DUF4243 - PFAM28P - GREMLIN Contacts

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DUF4243 - Protein of unknown function (DUF4243)

PFAM:	PF14027	Sequences: FHNHLPMALEALYALGASDAVLQRAYRRRLEYQRPAPPAITEDNWREALGDRRRYADWLAFFERELAERGWRAVLAEWLPSEGAERLLPGLAAGATHGLIRLGHAVEAGSPAEVAEALAYWAARYQPLPGKFLDSAEAAAAAAPPGSTSALELLARVAADPRLAGARPDGNKIRDGLLARAGPEFLEYAAAWDVSPDAGDLEAKLAELAEAAARLYLATGWRKDHGADFFLLHAVTSPHALRLLLPYLPDELWAPSKARLLRAWWQAAAALYAARGRPPLPPDEIPAYRPLAPPPDWEELIARAVAHGDEHVIKLVRACA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	320 (302)
Sequences:	1843 (1531)
Seq/√Len:	88.1
META:	0.49

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
110_S	113_E	4.200	1.00
110_S	114_V	3.941	1.00
111_P	114_V	3.566	1.00
69_R	77_E	3.510	1.00
26_Y	30_L	3.396	1.00
105_A	117_A	3.310	1.00
42_E	65_E	3.248	1.00
41_T	44_N	3.131	1.00
177_L	180_R	2.785	1.00
54_R	57_D	2.749	1.00
33_Q	38_P	2.652	1.00
174_R	177_L	2.628	1.00
235_V	315_L	2.528	1.00
150_A	154_L	2.521	1.00
105_A	114_V	2.443	1.00
25_A	29_R	2.110	1.00
23_Q	27_R	2.080	1.00
154_L	157_V	2.053	1.00
55_Y	59_L	2.011	1.00
42_E	61_F	2.007	1.00
11_A	104_H	1.989	1.00
70_G	74_V	1.986	1.00
33_Q	37_P	1.969	1.00
35_P	38_P	1.925	1.00
109_G	114_V	1.909	1.00
264_W	268_A	1.895	1.00
188_Y	191_A	1.853	1.00
311_H	314_K	1.844	1.00
149_S	152_E	1.842	1.00
97_H	233_H	1.836	1.00
189_A	192_W	1.826	1.00
61_F	65_E	1.819	1.00
185_F	188_Y	1.811	1.00
65_E	68_E	1.800	1.00
27_R	30_L	1.792	1.00
18_S	21_V	1.790	1.00
4_H	233_H	1.782	1.00
174_R	178_L	1.781	1.00
151_L	154_L	1.778	1.00
296_D	299_E	1.777	1.00
62_F	122_A	1.769	1.00
61_F	78_W	1.768	1.00
182_G	186_L	1.745	1.00
109_G	113_E	1.738	1.00
76_A	249_P	1.731	1.00
262_R	266_Q	1.704	1.00
97_H	311_H	1.694	1.00
233_H	311_H	1.685	1.00
156_R	160_D	1.680	1.00
21_V	24_R	1.649	1.00
100_I	233_H	1.612	1.00
241_L	264_W	1.592	1.00
90_G	93_A	1.578	1.00
183_P	192_W	1.573	1.00
87_L	90_G	1.561	1.00
239_H	318_A	1.558	1.00
147_S	150_A	1.557	1.00
173_I	178_L	1.556	1.00
185_F	192_W	1.555	1.00
96_T	237_S	1.554	1.00
7_M	101_R	1.532	1.00
59_L	63_E	1.532	1.00
59_L	116_E	1.528	1.00
175_D	178_L	1.515	1.00
307_H	312_V	1.514	1.00
126_Q	129_P	1.514	1.00
173_I	177_L	1.511	1.00
153_L	156_R	1.506	1.00
69_R	74_V	1.495	1.00
127_P	130_G	1.484	1.00
10_E	108_A	1.463	0.99
33_Q	36_A	1.462	0.99
48_A	54_R	1.461	0.99
