DUF3348 - PFAM28P - GREMLIN Contacts

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DUF3348 - Protein of unknown function (DUF3348)

PFAM:	PF11828	Sequences: MTQAPPRTAFSGSALVRLLARLADADVPESRQSLAERLSQWLDWTDAIALSAALNGSPPAAAPGARAAGAAEEAECARVRAALAQAIAADPAAAAGRRRIPLPAPAPAAPADAAADFAPYRQRYLALQRAMETAIGALRGRLRAALAARSPALARLAALDAVMEQALGARERRLLATVPALLEKRFERLRQAHQAALADAQAADDPAAWAQPGAWLDAFRKDMQSVLLAELDVRLQPVEGLLEALR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	246 (246)
Sequences:	724 (573)
Seq/√Len:	36.6
META:	0.699

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
185_R	222_D	4.716	1.00
185_R	188_R	4.157	1.00
221_K	224_Q	3.816	1.00
206_P	209_W	3.331	1.00
204_D	209_W	3.284	1.00
43_D	46_D	3.257	1.00
123_R	127_L	2.961	1.00
15_L	46_D	2.913	1.00
73_E	246_R	2.798	1.00
75_E	78_R	2.795	1.00
41_W	171_E	2.790	1.00
76_C	235_L	2.701	1.00
178_V	226_V	2.347	1.00
218_A	221_K	2.343	1.00
22_L	226_V	2.261	0.99
183_E	187_E	2.215	0.99
44_W	51_S	2.197	0.99
117_F	124_Y	2.193	0.99
239_E	243_E	2.159	0.99
142_L	238_V	2.136	0.99
120_Y	183_E	2.105	0.99
235_L	238_V	2.067	0.99
127_L	130_A	2.049	0.99
75_E	141_R	2.028	0.99
41_W	170_R	2.018	0.99
175_L	233_V	1.987	0.98
124_Y	223_M	1.947	0.98
129_R	172_R	1.925	0.98
241_L	244_A	1.917	0.98
34_L	76_C	1.909	0.98
46_D	135_I	1.882	0.98
230_E	234_R	1.866	0.98
234_R	237_P	1.783	0.97
189_L	219_F	1.781	0.97
135_I	238_V	1.741	0.96
193_H	197_L	1.735	0.96
161_A	167_L	1.698	0.96
51_S	54_L	1.670	0.95
226_V	238_V	1.663	0.95
15_L	43_D	1.658	0.95
43_D	129_R	1.592	0.94
33_S	42_L	1.579	0.94
170_R	174_L	1.566	0.93
15_L	158_A	1.557	0.93
131_M	135_I	1.550	0.93
43_D	55_N	1.538	0.93
80_R	135_I	1.533	0.93
81_A	85_Q	1.533	0.93
100_I	103_P	1.531	0.93
117_F	122_Q	1.528	0.93
12_G	154_A	1.527	0.92
219_F	222_D	1.523	0.92
45_T	51_S	1.520	0.92
242_L	245_L	1.476	0.91
54_L	116_D	1.469	0.91
49_A	120_Y	1.439	0.90
142_L	235_L	1.423	0.90
8_T	25_A	1.417	0.89
197_L	213_G	1.414	0.89
190_R	215_W	1.408	0.89
79_V	138_L	1.393	0.89
171_E	174_L	1.391	0.88
162_V	165_Q	1.388	0.88
11_S	14_A	1.379	0.88
163_M	236_Q	1.372	0.88
20_A	28_P	1.370	0.88
234_R	240_G	1.368	0.88
201_Q	204_D	1.357	0.87
88_A	224_Q	1.351	0.87
90_D	93_A	1.345	0.87
13_S	34_L	1.342	0.87
84_A	228_L	1.338	0.86
53_A	162_V	1.337	0.86
41_W	174_L	1.299	0.85
142_L	146_L	1.286	0.84
237_P	240_G	1.276	0.84
153_L	217_D	1.270	0.83
79_V	147_A	1.255	0.83
