DUF3169 - PFAM28P - GREMLIN Contacts

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DUF3169 - Protein of unknown function (DUF3169)

PFAM:	PF11368	Sequences: KKALKKFLLLLLLSALIGGFLGFFVGMFKAGAELEGISLDLKELLPFISAYILPWIILLGVILIILTFYFYRKAKKLYSLYDEEDDDDLNETYDQMERKLSYGTIASNIALILSLLLLGISVSGVISLNDSHGTLSLSFLLVLVLFLISYLLKIILQVRQVKLTKKLNPEKLGSVYDPKFQKKWLDSCDEGEKQAIYEASYKAYQLNNYVLPGLYIVLFLLSLLFGTGQLAILVVGVIWIYINVSYLREV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	250 (246)
Sequences:	537 (385)
Seq/√Len:	24.6
META:	0.525

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
173_G	187_S	4.114	1.00
10_L	14_S	3.660	1.00
188_C	196_I	3.655	1.00
177_D	183_K	3.270	1.00
6_K	9_L	3.078	1.00
184_W	188_C	3.031	1.00
228_G	231_A	2.984	1.00
116_L	120_I	2.904	1.00
234_V	238_I	2.726	0.99
173_G	184_W	2.645	0.99
158_V	162_K	2.612	0.99
116_L	236_G	2.604	0.99
173_G	180_F	2.461	0.99
174_S	177_D	2.441	0.98
158_V	175_V	2.430	0.98
19_G	22_G	2.378	0.98
180_F	187_S	2.375	0.98
173_G	188_C	2.347	0.98
82_D	86_D	2.332	0.98
222_S	229_Q	2.254	0.97
174_S	183_K	2.234	0.97
203_A	207_N	2.220	0.97
207_N	242_I	2.190	0.97
9_L	12_L	2.129	0.96
61_V	65_I	2.095	0.96
218_L	235_V	2.072	0.96
14_S	17_I	2.055	0.95
177_D	180_F	2.008	0.95
169_P	184_W	1.953	0.94
157_Q	161_V	1.815	0.91
76_K	79_S	1.778	0.90
12_L	16_L	1.758	0.90
63_L	86_D	1.757	0.90
86_D	220_L	1.716	0.89
180_F	188_C	1.714	0.89
3_A	7_F	1.708	0.88
165_K	168_N	1.677	0.87
180_F	184_W	1.676	0.87
211_L	235_V	1.662	0.87
22_G	26_G	1.623	0.86
162_K	168_N	1.614	0.85
8_L	15_A	1.612	0.85
42_K	76_K	1.608	0.85
208_N	243_N	1.592	0.85
19_G	23_F	1.589	0.84
212_P	240_I	1.582	0.84
41_L	45_L	1.582	0.84
171_K	187_S	1.574	0.84
184_W	239_W	1.569	0.84
171_K	184_W	1.557	0.83
101_S	104_T	1.547	0.83
3_A	174_S	1.545	0.83
73_K	99_K	1.537	0.82
227_T	231_A	1.506	0.81
218_L	227_T	1.503	0.81
196_I	246_Y	1.500	0.81
165_K	180_F	1.498	0.81
191_G	194_Q	1.463	0.79
206_L	245_S	1.435	0.78
231_A	239_W	1.420	0.77
62_I	128_L	1.419	0.77
81_Y	86_D	1.418	0.77
233_L	237_V	1.412	0.77
191_G	221_L	1.397	0.76
239_W	242_I	1.385	0.75
197_Y	229_Q	1.376	0.75
184_W	228_G	1.357	0.74
218_L	221_L	1.345	0.73
185_L	197_Y	1.339	0.73
38_S	41_L	1.335	0.72
155_I	193_K	1.326	0.72
182_K	204_Y	1.321	0.72
70_F	73_K	1.301	0.70
131_S	134_T	1.295	0.70
60_G	67_T	1.290	0.70
162_K	165_K	1.288	0.70
64_I	148_I	1.275	0.69
207_N	238_I	1.264	0.68
211_L	238_I	1.252	0.67
