	0.766	0.49
120_T	139_N	0.764	0.49
84_E	129_P	0.762	0.48
245_A	249_R	0.761	0.48
123_A	141_G	0.760	0.48
94_R	230_A	0.759	0.48
181_A	185_A	0.757	0.48
303_W	307_M	0.756	0.48
284_V	287_K	0.755	0.48
178_L	182_E	0.753	0.48
80_R	165_P	0.749	0.47
59_K	75_E	0.747	0.47
22_C	227_H	0.746	0.47
90_L	124_I	0.746	0.47
76_L	110_G	0.744	0.47
244_A	247_H	0.743	0.47
100_V	120_T	0.740	0.46
274_K	278_F	0.738	0.46
58_F	207_F	0.735	0.46
32_H	37_E	0.735	0.46
83_E	86_V	0.734	0.46
272_G	302_A	0.734	0.46
286_R	292_L	0.733	0.46
29_E	32_H	0.731	0.46
189_A	200_A	0.729	0.45
100_V	168_A	0.728	0.45
155_R	161_P	0.724	0.45
77_A	279_K	0.724	0.45
31_L	36_L	0.723	0.45
17_W	277_Q	0.723	0.45
22_C	57_F	0.720	0.45
89_Q	94_R	0.719	0.44
61_P	85_H	0.718	0.44
131_A	146_E	0.718	0.44
188_R	258_G	0.714	0.44
59_K	119_K	0.713	0.44
45_T	244_A	0.711	0.44
211_F	234_L	0.710	0.44
142_Y	237_L	0.703	0.43
2_P	5_Y	0.701	0.43
300_A	304_D	0.701	0.43
127_I	230_A	0.700	0.43
49_D	61_P	0.699	0.43
8_H	40_A	0.698	0.43
55_W	232_A	0.697	0.43
22_C	231_F	0.694	0.42
65_L	296_L	0.693	0.42
119_K	227_H	0.693	0.42
24_V	27_W	0.688	0.42
190_L	304_D	0.688	0.42
67_A	189_A	0.688	0.42
51_E	172_K	0.687	0.42
173_F	177_R	0.684	0.41
27_W	36_L	0.682	0.41
286_R	289_P	0.679	0.41
125_N	137_F	0.678	0.41
46_L	247_H	0.678	0.41
162_P	165_P	0.675	0.41
168_A	229_Y	0.675	0.41
127_I	241_F	0.674	0.40
79_W	217_W	0.674	0.40
97_L	171_V	0.672	0.40
158_A	162_P	0.671	0.40
73_V	208_A	0.669	0.40
188_R	264_A	0.669	0.40
280_L	284_V	0.669	0.40
227_H	231_F	0.669	0.40
122_I	134_L	0.669	0.40
66_E	79_W	0.666	0.40
78_I	170_F	0.661	0.39
43_G	55_W	0.659	0.39
6_R	12_G	0.659	0.39
225_F	228_A	0.658	0.39
97_L	229_Y	0.655	0.39
232_A	240_A	0.654	0.39
190_L	239_A	0.653	0.39
146_E	264_A	0.652	0.39
291_D	294_P	0.652	0.39
61_P	65_L	0.651	0.38
247_H	250_W	0.648	0.38
275_A	279_K	0.648	0.38
157_G	164_L	0.647	0.38
274_K	281_A	0.646	0.38
57_F	231_F	0.645	0.38
81_P	153_L	0.645	0.38
91_A	301_A	0.645	0.38
50_F	53_D	0.643	0.38
119_K	231_F	0.642	0.38
80_R	214_D	0.642	0.38
294_P	297_D	0.642	0.38
60_P	226_F	0.638	0.37
126_A	144_E	0.638	0.37
83_E	129_P	0.638	0.37
194_H	206_R	0.638	0.37
280_L	286_R	0.637	0.37
22_C	119_K	0.637	0.37
75_E	119_K	0.636	0.37
181_A	216_P	0.635	0.37
153_L	271_E	0.631	0.37
17_W	27_W	0.629	0.37
77_A	170_F	0.628	0.37
24_V	77_A	0.628	0.37
232_A	303_W	0.627	0.36
263_A	267_R	0.625	0.36
262_A	265_A	0.625	0.36
51_E	94_R	0.624	0.36
13_E	18_P	0.624	0.36
184_R	258_G	0.623	0.36
125_N	135_G	0.619	0.36
134_L	142_Y	0.619	0.36
143_F	234_L	0.617	0.36
57_F	118_V	0.617	0.36
206_R	215_L	0.617	0.36
72_D	174_D	0.617	0.36
28_I	32_H	0.611	0.35
172_K	240_A	0.610	0.35
19_E	22_C	0.610	0.35
47_A	168_A	0.607	0.35
95_L	123_A	0.603	0.34
209_A	213_A	0.602	0.34
289_P	298_P	0.599	0.34
205_A	213_A	0.597	0.34
163_V	166_P	0.594	0.34
82_L	98_V	0.593	0.34
22_C	25_D	0.592	0.34
37_E	183_L	0.591	0.33
299_M	303_W	0.589	0.33
30_L	177_R	0.589	0.33
272_G	295_A	0.584	0.33
20_T	167_Y	0.583	0.33
185_A	213_A	0.583	0.33
