DUF4837 - PFAM28P - GREMLIN Contacts

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DUF4837 - Domain of unknown function (DUF4837)

PFAM:	PF16125	Sequences: SSGKINEILVVMDDELWEGEVGDALREIFAAPVPGLPQPEPLFDLRQIPPEAFSGFFKKHRNILIVDIDPDKGTKAKVKIKKDVWAKPQLVVYISAPDEEELIELIKENKDKIIDLFKKAERKRLQRRLKKYESKKLEKKLKEKFGISLKIPSGYKLAKDTDNFVWLRKETPDGSQNILIYSYPYTDPDQFTKENIIAKRDSIGKKYIPGPTEGSYMITEEAYPPYVRETEFNGKYAVETRGLWEVENDFMGGPFVSYTFVDEKNNRLIVIEGFVYAPSKDKRDYLRQLEAILKT	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	295 (295)
Sequences:	3959 (3162)
Seq/√Len:	184.1
META:	0.913

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
182_S	267_R	4.107	1.00
98_D	101_E	3.761	1.00
200_R	272_E	3.461	1.00
144_K	160_D	3.269	1.00
96_A	102_L	3.156	1.00
142_K	148_S	3.063	1.00
259_T	270_V	2.922	1.00
262_D	267_R	2.769	1.00
97_P	101_E	2.613	1.00
158_A	168_R	2.526	1.00
196_I	240_T	2.502	1.00
109_N	112_K	2.472	1.00
170_E	175_S	2.373	1.00
228_R	239_E	2.370	1.00
200_R	219_T	2.303	1.00
140_K	160_D	2.271	1.00
177_N	274_F	2.266	1.00
32_P	39_P	2.247	1.00
133_E	138_E	2.223	1.00
22_G	26_R	2.147	1.00
257_S	270_V	2.106	1.00
243_L	252_G	2.006	1.00
104_E	108_E	1.981	1.00
259_T	268_L	1.968	1.00
17_W	47_Q	1.958	1.00
218_I	245_E	1.915	1.00
204_G	272_E	1.901	1.00
205_K	216_Y	1.895	1.00
64_L	117_F	1.878	1.00
231_E	234_G	1.823	1.00
12_M	25_L	1.809	1.00
139_K	143_E	1.807	1.00
17_W	22_G	1.802	1.00
83_D	87_K	1.775	1.00
240_T	257_S	1.768	1.00
130_K	150_K	1.764	1.00
229_E	236_Y	1.760	1.00
24_A	27_E	1.751	1.00
183_Y	199_K	1.748	1.00
85_W	91_V	1.739	1.00
184_P	267_R	1.737	1.00
204_G	219_T	1.733	1.00
6_N	287_R	1.707	1.00
262_D	265_N	1.692	1.00
199_K	202_S	1.684	1.00
219_T	272_E	1.680	1.00
134_S	137_L	1.669	1.00
133_E	150_K	1.664	1.00
23_D	27_E	1.649	1.00
220_E	245_E	1.644	1.00
271_I	293_L	1.640	1.00
209_P	246_V	1.594	1.00
231_E	236_Y	1.591	1.00
181_Y	200_R	1.581	1.00
12_M	16_L	1.572	1.00
100_E	104_E	1.568	1.00
261_V	268_L	1.546	1.00
8_I	117_F	1.527	1.00
17_W	26_R	1.520	1.00
218_I	247_E	1.506	1.00
141_L	180_I	1.504	1.00
65_I	91_V	1.501	1.00
183_Y	259_T	1.497	1.00
145_F	182_S	1.491	1.00
232_F	237_A	1.491	1.00
14_D	18_E	1.482	1.00
1_S	88_P	1.452	1.00
49_P	52_A	1.446	1.00
164_F	207_Y	1.437	1.00
122_R	294_K	1.437	1.00
14_D	47_Q	1.429	1.00