69_Y	147_L	1.221	0.65
21_L	24_F	1.199	0.64
40_D	44_L	1.194	0.64
196_I	199_A	1.186	0.63
226_G	238_I	1.183	0.63
13_L	41_L	1.177	0.62
82_D	87_D	1.172	0.62
122_V	129_N	1.171	0.62
180_F	228_G	1.167	0.62
161_V	191_G	1.165	0.62
157_Q	177_D	1.153	0.61
161_V	173_G	1.142	0.60
151_L	166_K	1.132	0.59
206_L	210_V	1.131	0.59
176_Y	193_K	1.131	0.59
207_N	245_S	1.126	0.59
135_L	138_S	1.124	0.59
97_E	172_L	1.120	0.58
218_L	231_A	1.110	0.58
20_F	23_F	1.109	0.58
178_P	197_Y	1.104	0.57
188_C	228_G	1.103	0.57
71_Y	177_D	1.101	0.57
218_L	222_S	1.079	0.56
169_P	239_W	1.067	0.55
174_S	180_F	1.066	0.55
172_L	193_K	1.064	0.55
172_L	191_G	1.063	0.54
197_Y	200_S	1.051	0.54
107_S	237_V	1.049	0.53
193_K	216_I	1.046	0.53
8_L	60_G	1.040	0.53
165_K	173_G	1.034	0.52
119_G	242_I	1.029	0.52
165_K	174_S	1.029	0.52
171_K	192_E	1.025	0.52
123_S	200_S	1.025	0.52
204_Y	246_Y	1.024	0.52
195_A	199_A	1.008	0.51
26_G	106_A	1.001	0.50
221_L	225_F	0.998	0.50
211_L	239_W	0.997	0.50
215_Y	236_G	0.985	0.49
3_A	211_L	0.985	0.49
43_E	62_I	0.980	0.49
165_K	191_G	0.973	0.48
25_V	235_V	0.972	0.48
158_V	174_S	0.962	0.47
191_G	198_E	0.958	0.47
62_I	80_L	0.954	0.47
161_V	180_F	0.952	0.47
130_D	133_G	0.949	0.46
28_F	63_L	0.940	0.46
74_A	96_M	0.937	0.45
139_F	143_L	0.936	0.45
203_A	245_S	0.932	0.45
82_D	89_L	0.928	0.45
161_V	196_I	0.925	0.45
231_A	242_I	0.922	0.44
10_L	58_L	0.922	0.44
184_W	196_I	0.922	0.44
23_F	185_L	0.921	0.44
203_A	208_N	0.915	0.44
58_L	210_V	0.911	0.44
71_Y	163_L	0.909	0.43
109_I	224_L	0.906	0.43
196_I	239_W	0.905	0.43
20_F	198_E	0.902	0.43
8_L	178_P	0.902	0.43
115_L	126_I	0.901	0.43
15_A	40_D	0.896	0.43
24_F	62_I	0.894	0.42
18_G	22_G	0.892	0.42
61_V	64_I	0.889	0.42
178_P	229_Q	0.880	0.41
17_I	62_I	0.876	0.41
172_L	187_S	0.874	0.41
14_S	22_G	0.871	0.41
11_L	40_D	0.862	0.40
227_T	232_I	0.861	0.40
81_Y	85_D	0.860	0.40
180_F	194_Q	0.857	0.40
194_Q	197_Y	0.856	0.40
9_L	47_F	0.855	0.40
46_P	65_I	0.854	0.40
75_K	79_S	0.854	0.40
3_A	176_Y	0.844	0.39
228_G	239_W	0.844	0.39
18_G	189_D	0.841	0.39
98_R	240_I	0.840	0.39
173_G	229_Q	0.839	0.39
9_L	13_L	0.839	0.39
148_I	186_D	0.835	0.38
152_L	233_L	0.830	0.38
96_M	239_W	0.828	0.38
184_W	187_S	0.827	0.38
174_S	211_L	0.822	0.37
220_L	224_L	0.821	0.37
212_P	231_A	0.818	0.37
15_A	25_V	0.817	0.37
187_S	214_L	0.811	0.37
79_S	163_L	0.807	0.36
12_L	133_G	0.807	0.36
11_L	15_A	0.803	0.36