100_I	314_K	1.460	0.99
97_H	314_K	1.450	0.99
188_Y	194_V	1.430	0.99
102_L	117_A	1.399	0.99
261_L	265_W	1.389	0.99
106_V	244_L	1.369	0.99
263_A	266_Q	1.369	0.99
40_I	44_N	1.364	0.99
188_Y	192_W	1.362	0.99
34_R	37_P	1.355	0.99
107_E	317_R	1.353	0.99
184_E	192_W	1.353	0.99
155_A	159_A	1.352	0.99
104_H	239_H	1.351	0.99
109_G	112_A	1.350	0.99
33_Q	39_A	1.333	0.99
58_W	122_A	1.328	0.99
182_G	185_F	1.323	0.99
34_R	38_P	1.314	0.99
186_L	189_A	1.307	0.99
4_H	97_H	1.282	0.99
120_Y	124_R	1.277	0.98
231_L	275_R	1.274	0.98
204_K	207_E	1.270	0.98
151_L	155_A	1.266	0.98
91_L	99_L	1.264	0.98
237_S	264_W	1.257	0.98
148_T	151_L	1.255	0.98
264_W	272_Y	1.253	0.98
66_L	70_G	1.252	0.98
15_L	301_I	1.243	0.98
213_A	319_C	1.235	0.98
174_R	180_R	1.234	0.98
150_A	265_W	1.231	0.98
156_R	161_P	1.227	0.98
65_E	69_R	1.223	0.98
233_H	314_K	1.220	0.98
100_I	240_A	1.215	0.98
5_L	9_L	1.210	0.98
12_L	313_I	1.199	0.98
30_L	33_Q	1.194	0.98
100_I	103_G	1.190	0.98
4_H	311_H	1.169	0.97
271_L	274_A	1.166	0.97
183_P	188_Y	1.153	0.97
186_L	190_A	1.137	0.97
149_S	153_L	1.133	0.97
188_Y	193_D	1.128	0.97
261_L	264_W	1.126	0.97
149_S	156_R	1.119	0.97
161_P	165_G	1.113	0.96
184_E	187_E	1.103	0.96
102_L	114_V	1.100	0.96
9_L	22_L	1.097	0.96
75_L	106_V	1.094	0.96
97_H	236_T	1.093	0.96
34_R	39_A	1.092	0.96
157_V	160_D	1.083	0.96
186_L	191_A	1.079	0.96
182_G	188_Y	1.075	0.96
185_F	190_A	1.069	0.95
160_D	188_Y	1.069	0.95
152_E	155_A	1.057	0.95
4_H	7_M	1.057	0.95
66_L	74_V	1.056	0.95
232_L	240_A	1.053	0.95
264_W	274_A	1.051	0.95
150_A	153_L	1.048	0.95
265_W	272_Y	1.048	0.95
96_T	267_A	1.045	0.95
45_W	58_W	1.043	0.95
191_A	194_V	1.041	0.95
236_T	314_K	1.039	0.95
55_Y	119_A	1.038	0.95
148_T	152_E	1.033	0.95
49_L	58_W	1.029	0.94
188_Y	195_S	1.017	0.94
271_L	275_R	1.016	0.94
269_A	273_A	1.008	0.94
17_A	302_A	1.006	0.94
233_H	236_T	1.004	0.94
261_L	267_A	1.003	0.94
176_G	179_A	1.003	0.94
148_T	156_R	1.002	0.94
104_H	318_A	0.997	0.93
58_W	78_W	0.995	0.93
185_F	191_A	0.993	0.93
183_P	193_D	0.992	0.93
209_A	239_H	0.990	0.93
162_R	166_A	0.989	0.93
183_P	186_L	0.981	0.93
239_H	243_L	0.978	0.93
40_I	61_F	0.977	0.93
2_H	95_A	0.968	0.92
75_L	102_L	0.958	0.92
172_K	178_L	0.948	0.92
149_S	154_L	0.948	0.92
158_A	272_Y	0.942	0.91
176_G	180_R	0.938	0.91
265_W	273_A	0.937	0.91
