DUF599 - PFAM28P - GREMLIN Contacts

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DUF599 - Protein of unknown function, DUF599

PFAM:	PF04654	Sequences: VALALFLLAWLGYHLFLERRARRRPLRSLSGLMNRYRRAWMRQMLDTRENRILDVQILRNLQMGTSFFASTSILAIGGLLALLGSTDKALEVLSDLPFAGATSRLLWELKLLLLLLIFVYAFFKFTWSIRLFNYVAILIGAAPNDDPEAEAFAERAARLLNRAARHFNRGLRAYYFALAALAWFFGPWAFIAATLLVVAVLYRREFASR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	209 (204)
Sequences:	3747 (2481)
Seq/√Len:	173.7
META:	0.762

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
5_L	195_L	5.254	1.00
52_I	56_Q	3.783	1.00
186_G	189_A	3.606	1.00
182_A	193_A	3.408	1.00
38_R	154_E	3.201	1.00
121_A	173_A	2.917	1.00
9_A	198_V	2.783	1.00
153_A	157_A	2.765	1.00
182_A	189_A	2.705	1.00
118_F	177_A	2.630	1.00
42_R	150_E	2.570	1.00
135_V	160_L	2.567	1.00
113_L	180_A	2.559	1.00
43_Q	47_T	2.521	1.00
5_L	191_I	2.326	1.00
70_S	74_L	2.318	1.00
142_A	152_F	2.280	1.00
188_W	192_A	2.259	1.00
103_S	106_L	2.176	1.00
44_M	142_A	2.069	1.00
38_R	42_R	1.956	1.00
104_R	108_E	1.833	1.00
5_L	9_A	1.815	1.00
79_L	118_F	1.809	1.00
57_I	140_G	1.802	1.00
188_W	191_I	1.763	1.00
88_K	91_E	1.762	1.00
64_G	129_I	1.749	1.00
61_L	137_I	1.743	1.00
53_L	56_Q	1.728	1.00
41_M	156_A	1.727	1.00
176_F	198_V	1.727	1.00
79_L	115_L	1.724	1.00
150_E	154_E	1.718	1.00
202_Y	207_A	1.658	1.00
9_A	194_T	1.574	1.00
60_N	136_A	1.574	1.00
39_A	42_R	1.562	1.00
4_A	8_L	1.560	1.00
20_R	23_R	1.557	1.00
45_L	149_A	1.537	1.00
44_M	139_I	1.532	1.00
72_S	174_Y	1.498	1.00
146_D	149_A	1.469	1.00
110_K	183_W	1.458	1.00
34_N	161_N	1.442	1.00
79_L	111_L	1.442	1.00
42_R	154_E	1.426	1.00
6_F	190_F	1.418	1.00
147_P	150_E	1.358	1.00
7_L	11_L	1.343	1.00
6_F	194_T	1.321	1.00
57_I	136_A	1.320	1.00
3_L	7_L	1.312	1.00
36_Y	39_A	1.312	1.00
18_E	169_R	1.311	1.00
45_L	156_A	1.311	1.00
146_D	150_E	1.311	1.00
72_S	121_A	1.303	1.00
137_I	164_A	1.293	1.00
38_R	157_A	1.291	1.00
8_L	12_G	1.275	1.00
189_A	193_A	1.265	1.00
16_F	202_Y	1.246	1.00
56_Q	59_R	1.232	1.00
122_F	126_T	1.224	1.00
19_R	22_R	1.212	1.00
15_L	19_R	1.211	1.00
194_T	198_V	1.207	1.00
128_S	132_F	1.206	1.00
62_Q	129_I	1.205	1.00
65_T	129_I	1.201	1.00
90_L	107_W	1.191	1.00
60_N	63_M	1.191	1.00
55_V	59_R	1.190	1.00
58_L	135_V	1.187	1.00
52_I	55_V	1.182	1.00
45_L	142_A	1.181	1.00
62_Q	133_N	1.178	1.00
199_A	203_R	1.156	1.00
13_Y	198_V	1.154	1.00
39_A	43_Q	1.152	1.00
125_F	170_G	1.123	1.00
36_Y	137_I	1.120	1.00
75_A	131_L	1.119	1.00
16_F	21_A	1.119	1.00
44_M	51_R	1.104	1.00
75_A	174_Y	1.088	1.00
68_F	125_F	1.083	1.00
138_L	156_A	1.082	1.00
152_F	156_A	1.070	1.00
111_L	115_L	1.069	1.00
38_R	158_R	1.063	1.00