175_V	203_A	0.803	0.36
90_N	93_Y	0.797	0.36
69_Y	73_K	0.796	0.36
194_Q	198_E	0.795	0.36
169_P	199_A	0.795	0.36
32_A	80_L	0.794	0.36
159_R	168_N	0.793	0.36
170_E	177_D	0.792	0.35
19_G	24_F	0.788	0.35
12_L	56_I	0.787	0.35
192_E	222_S	0.786	0.35
80_L	84_E	0.786	0.35
86_D	190_E	0.785	0.35
55_W	167_L	0.784	0.35
33_E	42_K	0.772	0.34
165_K	171_K	0.768	0.34
52_I	55_W	0.766	0.34
100_L	188_C	0.758	0.33
214_L	235_V	0.755	0.33
61_V	86_D	0.753	0.33
134_T	137_L	0.750	0.33
74_A	103_G	0.749	0.33
146_F	165_K	0.746	0.32
116_L	233_L	0.745	0.32
66_L	182_K	0.740	0.32
104_T	118_L	0.740	0.32
63_L	87_D	0.738	0.32
216_I	234_V	0.736	0.32
190_E	197_Y	0.732	0.32
100_L	116_L	0.732	0.32
113_L	201_Y	0.730	0.31
8_L	87_D	0.727	0.31
108_N	248_R	0.725	0.31
221_L	229_Q	0.724	0.31
105_I	224_L	0.719	0.31
44_L	233_L	0.719	0.31
148_I	154_I	0.715	0.31
83_E	88_D	0.715	0.31
106_A	204_Y	0.710	0.30
21_L	223_L	0.705	0.30
118_L	140_L	0.705	0.30
203_A	219_F	0.703	0.30
197_Y	231_A	0.699	0.30
165_K	187_S	0.692	0.29
165_K	177_D	0.691	0.29
218_L	241_Y	0.691	0.29
187_S	196_I	0.691	0.29
62_I	240_I	0.690	0.29
181_Q	184_W	0.690	0.29
218_L	233_L	0.687	0.29
184_W	199_A	0.687	0.29
165_K	185_L	0.686	0.29
28_F	216_I	0.681	0.29
83_E	89_L	0.681	0.29
19_G	138_S	0.681	0.29
14_S	147_L	0.679	0.28
180_F	191_G	0.679	0.28
39_L	47_F	0.677	0.28
162_K	212_P	0.677	0.28
210_V	235_V	0.669	0.28
136_S	220_L	0.669	0.28
161_V	188_C	0.667	0.28
177_D	197_Y	0.667	0.28
192_E	218_L	0.665	0.28
76_K	80_L	0.664	0.28
199_A	246_Y	0.663	0.27
174_S	215_Y	0.658	0.27
84_E	88_D	0.658	0.27
11_L	66_L	0.657	0.27
119_G	207_N	0.657	0.27
215_Y	239_W	0.656	0.27
72_R	185_L	0.656	0.27
203_A	249_E	0.655	0.27
193_K	209_Y	0.654	0.27
35_E	151_L	0.652	0.27
235_V	239_W	0.648	0.27
16_L	230_L	0.646	0.27
194_Q	221_L	0.645	0.26
188_C	239_W	0.644	0.26
115_L	122_V	0.644	0.26
63_L	109_I	0.643	0.26
56_I	73_K	0.643	0.26
24_F	67_T	0.640	0.26
81_Y	163_L	0.640	0.26
59_L	245_S	0.639	0.26
171_K	180_F	0.637	0.26
105_I	211_L	0.636	0.26
119_G	201_Y	0.636	0.26
17_I	41_L	0.633	0.26
40_D	43_E	0.633	0.26
59_L	102_Y	0.632	0.26
109_I	128_L	0.628	0.26
5_K	176_Y	0.628	0.26
177_D	246_Y	0.627	0.25
21_L	33_E	0.626	0.25
40_D	113_L	0.623	0.25
193_K	197_Y	0.623	0.25
24_F	179_K	0.623	0.25
153_K	163_L	0.622	0.25
199_A	235_V	0.620	0.25
173_G	221_L	0.620	0.25
222_S	227_T	0.619	0.25
20_F	25_V	0.616	0.25
20_F	49_S	0.611	0.25
163_L	167_L	0.610	0.25