177_L	181_A	0.937	0.91
162_R	184_E	0.935	0.91
259_R	262_R	0.935	0.91
192_W	195_S	0.930	0.91
159_A	162_R	0.930	0.91
232_L	236_T	0.927	0.91
87_L	122_A	0.925	0.91
4_H	314_K	0.922	0.90
183_P	190_A	0.917	0.90
87_L	121_W	0.916	0.90
192_W	196_P	0.915	0.90
155_A	161_P	0.914	0.90
8_A	25_A	0.913	0.90
241_L	260_L	0.913	0.90
10_E	104_H	0.913	0.90
146_G	153_L	0.911	0.90
187_E	191_A	0.907	0.90
270_A	274_A	0.907	0.90
71_W	114_V	0.906	0.90
185_F	193_D	0.904	0.90
212_A	215_L	0.903	0.90
153_L	157_V	0.902	0.89
105_A	108_A	0.901	0.89
46_R	86_R	0.896	0.89
172_K	177_L	0.896	0.89
48_A	51_D	0.894	0.89
21_V	305_V	0.893	0.89
2_H	103_G	0.889	0.89
265_W	275_R	0.878	0.88
264_W	267_A	0.874	0.88
172_K	175_D	0.870	0.88
38_P	73_A	0.869	0.88
226_G	230_F	0.863	0.87
178_L	192_W	0.856	0.87
12_L	25_A	0.854	0.87
10_E	13_Y	0.851	0.87
102_L	121_W	0.849	0.86
153_L	159_A	0.849	0.86
45_W	245_L	0.841	0.86
74_V	115_A	0.840	0.86
178_L	181_A	0.834	0.85
144_P	147_S	0.833	0.85
172_K	176_G	0.832	0.85
313_I	316_V	0.832	0.85
25_A	30_L	0.830	0.85
307_H	310_E	0.828	0.85
260_L	264_W	0.823	0.85
234_A	268_A	0.822	0.85
268_A	274_A	0.821	0.85
173_I	180_R	0.820	0.84
75_L	87_L	0.820	0.84
183_P	191_A	0.819	0.84
63_E	115_A	0.815	0.84
142_A	146_G	0.814	0.84
300_L	316_V	0.812	0.84
132_F	135_S	0.811	0.84
10_E	318_A	0.805	0.83
94_G	110_S	0.804	0.83
97_H	229_F	0.803	0.83
97_H	100_I	0.803	0.83
151_L	159_A	0.802	0.83
190_A	193_D	0.802	0.83
173_I	176_G	0.796	0.83
48_A	58_W	0.796	0.83
52_R	124_R	0.795	0.83
190_A	194_V	0.793	0.82
101_R	116_E	0.792	0.82
236_T	311_H	0.787	0.82
187_E	192_W	0.787	0.82
42_E	77_E	0.785	0.82
96_T	230_F	0.782	0.82
178_L	182_G	0.777	0.81
161_P	166_A	0.777	0.81
272_Y	275_R	0.775	0.81
65_E	78_W	0.772	0.81
163_L	166_A	0.772	0.81
45_W	242_R	0.771	0.81
4_H	100_I	0.770	0.81
205_L	245_L	0.769	0.80
230_F	274_A	0.768	0.80
264_W	271_L	0.764	0.80
17_A	21_V	0.763	0.80
186_L	193_D	0.760	0.80
262_R	271_L	0.760	0.80
103_G	243_L	0.758	0.80
265_W	271_L	0.758	0.80
270_A	275_R	0.757	0.79
151_L	157_V	0.757	0.79
147_S	154_L	0.756	0.79
302_A	306_A	0.755	0.79
170_G	173_I	0.755	0.79
272_Y	276_G	0.755	0.79
217_L	319_C	0.754	0.79
52_R	123_A	0.751	0.79
14_A	108_A	0.750	0.79
75_L	114_V	0.745	0.78
230_F	275_R	0.745	0.78
171_N	180_R	0.744	0.78
26_Y	29_R	0.740	0.78
160_D	163_L	0.740	0.78
264_W	275_R	0.733	0.77