68_F	122_F	1.058	1.00
9_A	12_G	1.047	0.99
76_I	115_L	1.047	0.99
50_N	55_V	1.045	0.99
114_L	180_A	1.044	0.99
32_L	36_Y	1.030	0.99
95_D	104_R	1.026	0.99
19_R	23_R	1.025	0.99
80_L	115_L	1.019	0.99
132_F	163_A	1.012	0.99
80_L	122_F	1.007	0.99
11_L	15_L	1.005	0.99
16_F	22_R	1.003	0.99
77_G	81_A	1.002	0.99
68_F	175_Y	0.977	0.99
126_T	175_Y	0.975	0.99
154_E	158_R	0.971	0.99
50_N	53_L	0.958	0.99
49_E	144_N	0.952	0.99
14_H	17_L	0.952	0.99
114_L	118_F	0.937	0.99
66_S	129_I	0.937	0.99
42_R	153_A	0.936	0.99
47_T	50_N	0.933	0.99
87_D	104_R	0.930	0.99
74_L	78_G	0.911	0.99
65_T	133_N	0.891	0.98
20_R	24_R	0.891	0.98
132_F	164_A	0.889	0.98
81_A	84_G	0.887	0.98
48_R	51_R	0.881	0.98
157_A	161_N	0.880	0.98
58_L	139_I	0.879	0.98
65_T	167_F	0.875	0.98
191_I	195_L	0.874	0.98
6_F	117_I	0.867	0.98
22_R	25_P	0.867	0.98
117_I	180_A	0.865	0.98
86_T	90_L	0.863	0.98
102_T	106_L	0.857	0.98
8_L	11_L	0.857	0.98
135_V	156_A	0.857	0.98
3_L	6_F	0.856	0.98
65_T	128_S	0.850	0.98
12_G	16_F	0.847	0.98
71_T	174_Y	0.842	0.98
30_S	205_E	0.839	0.98
118_F	174_Y	0.832	0.97
62_Q	175_Y	0.824	0.97
145_D	149_A	0.818	0.97
192_A	196_L	0.815	0.97
147_P	151_A	0.812	0.97
35_R	38_R	0.810	0.97
168_N	172_R	0.808	0.97
6_F	113_L	0.806	0.97
141_A	152_F	0.803	0.97
61_L	132_F	0.803	0.97
17_L	21_A	0.802	0.97
48_R	54_D	0.793	0.97
131_L	163_A	0.787	0.96
106_L	110_K	0.787	0.96
41_M	44_M	0.787	0.96
43_Q	144_N	0.778	0.96
92_V	102_T	0.768	0.96
47_T	150_E	0.768	0.96
183_W	190_F	0.767	0.96
80_L	178_L	0.763	0.96
81_A	107_W	0.763	0.96
129_I	133_N	0.761	0.96
191_I	194_T	0.760	0.96
87_D	91_E	0.751	0.95
30_S	165_R	0.744	0.95
79_L	114_L	0.740	0.95
138_L	159_L	0.739	0.95
145_D	148_E	0.738	0.95
102_T	105_L	0.733	0.95
90_L	104_R	0.733	0.95
100_G	187_P	0.731	0.95
41_M	153_A	0.730	0.95
13_Y	17_L	0.728	0.95
187_P	190_F	0.728	0.95
8_L	47_T	0.727	0.95
204_R	208_S	0.723	0.94
56_Q	63_M	0.721	0.94
53_L	139_I	0.703	0.93
120_Y	173_A	0.703	0.93
61_L	128_S	0.700	0.93
55_V	160_L	0.699	0.93
85_S	89_A	0.699	0.93
65_T	202_Y	0.691	0.93
73_I	174_Y	0.689	0.93
43_Q	66_S	0.686	0.93
64_G	137_I	0.685	0.93
61_L	163_A	0.683	0.92
51_R	54_D	0.683	0.92
58_L	136_A	0.681	0.92
132_F	160_L	0.679	0.92
88_K	95_D	0.678	0.92
68_F	124_K	0.672	0.92
90_L	100_G	0.672	0.92
158_R	162_R	0.669	0.92
166_H	203_R	0.667	0.92
57_I	196_L	0.667	0.92
118_F	133_N	0.666	0.92
114_L	184_F	0.665	0.91
133_N	167_F	0.661	0.91
114_L	154_E	0.658	0.91
200_V	203_R	0.655	0.91
133_N	136_A	0.651	0.91
74_L	122_F	0.649	0.90
124_K	173_A	0.648	0.90
43_Q	50_N	0.646	0.90
68_F	126_T	0.646	0.90
47_T	144_N	0.645	0.90
2_A	6_F	0.645	0.90
106_L	109_L	0.643	0.90
124_K	127_W	0.642	0.90
47_T	51_R	0.640	0.90