227_V	240_T	1.423	1.00
192_T	195_N	1.405	1.00
256_V	293_L	1.405	1.00
195_N	199_K	1.384	1.00
183_Y	270_V	1.380	1.00
28_I	106_I	1.377	1.00
67_D	95_S	1.367	1.00
90_L	116_L	1.361	1.00
212_T	215_S	1.358	1.00
241_R	290_E	1.357	1.00
257_S	272_E	1.352	1.00
183_Y	268_L	1.349	1.00
28_I	110_K	1.334	1.00
122_R	126_Q	1.332	1.00
12_M	66_V	1.331	1.00
251_M	276_Y	1.327	1.00
30_A	45_L	1.327	1.00
196_I	259_T	1.317	1.00
38_Q	282_K	1.316	1.00
275_V	286_L	1.313	1.00
277_A	280_K	1.304	1.00
68_I	102_L	1.295	1.00
66_V	102_L	1.291	1.00
92_V	117_F	1.290	1.00
190_Q	195_N	1.287	1.00
237_A	260_F	1.281	1.00
81_K	84_V	1.270	1.00
101_E	104_E	1.268	1.00
115_D	119_K	1.264	1.00
193_K	227_V	1.264	1.00
227_V	238_V	1.263	1.00
37_P	243_L	1.251	1.00
201_D	221_E	1.241	1.00
211_P	246_V	1.237	1.00
171_T	174_G	1.236	1.00
197_I	201_D	1.211	1.00
33_V	286_L	1.192	1.00
102_L	106_I	1.188	1.00
25_L	64_L	1.179	1.00
210_G	215_S	1.166	1.00
24_A	107_K	1.163	1.00
273_G	289_L	1.156	1.00
43_F	114_I	1.143	1.00
179_L	204_G	1.136	1.00
48_I	57_F	1.134	1.00
84_V	91_V	1.127	1.00
277_A	282_K	1.122	1.00
203_I	207_Y	1.121	1.00
33_V	42_L	1.116	1.00
237_A	258_Y	1.099	1.00
62_N	124_R	1.095	1.00
103_I	107_K	1.095	1.00
241_R	256_V	1.093	1.00
96_A	105_L	1.087	1.00
210_G	246_V	1.086	1.00
23_D	26_R	1.085	1.00
63_I	91_V	1.080	1.00
92_V	113_I	1.075	1.00
119_K	123_K	1.071	1.00
76_A	97_P	1.069	1.00
53_F	63_I	1.067	1.00
179_L	208_I	1.065	1.00
185_Y	236_Y	1.058	1.00
151_I	178_I	1.055	1.00
230_T	237_A	1.052	1.00
197_I	221_E	1.048	1.00
11_V	48_I	1.045	1.00
31_A	114_I	1.044	1.00
118_K	287_R	1.044	1.00
180_I	271_I	1.042	1.00
24_A	103_I	1.040	1.00
191_F	261_V	1.035	1.00
242_G	255_F	1.031	1.00
138_E	148_S	1.031	1.00
280_K	285_Y	1.030	1.00
111_D	115_D	1.029	1.00
202_S	206_K	1.024	1.00
134_S	154_G	1.022	1.00
246_V	249_D	1.018	1.00
37_P	254_P	1.011	0.99
126_Q	130_K	1.011	0.99
7_E	46_R	1.008	0.99
64_L	94_I	1.003	0.99
25_L	66_V	0.995	0.99
122_R	291_A	0.990	0.99
197_I	240_T	0.988	0.99
154_G	169_K	0.984	0.99
42_L	114_I	0.978	0.99
29_F	113_I	0.975	0.99
195_N	198_A	0.972	0.99
185_Y	261_V	0.972	0.99
121_E	124_R	0.967	0.99
81_K	93_Y	0.959	0.99
20_E	103_I	0.958	0.99
99_E	103_I	0.957	0.99
69_D	72_K	0.955	0.99
21_V	66_V	0.951	0.99
141_L	165_V	0.950	0.99
12_M	21_V	0.948	0.99
25_L	106_I	0.941	0.99