150_A	157_V	0.733	0.77
36_A	39_A	0.731	0.77
158_A	161_P	0.730	0.77
301_I	305_V	0.722	0.76
156_R	191_A	0.718	0.76
69_R	73_A	0.717	0.76
267_A	270_A	0.716	0.76
215_L	234_A	0.711	0.75
154_L	163_L	0.710	0.75
133_L	136_A	0.704	0.74
101_R	113_E	0.702	0.74
316_V	319_C	0.702	0.74
275_R	278_P	0.701	0.74
268_A	271_L	0.700	0.74
150_A	158_A	0.695	0.73
207_E	210_E	0.692	0.73
101_R	121_W	0.690	0.73
26_Y	32_Y	0.690	0.73
10_E	107_E	0.690	0.73
230_F	317_R	0.687	0.73
149_S	207_E	0.686	0.72
44_N	47_E	0.686	0.72
209_A	213_A	0.684	0.72
155_A	162_R	0.684	0.72
102_L	244_L	0.681	0.72
95_A	230_F	0.681	0.72
46_R	130_G	0.680	0.72
151_L	160_D	0.679	0.72
161_P	164_A	0.676	0.71
40_I	49_L	0.674	0.71
162_R	167_R	0.673	0.71
71_W	109_G	0.673	0.71
154_L	160_D	0.671	0.71
150_A	155_A	0.671	0.71
268_A	273_A	0.670	0.71
145_P	154_L	0.666	0.70
208_L	216_Y	0.663	0.70
184_E	188_Y	0.662	0.70
261_L	268_A	0.662	0.70
107_E	228_D	0.662	0.70
299_E	302_A	0.660	0.70
32_Y	37_P	0.660	0.70
239_H	317_R	0.660	0.70
175_D	180_R	0.658	0.69
175_D	179_A	0.658	0.69
29_R	32_Y	0.658	0.69
235_V	238_P	0.658	0.69
9_L	17_A	0.656	0.69
150_A	159_A	0.656	0.69
216_Y	232_L	0.654	0.69
100_I	311_H	0.654	0.69
185_F	195_S	0.654	0.69
262_R	265_W	0.652	0.69
185_F	189_A	0.648	0.68
73_A	77_E	0.648	0.68
190_A	195_S	0.647	0.68
264_W	273_A	0.647	0.68
40_I	58_W	0.647	0.68
181_A	185_F	0.647	0.68
49_L	122_A	0.646	0.68
8_A	29_R	0.645	0.68
91_L	241_L	0.645	0.68
119_A	261_L	0.643	0.68
51_D	124_R	0.641	0.67
79_L	248_L	0.637	0.67
6_P	113_E	0.636	0.67
154_L	158_A	0.635	0.67
185_F	269_A	0.634	0.66
60_A	64_R	0.634	0.66
4_H	236_T	0.634	0.66
284_E	287_A	0.631	0.66
7_M	11_A	0.627	0.66
126_Q	130_G	0.624	0.65
181_A	184_E	0.623	0.65
200_D	203_A	0.623	0.65
19_D	24_R	0.622	0.65
308_G	316_V	0.622	0.65
25_A	28_R	0.621	0.65
146_G	151_L	0.620	0.65
8_A	12_L	0.619	0.65
234_A	271_L	0.619	0.65
71_W	111_P	0.616	0.64
98_G	125_Y	0.614	0.64
2_H	7_M	0.612	0.64
209_A	216_Y	0.610	0.63
7_M	116_E	0.599	0.62
234_A	243_L	0.599	0.62
10_E	17_A	0.597	0.62
188_Y	196_P	0.595	0.62
295_P	300_L	0.595	0.62
156_R	159_A	0.593	0.61
146_G	154_L	0.593	0.61
5_L	10_E	0.592	0.61
266_Q	270_A	0.590	0.61
160_D	164_A	0.590	0.61
267_A	271_L	0.589	0.61
153_L	165_G	0.589	0.61
229_F	233_H	0.587	0.61
72_R	76_A	0.587	0.61
15_L	242_R	0.585	0.60
157_V	188_Y	0.584	0.60