16_F	20_R	0.638	0.90
162_R	165_R	0.633	0.89
12_G	22_R	0.632	0.89
36_Y	60_N	0.631	0.89
63_M	66_S	0.631	0.89
196_L	199_A	0.626	0.89
142_A	162_R	0.625	0.89
35_R	39_A	0.625	0.89
9_A	13_Y	0.624	0.89
77_G	137_I	0.623	0.89
131_L	159_L	0.623	0.89
64_G	77_G	0.621	0.88
136_A	164_A	0.620	0.88
60_N	205_E	0.620	0.88
91_E	101_A	0.616	0.88
95_D	105_L	0.616	0.88
6_F	9_A	0.614	0.88
186_G	196_L	0.613	0.88
4_A	7_L	0.612	0.88
61_L	136_A	0.608	0.87
84_G	181_L	0.607	0.87
124_K	166_H	0.605	0.87
112_L	116_L	0.603	0.87
64_G	131_L	0.602	0.87
75_A	79_L	0.601	0.87
59_R	62_Q	0.594	0.86
28_S	31_G	0.594	0.86
9_A	24_R	0.594	0.86
171_L	174_Y	0.593	0.86
95_D	108_E	0.591	0.86
64_G	71_T	0.589	0.86
66_S	69_A	0.578	0.85
77_G	127_W	0.577	0.85
53_L	63_M	0.575	0.84
25_P	151_A	0.574	0.84
67_F	164_A	0.573	0.84
11_L	100_G	0.573	0.84
33_M	134_Y	0.572	0.84
57_I	86_T	0.570	0.84
17_L	28_S	0.570	0.84
59_R	63_M	0.568	0.84
41_M	157_A	0.565	0.83
133_N	175_Y	0.565	0.83
199_A	202_Y	0.562	0.83
81_A	95_D	0.560	0.83
61_L	75_A	0.560	0.83
53_L	57_I	0.560	0.83
72_S	122_F	0.559	0.83
135_V	138_L	0.559	0.83
127_W	131_L	0.556	0.82
185_F	189_A	0.553	0.82
86_T	94_S	0.553	0.82
197_V	205_E	0.551	0.82
45_L	144_N	0.550	0.82
52_I	60_N	0.550	0.82
13_Y	21_A	0.549	0.82
161_N	165_R	0.549	0.82
158_R	161_N	0.546	0.81
101_A	106_L	0.544	0.81
76_I	163_A	0.544	0.81
14_H	18_E	0.544	0.81
65_T	136_A	0.543	0.81
64_G	133_N	0.542	0.81
111_L	184_F	0.540	0.80
66_S	136_A	0.537	0.80
140_G	163_A	0.535	0.80
201_L	205_E	0.535	0.80
37_R	164_A	0.534	0.80
42_R	45_L	0.534	0.80
99_A	119_V	0.532	0.79
144_N	147_P	0.524	0.78
150_E	153_A	0.524	0.78
132_F	167_F	0.522	0.78
32_L	35_R	0.520	0.78
89_A	107_W	0.519	0.78
58_L	160_L	0.519	0.78
126_T	129_I	0.518	0.78
60_N	126_T	0.517	0.78
75_A	118_F	0.517	0.78
63_M	112_L	0.517	0.78
82_L	89_A	0.515	0.77
67_F	139_I	0.514	0.77
202_Y	205_E	0.513	0.77
105_L	147_P	0.512	0.77
21_A	24_R	0.512	0.77
189_A	196_L	0.509	0.76
44_M	53_L	0.508	0.76
164_A	205_E	0.508	0.76
5_L	190_F	0.508	0.76
14_H	169_R	0.504	0.76
88_K	108_E	0.502	0.75
19_R	196_L	0.502	0.75
190_F	194_T	0.501	0.75
13_Y	205_E	0.500	0.75
155_R	164_A	0.500	0.75

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
3wajA	1	0.4402	5.6	0.959	Contact Map
2l2tA	2	0.134	3.4	0.963	Contact Map
2ki9A	1	0.1148	3	0.964	Contact Map
2z73A	2	0.2871	2.6	0.965	Contact Map
2ks1B	1	0.1292	2.3	0.966	Contact Map
2fyuK	1	0.2536	2.1	0.967	Contact Map
2jwaA	2	0.1244	2	0.967	Contact Map
1qleC	1	0.2871	1.8	0.968	Contact Map
2bg9A	1	0.7847	1.8	0.968	Contact Map
4il3A	1	0.4785	1.6	0.969	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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