152_P	292_I	0.935	0.99
19_G	22_G	0.932	0.99
30_A	41_P	0.931	0.99
24_A	28_I	0.930	0.99
258_Y	294_K	0.921	0.99
46_R	60_H	0.920	0.99
260_F	269_I	0.919	0.99
263_E	266_N	0.918	0.99
197_I	219_T	0.918	0.99
235_K	263_E	0.917	0.99
161_T	207_Y	0.917	0.99
26_R	45_L	0.915	0.99
222_A	225_P	0.913	0.99
173_D	280_K	0.912	0.99
8_I	64_L	0.909	0.99
19_G	23_D	0.909	0.99
10_V	47_Q	0.895	0.99
151_I	167_L	0.894	0.99
222_A	245_E	0.894	0.99
181_Y	272_E	0.893	0.99
195_N	202_S	0.890	0.99
90_L	117_F	0.885	0.99
145_F	165_V	0.881	0.99
8_I	29_F	0.880	0.99
107_K	110_K	0.877	0.99
147_I	269_I	0.877	0.99
11_V	63_I	0.872	0.98
76_A	101_E	0.869	0.98
123_K	126_Q	0.867	0.98
82_K	90_L	0.863	0.98
78_V	105_L	0.863	0.98
215_S	249_D	0.862	0.98
92_V	116_L	0.856	0.98
75_K	80_I	0.854	0.98
244_W	251_M	0.853	0.98
80_I	92_V	0.847	0.98
235_K	260_F	0.847	0.98
163_N	182_S	0.846	0.98
13_D	50_P	0.843	0.98
125_L	128_R	0.827	0.98
191_F	236_Y	0.826	0.98
155_Y	292_I	0.826	0.98
182_S	269_I	0.825	0.98
186_T	190_Q	0.825	0.98
11_V	53_F	0.823	0.98
246_V	251_M	0.823	0.98
177_N	217_M	0.822	0.98
42_L	118_K	0.811	0.98
261_V	266_N	0.809	0.97
62_N	117_F	0.808	0.97
67_D	93_Y	0.808	0.97
109_N	113_I	0.806	0.97
14_D	49_P	0.806	0.97
181_Y	270_V	0.801	0.97
145_F	160_D	0.801	0.97
216_Y	247_E	0.801	0.97
61_R	121_E	0.798	0.97
20_E	23_D	0.798	0.97
56_F	59_K	0.797	0.97
26_R	30_A	0.795	0.97
262_D	266_N	0.792	0.97
209_P	214_G	0.786	0.97
62_N	120_A	0.785	0.97
277_A	285_Y	0.784	0.97
20_E	100_E	0.780	0.97
211_P	249_D	0.779	0.97
21_V	103_I	0.779	0.97
7_E	44_D	0.776	0.97
90_L	120_A	0.775	0.97
124_R	128_R	0.774	0.97
76_A	81_K	0.773	0.97
159_K	209_P	0.773	0.97
286_L	289_L	0.772	0.97
236_Y	261_V	0.767	0.97
77_K	95_S	0.766	0.97
168_R	175_S	0.764	0.96
120_A	123_K	0.762	0.96
141_L	145_F	0.759	0.96
169_K	176_Q	0.757	0.96
247_E	250_F	0.755	0.96
27_E	107_K	0.755	0.96
201_D	219_T	0.752	0.96
149_L	180_I	0.751	0.96
137_L	151_I	0.751	0.96
190_Q	268_L	0.751	0.96
174_G	285_Y	0.748	0.96
2_S	59_K	0.747	0.96
273_G	293_L	0.745	0.96
105_L	108_E	0.743	0.96
178_I	292_I	0.743	0.96
74_T	79_K	0.742	0.96
185_Y	188_P	0.742	0.96
53_F	57_F	0.741	0.96
221_E	245_E	0.740	0.96
118_K	122_R	0.740	0.96
32_P	41_P	0.740	0.96
248_N	251_M	0.740	0.96
135_K	138_E	0.740	0.96
176_Q	288_Q	0.740	0.96
7_E	60_H	0.739	0.96