209_W	214_A	1.242	0.82
44_W	136_G	1.236	0.82
203_A	207_A	1.230	0.81
46_D	52_A	1.222	0.81
83_L	231_L	1.222	0.81
135_I	232_D	1.221	0.81
237_P	241_L	1.220	0.81
237_P	244_A	1.213	0.80
230_E	240_G	1.197	0.79
43_D	183_E	1.190	0.79
149_R	153_L	1.173	0.78
3_Q	14_A	1.173	0.78
91_P	123_R	1.169	0.78
18_L	24_D	1.164	0.78
183_E	224_Q	1.129	0.75
84_A	88_A	1.128	0.75
189_L	218_A	1.124	0.75
11_S	15_L	1.121	0.75
132_E	169_A	1.116	0.74
227_L	230_E	1.108	0.74
99_R	103_P	1.104	0.74
48_I	132_E	1.103	0.74
171_E	175_L	1.095	0.73
165_Q	211_Q	1.091	0.73
25_A	62_A	1.088	0.73
48_I	52_A	1.086	0.72
18_L	42_L	1.075	0.72
197_L	202_A	1.070	0.71
2_T	5_P	1.069	0.71
39_S	84_A	1.069	0.71
82_A	240_G	1.061	0.71
48_I	141_R	1.055	0.70
2_T	6_P	1.050	0.70
230_E	237_P	1.039	0.69
44_W	154_A	1.039	0.69
39_S	233_V	1.032	0.68
151_P	223_M	1.025	0.68
200_A	208_A	1.013	0.67
44_W	130_A	1.007	0.67
117_F	157_A	1.004	0.66
205_D	209_W	1.004	0.66
240_G	243_E	0.998	0.66
153_L	180_A	0.998	0.66
46_D	55_N	0.996	0.66
12_G	16_V	0.994	0.66
84_A	93_A	0.993	0.65
13_S	119_P	0.990	0.65
57_S	61_A	0.989	0.65
102_L	105_P	0.982	0.65
53_A	82_A	0.966	0.63
44_W	121_R	0.965	0.63
17_R	21_R	0.944	0.61
117_F	225_S	0.942	0.61
121_R	175_L	0.937	0.61
48_I	243_E	0.925	0.60
68_A	145_A	0.924	0.60
122_Q	127_L	0.924	0.60
13_S	127_L	0.922	0.60
90_D	123_R	0.920	0.59
52_A	183_E	0.920	0.59
71_A	224_Q	0.912	0.59
122_Q	130_A	0.909	0.59
159_L	172_R	0.904	0.58
9_A	12_G	0.898	0.58
23_A	26_D	0.894	0.57
186_F	219_F	0.890	0.57
48_I	133_T	0.885	0.56
162_V	178_V	0.884	0.56
15_L	19_L	0.882	0.56
5_P	10_F	0.880	0.56
98_R	118_A	0.880	0.56
156_L	244_A	0.878	0.56
146_L	164_E	0.875	0.56
126_A	172_R	0.870	0.55
1_M	4_A	0.868	0.55
72_E	141_R	0.867	0.55
187_E	221_K	0.866	0.55
128_Q	230_E	0.866	0.55
213_G	216_L	0.865	0.55
80_R	163_M	0.864	0.55
169_A	235_L	0.861	0.54
76_C	239_E	0.853	0.54
13_S	243_E	0.851	0.54
115_A	213_G	0.847	0.53
36_E	161_A	0.845	0.53
235_L	239_E	0.843	0.53
216_L	242_L	0.836	0.52
235_L	240_G	0.836	0.52
47_A	171_E	0.833	0.52
123_R	165_Q	0.832	0.52
10_F	161_A	0.825	0.51
16_V	24_D	0.824	0.51
15_L	144_A	0.824	0.51
62_A	200_A	0.824	0.51
128_Q	143_R	0.824	0.51
234_R	241_L	0.822	0.51
80_R	186_F	0.811	0.50
5_P	70_A	0.808	0.50
130_A	183_E	0.807	0.50
43_D	170_R	0.800	0.49
23_A	177_T	0.799	0.49
143_R	160_D	0.798	0.49
216_L	219_F	0.796	0.49
101_P	109_A	0.796	0.49
231_L	234_R	0.793	0.48