203_A	211_L	0.609	0.24
173_G	191_G	0.609	0.24
132_H	138_S	0.605	0.24
38_S	44_L	0.602	0.24
191_G	229_Q	0.600	0.24
85_D	89_L	0.598	0.24
148_I	207_N	0.596	0.24
25_V	205_Q	0.595	0.24
28_F	142_V	0.595	0.24
119_G	165_K	0.595	0.24
12_L	178_P	0.590	0.23
222_S	228_G	0.586	0.23
35_E	145_L	0.582	0.23
20_F	24_F	0.582	0.23
10_L	143_L	0.581	0.23
158_V	231_A	0.579	0.23
131_S	135_L	0.578	0.23
168_N	215_Y	0.578	0.23
172_L	184_W	0.576	0.23
86_D	156_L	0.576	0.23
109_I	147_L	0.574	0.23
12_L	15_A	0.573	0.23
143_L	226_G	0.572	0.23
100_L	184_W	0.571	0.23
12_L	216_I	0.571	0.23
22_G	157_Q	0.570	0.22
115_L	118_L	0.570	0.22
230_L	234_V	0.569	0.22
179_K	182_K	0.568	0.22
53_L	62_I	0.567	0.22
146_F	228_G	0.567	0.22
165_K	170_E	0.566	0.22
72_R	86_D	0.565	0.22
176_Y	183_K	0.565	0.22
219_F	232_I	0.561	0.22
17_I	56_I	0.560	0.22
185_L	188_C	0.558	0.22
15_A	134_T	0.558	0.22
73_K	216_I	0.558	0.22
173_G	194_Q	0.557	0.22
173_G	196_I	0.555	0.22
194_Q	234_V	0.554	0.22
109_I	140_L	0.553	0.22
172_L	205_Q	0.551	0.22
139_F	220_L	0.545	0.21
161_V	187_S	0.545	0.21
172_L	180_F	0.545	0.21
100_L	196_I	0.541	0.21
141_L	144_V	0.539	0.21
176_Y	211_L	0.538	0.21
221_L	227_T	0.538	0.21
72_R	207_N	0.537	0.21
162_K	167_L	0.537	0.21
86_D	89_L	0.536	0.21
186_D	206_L	0.534	0.21
211_L	234_V	0.533	0.21
48_I	109_I	0.532	0.21
202_K	205_Q	0.526	0.20
8_L	20_F	0.526	0.20
38_S	59_L	0.525	0.20
23_F	234_V	0.524	0.20
242_I	248_R	0.522	0.20
173_G	228_G	0.522	0.20
68_F	94_D	0.521	0.20
200_S	221_L	0.520	0.20
242_I	246_Y	0.520	0.20
213_G	241_Y	0.520	0.20
129_N	144_V	0.520	0.20
121_S	154_I	0.516	0.20
84_E	90_N	0.515	0.20
180_F	200_S	0.514	0.20
109_I	240_I	0.513	0.20
225_F	229_Q	0.509	0.20
140_L	146_F	0.508	0.20
17_I	59_L	0.508	0.20
190_E	212_P	0.506	0.19
79_S	83_E	0.503	0.19
11_L	174_S	0.503	0.19
161_V	167_L	0.502	0.19
172_L	229_Q	0.501	0.19
115_L	220_L	0.500	0.19

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
3qnqA	2	0.352	46.9	0.937	Contact Map
2kncA	1	0.204	24.7	0.946	Contact Map
4w6vA	1	0.264	23.7	0.946	Contact Map
3rlbA	1	0.332	22.7	0.947	Contact Map
4tkrA	2	0.316	16.7	0.95	Contact Map
4ikvA	1	0.256	12.6	0.952	Contact Map
4i0uA	4	0.248	9.9	0.955	Contact Map
4ev6A	3	0.256	9.4	0.955	Contact Map
3pcvA	3	0.376	9.2	0.955	Contact Map
4dx5A	3	0.592	8.9	0.956	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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