84_V	93_Y	0.739	0.96
150_K	295_T	0.735	0.96
76_A	79_K	0.734	0.96
16_L	21_V	0.733	0.96
190_Q	199_K	0.730	0.95
166_W	274_F	0.727	0.95
34_P	241_R	0.726	0.95
135_K	139_K	0.724	0.95
25_L	29_F	0.717	0.95
134_S	138_E	0.717	0.95
125_L	129_L	0.716	0.95
149_L	271_I	0.714	0.95
140_K	144_K	0.713	0.95
189_D	192_T	0.713	0.95
79_K	93_Y	0.710	0.95
120_A	124_R	0.709	0.95
212_T	249_D	0.707	0.95
24_A	106_I	0.703	0.94
185_Y	190_Q	0.701	0.94
219_T	255_F	0.700	0.94
41_P	61_R	0.700	0.94
208_I	274_F	0.698	0.94
166_W	177_N	0.697	0.94
73_G	79_K	0.696	0.94
130_K	291_A	0.695	0.94
240_T	259_T	0.694	0.94
43_F	118_K	0.694	0.94
220_E	223_Y	0.692	0.94
31_A	34_P	0.692	0.94
80_I	116_L	0.692	0.94
9_L	46_R	0.691	0.94
145_F	180_I	0.691	0.94
96_A	101_E	0.683	0.94
146_G	265_N	0.682	0.93
12_M	47_Q	0.682	0.93
44_D	283_R	0.679	0.93
83_D	88_P	0.679	0.93
76_A	80_I	0.678	0.93
164_F	179_L	0.677	0.93
20_E	25_L	0.677	0.93
2_S	60_H	0.677	0.93
20_E	99_E	0.676	0.93
141_L	149_L	0.675	0.93
41_P	283_R	0.675	0.93
9_L	60_H	0.670	0.93
70_P	73_G	0.669	0.93
16_L	102_L	0.668	0.93
94_I	105_L	0.668	0.93
246_V	250_F	0.667	0.93
156_K	168_R	0.667	0.93
208_I	251_M	0.667	0.93
141_L	167_L	0.664	0.93
229_E	238_V	0.662	0.92
78_V	94_I	0.662	0.92
215_S	246_V	0.658	0.92
193_K	240_T	0.655	0.92
175_S	274_F	0.655	0.92
141_L	147_I	0.652	0.92
13_D	16_L	0.652	0.92
21_V	102_L	0.652	0.92
183_Y	190_Q	0.649	0.92
200_R	257_S	0.648	0.92
104_E	107_K	0.643	0.91
204_G	207_Y	0.642	0.91
121_E	125_L	0.642	0.91
159_K	207_Y	0.640	0.91
236_Y	263_E	0.640	0.91
201_D	206_K	0.639	0.91
86_A	89_Q	0.637	0.91
136_K	139_K	0.637	0.91
15_E	18_E	0.635	0.91
149_L	178_I	0.634	0.91
185_Y	195_N	0.630	0.90
192_T	238_V	0.630	0.90
256_V	273_G	0.629	0.90
16_L	99_E	0.627	0.90
145_F	267_R	0.625	0.90
145_F	269_I	0.622	0.90
218_I	221_E	0.621	0.90
140_K	143_E	0.620	0.90
128_R	132_Y	0.620	0.90
232_F	258_Y	0.619	0.90
245_E	252_G	0.619	0.90
155_Y	289_L	0.618	0.90
133_E	137_L	0.618	0.90
138_E	142_K	0.617	0.90
185_Y	268_L	0.615	0.89
156_K	170_E	0.614	0.89
209_P	216_Y	0.608	0.89
129_L	147_I	0.605	0.89
213_E	216_Y	0.605	0.89
73_G	97_P	0.602	0.88
6_N	284_D	0.602	0.88
74_T	77_K	0.602	0.88
134_S	150_K	0.601	0.88
8_I	46_R	0.599	0.88
210_G	217_M	0.598	0.88
12_M	22_G	0.597	0.88
126_Q	291_A	0.593	0.88
94_I	109_N	0.592	0.88