181_A	186_L	0.584	0.60
265_W	270_A	0.583	0.60
210_E	214_R	0.582	0.60
301_I	316_V	0.582	0.60
148_T	161_P	0.581	0.60
41_T	61_F	0.580	0.60
182_G	195_S	0.579	0.59
5_L	17_A	0.579	0.59
9_L	132_F	0.578	0.59
51_D	54_R	0.577	0.59
212_A	217_L	0.575	0.59
56_A	59_L	0.573	0.59
56_A	238_P	0.573	0.59
51_D	58_W	0.573	0.59
194_V	198_A	0.571	0.58
90_G	125_Y	0.570	0.58
10_E	317_R	0.570	0.58
272_Y	279_P	0.566	0.58
95_A	126_Q	0.564	0.57
67_A	156_R	0.562	0.57
56_A	60_A	0.562	0.57
31_E	34_R	0.562	0.57
232_L	315_L	0.562	0.57
159_A	163_L	0.561	0.57
229_F	232_L	0.561	0.57
185_F	198_A	0.561	0.57
116_E	119_A	0.561	0.57
262_R	268_A	0.559	0.57
45_W	61_F	0.558	0.57
100_I	236_T	0.554	0.56
7_M	230_F	0.552	0.56
88_L	252_L	0.550	0.56
46_R	49_L	0.545	0.55
17_A	229_F	0.545	0.55
40_I	48_A	0.544	0.55
205_L	209_A	0.544	0.55
30_L	269_A	0.544	0.55
6_P	11_A	0.544	0.55
186_L	192_W	0.542	0.55
199_G	250_D	0.541	0.54
146_G	149_S	0.536	0.54
124_R	237_S	0.535	0.54
169_D	172_K	0.535	0.54
59_L	119_A	0.530	0.53
55_Y	124_R	0.529	0.53
6_P	101_R	0.529	0.53
261_L	273_A	0.528	0.53
55_Y	116_E	0.528	0.53
174_R	179_A	0.527	0.53
189_A	194_V	0.526	0.52
26_Y	33_Q	0.525	0.52
261_L	274_A	0.525	0.52
192_W	204_K	0.523	0.52
145_P	149_S	0.523	0.52
189_A	193_D	0.522	0.52
183_P	187_E	0.519	0.51
70_G	73_A	0.519	0.51
212_A	234_A	0.519	0.51
2_H	94_G	0.518	0.51
154_L	159_A	0.515	0.51
99_L	241_L	0.513	0.51
147_S	153_L	0.512	0.50
90_G	240_A	0.511	0.50
282_P	287_A	0.510	0.50
2_H	120_Y	0.510	0.50
266_Q	272_Y	0.509	0.50
183_P	189_A	0.509	0.50
59_L	115_A	0.509	0.50
155_A	160_D	0.508	0.50
104_H	107_E	0.508	0.50
226_G	231_L	0.508	0.50
98_G	117_A	0.507	0.50
206_A	210_E	0.507	0.50
266_Q	269_A	0.506	0.50
145_P	169_D	0.506	0.50
272_Y	277_R	0.503	0.49
103_G	232_L	0.500	0.49
212_A	316_V	0.500	0.49

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
3nrhA	3	0.3781	27.5	0.96	Contact Map
1p8cA	6	0.3656	16.9	0.964	Contact Map
2d0oB	2	0.0938	4.5	0.972	Contact Map
2qeuA	6	0.3812	4.2	0.972	Contact Map
2af7A	6	0.1562	4.1	0.973	Contact Map
2q0tA	3	0.1719	3.3	0.974	Contact Map
2z1cA	1	0.2313	3.1	0.974	Contact Map
2xu8A	3	0.1656	3	0.974	Contact Map
3myfA	3	0.3625	2.9	0.975	Contact Map
4wv4B	1	0.1094	2.5	0.975	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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