23_A	135_I	0.793	0.48
204_D	210_A	0.793	0.48
60_A	67_A	0.791	0.48
13_S	35_A	0.791	0.48
121_R	181_L	0.787	0.48
52_A	238_V	0.784	0.48
76_C	93_A	0.783	0.48
44_W	236_Q	0.783	0.48
51_S	130_A	0.779	0.47
61_A	188_R	0.777	0.47
20_A	134_A	0.774	0.47
225_S	236_Q	0.768	0.46
84_A	159_L	0.768	0.46
151_P	175_L	0.766	0.46
187_E	224_Q	0.764	0.46
21_R	34_L	0.762	0.46
32_Q	236_Q	0.758	0.45
36_E	183_E	0.755	0.45
44_W	54_L	0.745	0.44
97_R	102_L	0.745	0.44
1_M	6_P	0.744	0.44
98_R	119_P	0.740	0.44
53_A	99_R	0.739	0.44
35_A	165_Q	0.739	0.44
32_Q	37_R	0.738	0.44
51_S	121_R	0.734	0.43
126_A	152_A	0.732	0.43
11_S	132_E	0.732	0.43
227_L	234_R	0.732	0.43
220_R	243_E	0.731	0.43
172_R	240_G	0.729	0.43
15_L	132_E	0.728	0.43
81_A	194_Q	0.726	0.43
77_A	123_R	0.723	0.42
41_W	131_M	0.723	0.42
150_S	178_V	0.719	0.42
120_Y	124_Y	0.714	0.42
39_S	122_Q	0.713	0.42
197_L	200_A	0.710	0.41
30_S	177_T	0.708	0.41
142_L	145_A	0.708	0.41
42_L	166_A	0.706	0.41
201_Q	206_P	0.705	0.41
123_R	190_R	0.703	0.41
46_D	132_E	0.700	0.40
58_P	113_A	0.695	0.40
76_C	238_V	0.694	0.40
204_D	208_A	0.689	0.39
3_Q	42_L	0.687	0.39
12_G	155_R	0.685	0.39
61_A	97_R	0.684	0.39
201_Q	210_A	0.683	0.39
126_A	132_E	0.682	0.39
197_L	204_D	0.678	0.39
140_G	164_E	0.678	0.39
166_A	232_D	0.677	0.38
33_S	47_A	0.677	0.38
132_E	236_Q	0.676	0.38
41_W	47_A	0.675	0.38
198_A	203_A	0.673	0.38
3_Q	48_I	0.671	0.38
159_L	216_L	0.671	0.38
132_E	144_A	0.670	0.38
9_A	20_A	0.669	0.38
74_A	110_P	0.669	0.38
78_R	242_L	0.668	0.38
13_S	69_G	0.667	0.38
240_G	244_A	0.666	0.38
142_L	242_L	0.666	0.38
205_D	208_A	0.666	0.38
4_A	14_A	0.664	0.37
12_G	21_R	0.661	0.37
170_R	173_R	0.659	0.37
77_A	91_P	0.659	0.37
20_A	24_D	0.654	0.37
9_A	43_D	0.653	0.37
221_K	225_S	0.653	0.37
87_I	235_L	0.653	0.37
149_R	162_V	0.648	0.36
60_A	135_I	0.645	0.36
204_D	207_A	0.643	0.36
42_L	52_A	0.639	0.35
79_V	131_M	0.637	0.35
15_L	240_G	0.635	0.35
44_W	123_R	0.634	0.35
47_A	51_S	0.633	0.35
123_R	126_A	0.632	0.35
74_A	240_G	0.630	0.35
117_F	219_F	0.630	0.35
105_P	197_L	0.630	0.35
123_R	163_M	0.629	0.35
34_L	233_V	0.629	0.35
146_L	238_V	0.629	0.35
66_R	70_A	0.627	0.34
139_R	157_A	0.627	0.34
88_A	178_V	0.625	0.34
198_A	201_Q	0.623	0.34
89_A	137_A	0.621	0.34
10_F	23_A	0.620	0.34
181_L	224_Q	0.618	0.34
124_Y	222_D	0.616	0.34
27_V	30_S	0.615	0.33
33_S	144_A	0.615	0.33
46_D	137_A	0.614	0.33
164_E	171_E	0.613	0.33