110_K	114_I	0.591	0.87
153_S	156_K	0.588	0.87
83_D	127_R	0.588	0.87
215_S	251_M	0.586	0.87
201_D	218_I	0.585	0.87
170_E	177_N	0.584	0.87
208_I	217_M	0.582	0.87
126_Q	295_T	0.579	0.86
141_L	144_K	0.578	0.86
55_G	59_K	0.576	0.86
210_G	251_M	0.576	0.86
105_L	109_N	0.576	0.86
193_K	197_I	0.576	0.86
166_W	251_M	0.576	0.86
64_L	113_I	0.575	0.86
239_E	294_K	0.574	0.86
200_R	255_F	0.571	0.86
33_V	37_P	0.568	0.85
118_K	284_D	0.564	0.85
214_G	248_N	0.562	0.85
137_L	167_L	0.561	0.85
204_G	208_I	0.558	0.84
245_E	249_D	0.557	0.84
129_L	291_A	0.555	0.84
58_K	85_W	0.555	0.84
182_S	185_Y	0.554	0.84
215_S	248_N	0.553	0.84
181_Y	203_I	0.551	0.84
181_Y	184_P	0.547	0.83
28_I	32_P	0.546	0.83
178_I	293_L	0.546	0.83
196_I	238_V	0.546	0.83
10_V	17_W	0.546	0.83
18_E	22_G	0.545	0.83
107_K	111_D	0.542	0.83
157_L	160_D	0.539	0.82
172_P	175_S	0.536	0.82
138_E	151_I	0.536	0.82
166_W	209_P	0.536	0.82
176_Q	180_I	0.536	0.82
249_D	276_Y	0.535	0.82
185_Y	266_N	0.533	0.82
8_I	44_D	0.533	0.82
164_F	181_Y	0.533	0.82
147_I	260_F	0.528	0.81
55_G	58_K	0.528	0.81
75_K	79_K	0.527	0.81
69_D	76_A	0.527	0.81
77_K	82_K	0.526	0.81
198_A	221_E	0.525	0.81
78_V	81_K	0.524	0.80
212_T	248_N	0.523	0.80
21_V	24_A	0.518	0.80
134_S	153_S	0.516	0.79
112_K	115_D	0.516	0.79
70_P	76_A	0.516	0.79
184_P	188_P	0.512	0.79
62_N	66_V	0.512	0.79
176_Q	289_L	0.509	0.79
155_Y	280_K	0.509	0.79
194_E	198_A	0.508	0.78
66_V	78_V	0.506	0.78
138_E	150_K	0.505	0.78
119_K	294_K	0.503	0.78
2_S	56_F	0.502	0.78
230_T	239_E	0.502	0.78
77_K	81_K	0.501	0.77
170_E	250_F	0.501	0.77
287_R	291_A	0.500	0.77
189_D	195_N	0.500	0.77
34_P	228_R	0.500	0.77

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
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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
2lnjA	1	0.5254	78.7	0.939	Contact Map
1tu1A	2	0.4644	65.4	0.945	Contact Map
2xb3A	1	0.5017	64.4	0.945	Contact Map
3lydA	2	0.4983	53.3	0.949	Contact Map
1v2bA	1	0.4746	37.5	0.953	Contact Map
2p97A	6	0.1966	12.6	0.963	Contact Map
1xnlA	1	0.0949	10.2	0.964	Contact Map
1rmjA	1	0.1322	7.6	0.966	Contact Map
1a7tA	2	0.2271	7.3	0.967	Contact Map
1m2xA	2	0.2068	7.3	0.967	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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