DUF637 - PFAM28P - GREMLIN Contacts

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DUF637 - Possible hemagglutinin (DUF637)

PFAM:	PF04830	Sequences: AANAALTSLASQAAVSLINNKGDLGATLKDLGSSDSLKSLATSMVTAGLTAGLDDGALGGTTDPGTNKLPGADLSTWSGLGQFLANQLLQAVISAGVNTAINGGSFGDNLKNALLSALVNTLAAEGANAIGDLGDGLGLADGSLAKKLAHAALGCAAAAATGGDCAAGAIGA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	172 (172)
Sequences:	904 (721)
Seq/√Len:	55.0
META:	0.612

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
155_C	165_C	6.339	1.00
99_T	104_G	4.753	1.00
5_A	44_M	3.737	1.00
16_S	27_T	2.941	1.00
158_A	164_D	2.897	1.00
93_I	96_G	2.697	1.00
126_G	153_L	2.643	1.00
6_L	10_A	2.630	1.00
123_A	157_A	2.606	1.00
17_L	27_T	2.457	1.00
17_L	21_K	2.447	1.00
15_V	19_N	2.341	1.00
11_S	14_A	2.268	1.00
165_C	171_G	2.171	1.00
46_T	97_V	2.127	1.00
119_V	160_A	2.082	1.00
2_A	5_A	2.081	1.00
42_T	102_N	2.040	1.00
99_T	109_N	1.992	1.00
130_I	153_L	1.962	1.00
167_A	171_G	1.901	1.00
16_S	30_D	1.888	1.00
127_A	130_I	1.862	0.99
49_L	97_V	1.671	0.99
40_L	44_M	1.669	0.99
47_A	51_A	1.652	0.99
134_G	146_K	1.649	0.99
104_G	109_N	1.641	0.99
127_A	153_L	1.624	0.98
11_S	15_V	1.601	0.98
154_G	168_G	1.592	0.98
148_L	152_A	1.579	0.98
80_L	84_L	1.572	0.98
40_L	43_S	1.472	0.97
155_C	171_G	1.452	0.97
98_N	102_N	1.430	0.97
36_S	40_L	1.418	0.96
17_L	31_L	1.408	0.96
123_A	127_A	1.394	0.96
8_S	40_L	1.381	0.96
155_C	159_A	1.380	0.96
32_G	36_S	1.351	0.95
153_L	157_A	1.338	0.95
38_K	102_N	1.336	0.95
41_A	45_V	1.334	0.95
2_A	6_L	1.326	0.95
1_A	44_M	1.320	0.95
158_A	162_G	1.313	0.94
3_N	6_L	1.301	0.94
12_Q	21_K	1.294	0.94
126_G	129_A	1.284	0.94
131_G	150_H	1.276	0.94
27_T	30_D	1.227	0.92
3_N	7_T	1.224	0.92
33_S	36_S	1.221	0.92
7_T	11_S	1.218	0.92
23_D	26_A	1.199	0.91
115_L	119_V	1.196	0.91
18_I	30_D	1.190	0.91
16_S	23_D	1.182	0.91
50_T	54_D	1.178	0.91
119_V	123_A	1.157	0.90
165_C	168_G	1.148	0.89
161_T	164_D	1.145	0.89
8_S	12_Q	1.139	0.89
99_T	103_G	1.137	0.89
119_V	157_A	1.134	0.89
5_A	8_S	1.130	0.89
165_C	169_A	1.129	0.89
7_T	10_A	1.126	0.88
91_A	95_A	1.102	0.87
32_G	40_L	1.099	0.87
28_L	32_G	1.085	0.86
64_P	67_N	1.068	0.86
131_G	134_G	1.064	0.85
5_A	9_L	1.063	0.85
130_I	149_A	1.062	0.85
164_D	167_A	1.054	0.85
123_A	126_G	1.048	0.85