263_A	310_L	0.582	0.33
145_L	195_L	0.581	0.33
148_E	152_G	0.580	0.33
59_K	227_H	0.579	0.32
50_F	207_F	0.579	0.32
20_T	89_Q	0.576	0.32
298_P	301_A	0.576	0.32
74_Q	121_T	0.575	0.32
119_K	167_Y	0.575	0.32
64_D	172_K	0.575	0.32
12_G	18_P	0.573	0.32
81_P	84_E	0.570	0.32
80_R	266_F	0.569	0.32
266_F	291_D	0.567	0.32
280_L	292_L	0.567	0.32
278_F	286_R	0.566	0.31
300_A	303_W	0.564	0.31
184_R	256_E	0.563	0.31
191_L	207_F	0.563	0.31
78_I	236_Q	0.562	0.31
10_L	208_A	0.561	0.31
104_Y	229_Y	0.560	0.31
182_E	308_A	0.559	0.31
155_R	160_D	0.559	0.31
90_L	96_V	0.558	0.31
291_D	306_A	0.558	0.31
5_Y	8_H	0.558	0.31
207_F	233_T	0.557	0.31
57_F	167_Y	0.557	0.31
205_A	209_A	0.557	0.31
246_S	249_R	0.556	0.31
57_F	119_K	0.553	0.30
176_P	186_A	0.552	0.30
173_F	241_F	0.549	0.30
64_D	140_A	0.549	0.30
224_A	270_A	0.546	0.30
124_I	163_V	0.545	0.30
85_H	121_T	0.544	0.30
299_M	307_M	0.544	0.30
184_R	253_A	0.543	0.30
13_E	16_T	0.543	0.30
257_A	260_A	0.542	0.30
112_S	278_F	0.542	0.30
42_L	243_L	0.541	0.30
236_Q	252_A	0.540	0.29
174_D	272_G	0.538	0.29
261_A	265_A	0.538	0.29
260_A	263_A	0.537	0.29
83_E	156_L	0.537	0.29
240_A	244_A	0.536	0.29
80_R	232_A	0.536	0.29
283_A	290_F	0.534	0.29
102_S	139_N	0.534	0.29
255_G	259_L	0.533	0.29
262_A	272_G	0.533	0.29
82_L	228_A	0.532	0.29
245_A	267_R	0.530	0.29
184_R	255_G	0.529	0.29
55_W	290_F	0.527	0.28
76_L	239_A	0.525	0.28
57_F	139_N	0.525	0.28
87_A	130_E	0.525	0.28
102_S	155_R	0.524	0.28
237_L	247_H	0.524	0.28
21_N	25_D	0.523	0.28
39_L	253_A	0.523	0.28
274_K	279_K	0.522	0.28
77_A	286_R	0.521	0.28
79_W	240_A	0.521	0.28
234_L	277_Q	0.520	0.28
181_A	263_A	0.518	0.28
198_R	240_A	0.518	0.28
208_A	299_M	0.518	0.28
307_M	311_A	0.517	0.28
81_P	98_V	0.516	0.28
246_S	267_R	0.515	0.28
97_L	124_I	0.515	0.28
36_L	69_Y	0.514	0.28
32_H	156_L	0.511	0.27
145_L	245_A	0.511	0.27
295_A	306_A	0.511	0.27
28_I	186_A	0.510	0.27
57_F	75_E	0.509	0.27
204_F	273_A	0.509	0.27
97_L	170_F	0.508	0.27
104_Y	112_S	0.508	0.27
67_A	186_A	0.508	0.27
51_E	57_F	0.508	0.27
239_A	243_L	0.507	0.27
78_I	120_T	0.507	0.27
92_R	209_A	0.506	0.27
224_A	228_A	0.506	0.27
89_Q	92_R	0.506	0.27
81_P	183_L	0.506	0.27
50_F	55_W	0.505	0.27
78_I	283_A	0.505	0.27
240_A	277_Q	0.505	0.27
43_G	61_P	0.505	0.27
111_T	154_F	0.505	0.27
195_L	311_A	0.505	0.27
63_E	96_V	0.504	0.27
102_S	116_E	0.503	0.27
49_D	199_P	0.502	0.27
11_H	29_E	0.502	0.27
264_A	309_A	0.501	0.27
208_A	212_A	0.501	0.27
170_F	240_A	0.501	0.27
96_V	168_A	0.500	0.27

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
1e0gA	1	0.141	19.9	0.979	Contact Map
4c18A	2	0.1827	16.2	0.98	Contact Map
1i76A	1	0.2115	12.9	0.981	Contact Map
4p72C	2	0.234	11.6	0.981	Contact Map
1b7yA	2	0.2404	10.9	0.981	Contact Map
3pcoA	2	0.2308	9.8	0.982	Contact Map
1y93A	1	0.2083	9.5	0.982	Contact Map
2jz1A	2	0.2051	9	0.982	Contact Map
3stqA	2	0.1731	7.9	0.982	Contact Map
4mhlA	1	0.4167	7.8	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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