10_F	15_L	0.613	0.33
202_A	205_D	0.613	0.33
94_A	216_L	0.612	0.33
146_L	178_V	0.609	0.33
209_W	213_G	0.607	0.33
193_H	225_S	0.607	0.33
42_L	46_D	0.607	0.33
46_D	91_P	0.605	0.33
55_N	135_I	0.602	0.32
194_Q	199_D	0.599	0.32
41_W	175_L	0.599	0.32
112_D	213_G	0.595	0.32
120_Y	214_A	0.595	0.32
2_T	162_V	0.594	0.32
16_V	23_A	0.592	0.32
56_G	155_R	0.592	0.32
6_P	141_R	0.592	0.32
126_A	184_K	0.591	0.32
44_W	166_A	0.588	0.31
184_K	224_Q	0.587	0.31
49_A	59_P	0.581	0.31
125_L	157_A	0.578	0.31
153_L	223_M	0.574	0.30
150_S	193_H	0.573	0.30
234_R	244_A	0.570	0.30
130_A	137_A	0.569	0.30
32_Q	179_P	0.569	0.30
95_A	120_Y	0.569	0.30
26_D	196_A	0.568	0.30
75_E	189_L	0.565	0.30
42_L	161_A	0.564	0.30
130_A	166_A	0.562	0.29
13_S	122_Q	0.560	0.29
184_K	225_S	0.560	0.29
88_A	228_L	0.559	0.29
189_L	216_L	0.559	0.29
18_L	225_S	0.558	0.29
23_A	42_L	0.556	0.29
78_R	145_A	0.555	0.29
12_G	24_D	0.555	0.29
203_A	208_A	0.554	0.29
31_R	34_L	0.554	0.29
75_E	134_A	0.554	0.29
153_L	189_L	0.553	0.29
37_R	178_V	0.551	0.29
124_Y	179_P	0.550	0.29
140_G	154_A	0.549	0.29
89_A	185_R	0.549	0.29
39_S	176_A	0.548	0.28
43_D	150_S	0.546	0.28
65_A	68_A	0.546	0.28
63_P	88_A	0.545	0.28
124_Y	219_F	0.544	0.28
8_T	18_L	0.540	0.28
5_P	11_S	0.540	0.28
100_I	127_L	0.539	0.28
75_E	79_V	0.537	0.28
46_D	236_Q	0.536	0.28
21_R	124_Y	0.536	0.28
122_Q	172_R	0.532	0.27
195_A	199_D	0.531	0.27
163_M	239_E	0.531	0.27
48_I	236_Q	0.530	0.27
7_R	10_F	0.529	0.27
74_A	82_A	0.528	0.27
141_R	190_R	0.526	0.27
206_P	210_A	0.525	0.27
99_R	104_A	0.523	0.27
193_H	215_W	0.523	0.27
147_A	153_L	0.523	0.27
113_A	240_G	0.517	0.26
97_R	101_P	0.514	0.26
15_L	135_I	0.513	0.26
82_A	201_Q	0.512	0.26
48_I	51_S	0.511	0.26
11_S	34_L	0.508	0.26
18_L	21_R	0.507	0.26
160_D	241_L	0.506	0.26
133_T	184_K	0.504	0.25
139_R	215_W	0.502	0.25
12_G	219_F	0.500	0.25

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
2h58A	1	0.2276	4.5	0.97	Contact Map
2jd3A	2	0.2114	4.2	0.971	Contact Map
4ozqA	1	0.2276	2.7	0.973	Contact Map
1zeeA	3	0.1341	2	0.975	Contact Map
2ys9A	1	0.2561	1.9	0.975	Contact Map
4rg9S	1	0.0732	1.8	0.976	Contact Map
4n6cA	1	0.5732	1.7	0.976	Contact Map
3hglA	1	0.313	1.6	0.976	Contact Map
4g78A	1	0.4878	1.5	0.977	Contact Map
3eabG	1	0.1179	1.5	0.977	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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