9_L	40_L	1.024	0.83
152_A	155_C	1.020	0.83
8_S	13_A	1.001	0.82
16_S	20_N	1.001	0.82
85_A	88_L	0.985	0.81
64_P	73_D	0.984	0.81
159_A	165_C	0.983	0.81
151_A	155_C	0.981	0.80
127_A	172_A	0.973	0.80
31_L	40_L	0.969	0.80
13_A	27_T	0.957	0.79
24_L	27_T	0.949	0.78
144_L	148_L	0.940	0.77
6_L	9_L	0.937	0.77
42_T	101_I	0.934	0.77
65_G	69_L	0.934	0.77
142_G	146_K	0.921	0.76
6_L	11_S	0.919	0.76
145_A	149_A	0.910	0.75
146_K	155_C	0.897	0.74
117_A	121_T	0.895	0.74
158_A	163_G	0.889	0.73
13_A	17_L	0.879	0.73
107_G	111_K	0.877	0.72
156_A	159_A	0.876	0.72
27_T	32_G	0.874	0.72
153_L	167_A	0.873	0.72
57_A	60_G	0.868	0.72
160_A	164_D	0.862	0.71
36_S	39_S	0.857	0.71
122_L	163_G	0.853	0.70
137_L	142_G	0.842	0.69
89_L	92_V	0.838	0.69
139_L	142_G	0.834	0.69
12_Q	37_L	0.828	0.68
67_N	70_P	0.824	0.68
3_N	9_L	0.824	0.68
12_Q	31_L	0.817	0.67
156_A	161_T	0.810	0.66
78_S	82_Q	0.809	0.66
8_S	39_S	0.807	0.66
12_Q	32_G	0.797	0.65
144_L	147_K	0.793	0.65
134_G	138_G	0.791	0.64
167_A	170_I	0.789	0.64
99_T	102_N	0.786	0.64
162_G	170_I	0.786	0.64
79_G	82_Q	0.783	0.64
49_L	53_L	0.781	0.63
38_K	115_L	0.777	0.63
4_A	7_T	0.776	0.63
42_T	50_T	0.775	0.63
157_A	160_A	0.770	0.62
133_L	149_A	0.765	0.62
153_L	172_A	0.763	0.62
10_A	15_V	0.749	0.60
73_D	76_T	0.748	0.60
21_K	32_G	0.745	0.60
6_L	31_L	0.744	0.60
10_A	27_T	0.743	0.60
74_L	79_G	0.732	0.58
55_D	58_L	0.731	0.58
91_A	117_A	0.729	0.58
106_F	115_L	0.726	0.58
9_L	31_L	0.724	0.58
63_D	66_T	0.724	0.58
12_Q	16_S	0.723	0.57
135_D	143_S	0.722	0.57
10_A	14_A	0.718	0.57
32_G	44_M	0.716	0.57
134_G	149_A	0.714	0.57
27_T	31_L	0.714	0.57
60_G	64_P	0.710	0.56
70_P	73_D	0.710	0.56
10_A	19_N	0.709	0.56
1_A	5_A	0.706	0.56
139_L	143_S	0.704	0.55
84_L	100_A	0.695	0.54
154_G	158_A	0.694	0.54
1_A	9_L	0.689	0.54
20_N	26_A	0.684	0.53
39_S	97_V	0.681	0.53
18_I	22_G	0.680	0.53
133_L	158_A	0.671	0.52
19_N	30_D	0.668	0.52
127_A	141_D	0.666	0.51
91_A	121_T	0.666	0.51
76_T	79_G	0.665	0.51
150_H	154_G	0.660	0.51
60_G	68_K	0.657	0.50
123_A	153_L	0.655	0.50
151_A	157_A	0.655	0.50
121_T	125_E	0.652	0.50
145_A	166_A	0.650	0.50
96_G	107_G	0.647	0.49
63_D	68_K	0.647	0.49
29_K	32_G	0.646	0.49
83_F	97_V	0.646	0.49
94_S	113_A	0.646	0.49
87_Q	121_T	0.644	0.49
1_A	34_S	0.643	0.49
11_S	157_A	0.642	0.49
56_G	59_G	0.642	0.49
55_D	62_T	0.635	0.48
77_W	80_L	0.634	0.48
137_L	140_A	0.633	0.48
144_L	161_T	0.633	0.48
49_L	90_Q	0.630	0.48
69_L	72_A	0.629	0.47
106_F	121_T	0.627	0.47
55_D	59_G	0.627	0.47
123_A	172_A	0.627	0.47
141_D	146_K	0.626	0.47
50_T	93_I	0.626	0.47
49_L	54_D	0.625	0.47
12_Q	40_L	0.624	0.47
43_S	46_T	0.622	0.47
54_D	89_L	0.620	0.46
55_D	60_G	0.620	0.46
41_A	44_M	0.617	0.46
113_A	132_D	0.616	0.46
135_D	139_L	0.612	0.46
4_A	43_S	0.603	0.45
150_H	153_L	0.603	0.45
21_K	30_D	0.601	0.44
8_S	36_S	0.600	0.44
147_K	155_C	0.598	0.44
53_L	93_I	0.595	0.44
84_L	121_T	0.590	0.43
66_T	70_P	0.587	0.43
53_L	58_L	0.587	0.43
129_A	133_L	0.586	0.43
163_G	167_A	0.585	0.43
132_D	146_K	0.584	0.43
92_V	95_A	0.583	0.43
19_N	23_D	0.577	0.42
111_K	118_L	0.576	0.42
83_F	88_L	0.575	0.42
159_A	168_G	0.575	0.42
56_G	60_G	0.575	0.42
110_L	123_A	0.574	0.42
62_T	65_G	0.570	0.41
98_N	109_N	0.564	0.41
96_G	106_F	0.563	0.40
72_A	79_G	0.561	0.40
7_T	19_N	0.561	0.40
29_K	34_S	0.559	0.40
62_T	66_T	0.558	0.40
26_A	30_D	0.556	0.40
3_N	23_D	0.555	0.40
69_L	81_G	0.553	0.39
42_T	97_V	0.547	0.39
133_L	137_L	0.545	0.39
9_L	13_A	0.543	0.38
60_G	66_T	0.542	0.38
9_L	16_S	0.541	0.38
20_N	23_D	0.541	0.38
20_N	28_L	0.537	0.38
35_D	38_K	0.537	0.38
119_V	166_A	0.535	0.38
29_K	33_S	0.529	0.37
25_G	28_L	0.529	0.37
158_A	165_C	0.522	0.36
118_L	123_A	0.521	0.36
147_K	158_A	0.519	0.36
9_L	36_S	0.517	0.36
55_D	63_D	0.516	0.36
115_L	122_L	0.516	0.36
169_A	172_A	0.515	0.36
34_S	41_A	0.509	0.35
36_S	92_V	0.508	0.35
76_T	80_L	0.508	0.35
104_G	113_A	0.506	0.35
11_S	19_N	0.506	0.35
88_L	92_V	0.505	0.35
156_A	165_C	0.504	0.35
139_L	145_A	0.503	0.34
23_D	33_S	0.501	0.34
38_K	105_S	0.500	0.34

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
1q02A	1	0.2093	4.3	0.943	Contact Map
2b99A	3	0.4244	1.5	0.955	Contact Map
2qqpB	5	0.2907	1	0.959	Contact Map
2g3qA	1	0.1919	0.7	0.963	Contact Map
1uvqC	1	0.1163	0.7	0.963	Contact Map
1z96A	1	0.1744	0.7	0.964	Contact Map
1ifkA	9	0.2093	0.7	0.964	Contact Map
3s6pE	5	0.2907	0.6	0.965	Contact Map
2qb0B	2	0.343	0.6	0.965	Contact Map
3kw6A	1	0.1919	0.6	0.966	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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