DUF3891 - PFAM28P - GREMLIN Contacts

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DUF3891 - Protein of unknown function (DUF3891)

PFAM:	PF13030	Sequences: MIVRETGDGWLLITQPDHARLAGQLARAWGNDRFARPEPWRESVLLAAAEHDDGWAEWDAAPTLDPETGRPYDFLEVPLEEHLALWRRGIDRLAAQDPYAGLLVSMHGTGLYERRYDRPEVDAFLAEQEARQARLRAELGASEEELERNYRLLQFCDLLSLYFCLGEPGEGRELEVPLGPDGARLTLRPLGPGRVTLDPWPFAGDPLEVSVEARRLPK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	218 (216)
Sequences:	3165 (2317)
Seq/√Len:	157.6
META:	0.891

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
43_S	97_D	4.319	1.00
99_Y	149_N	4.093	1.00
65_D	76_E	3.508	1.00
128_Q	131_R	3.456	1.00
87_R	127_E	3.195	1.00
105_S	128_Q	2.786	1.00
41_R	45_L	2.602	1.00
91_D	131_R	2.480	1.00
105_S	132_Q	2.388	1.00
28_A	203_A	2.366	1.00
50_E	53_D	2.362	1.00
110_G	150_Y	2.198	1.00
200_W	206_P	2.144	1.00
26_A	156_C	2.131	1.00
19_A	22_A	2.110	1.00
23_G	49_A	2.102	1.00
109_T	132_Q	2.063	1.00
191_G	194_R	2.051	1.00
94_A	134_R	2.043	1.00
27_R	49_A	2.025	1.00
24_Q	27_R	2.011	1.00
3_V	12_L	2.003	1.00
14_T	17_D	1.992	1.00
188_R	196_T	1.970	1.00
31_N	34_F	1.969	1.00
48_A	156_C	1.943	1.00
36_R	41_R	1.917	1.00
97_D	100_A	1.911	1.00
57_E	88_R	1.880	1.00
160_S	164_C	1.857	1.00
39_P	149_N	1.832	1.00
93_L	101_G	1.831	1.00
44_V	103_L	1.785	1.00
65_D	68_T	1.770	1.00
72_Y	78_P	1.770	1.00
131_R	135_L	1.718	1.00
17_D	20_R	1.698	1.00
63_T	72_Y	1.637	1.00
46_L	50_E	1.600	1.00
173_E	176_V	1.588	1.00
123_A	127_E	1.577	1.00
63_T	81_E	1.568	1.00
197_L	202_F	1.561	1.00
53_D	92_R	1.558	1.00
6_T	9_G	1.556	1.00
143_E	147_E	1.542	1.00
78_P	81_E	1.540	1.00
177_P	180_P	1.516	1.00
176_V	179_G	1.512	1.00
134_R	138_E	1.451	1.00
93_L	100_A	1.443	1.00
94_A	101_G	1.433	1.00
118_R	122_D	1.423	1.00
6_T	11_L	1.412	1.00
29_W	201_P	1.399	1.00
27_R	45_L	1.376	1.00
57_E	92_R	1.343	1.00
106_M	146_L	1.339	1.00
136_R	143_E	1.319	1.00
136_R	146_L	1.286	1.00
21_L	163_F	1.270	1.00
86_W	108_G	1.258	1.00
147_E	150_Y	1.258	1.00
28_A	207_L	1.258	1.00
110_G	154_Q	1.251	1.00
50_E	96_Q	1.246	1.00
102_L	132_Q	1.245	1.00
93_L	104_V	1.243	1.00
21_L	25_L	1.242	1.00
168_P	171_G	1.233	1.00
13_I	164_C	1.228	1.00
9_G	215_R	1.220	1.00
113_E	116_Y	1.219	1.00
106_M	150_Y	1.206	1.00
93_L	97_D	1.205	1.00
172_R	175_E	1.204	1.00
86_W	89_G	1.183	1.00
80_E	120_E	1.183	1.00
4_R	11_L	1.182	1.00
82_H	112_Y	1.172	1.00
17_D	212_E	1.169	1.00
179_G	183_A	1.167	1.00
23_G	48_A	1.157	1.00
20_R	24_Q	1.156	1.00
122_D	126_A	1.129	1.00
200_W	204_G	1.127	1.00
22_A	160_S	1.126	1.00
98_P	138_E	1.119	1.00
171_G	174_L	1.118	1.00
133_A	137_A	1.115	1.00
159_L	197_L	1.109	1.00
102_L	139_L	1.104	1.00
47_A	104_V	1.094	0.99
16_P	59_D	1.091	0.99
185_L	197_L	1.082	0.99
6_T	215_R	1.077	0.99
53_D	89_G	1.072	0.99
105_S	109_T	1.069	0.99
30_G	34_F	1.068	0.99
168_P	175_E	1.067	0.99
59_D	77_V	1.063	0.99
119_P	123_A	1.063	0.99
22_A	156_C	1.061	0.99
4_R	13_I	1.053	0.99
128_Q	132_Q	1.051	0.99
168_P	173_E	1.049	0.99
173_E	177_P	1.038	0.99
176_V	181_D	1.000	0.99
44_V	149_N	0.997	0.99
25_L	156_C	0.997	0.99
21_L	209_V	0.989	0.99
39_P	44_V	0.989	0.99
94_A	131_R	0.980	0.99
171_G	175_E	0.973	0.99
85_L	89_G	0.971	0.99
75_L	165_L	0.967	0.99
130_A	133_A	0.955	0.99
108_G	112_Y	0.955	0.99
112_Y	125_L	0.951	0.99
106_M	147_E	0.950	0.99
58_W	63_T	0.936	0.98
202_F	207_L	0.936	0.98
53_D	56_A	0.925	0.98
46_L	96_Q	0.923	0.98
170_E	173_E	0.919	0.98
25_L	209_V	0.903	0.98
73_D	76_E	0.894	0.98
46_L	100_A	0.892	0.98
180_P	183_A	0.891	0.98
90_I	128_Q	0.890	0.98
110_G	116_Y	0.883	0.98
126_A	129_E	0.876	0.97
15_Q	18_H	0.873	0.97
177_P	181_D	0.868	0.97
130_A	134_R	0.867	0.97
176_V	180_P	0.867	0.97
14_T	59_D	0.862	0.97
178_L	182_G	0.858	0.97
3_V	10_W	0.851	0.97
175_E	179_G	0.851	0.97
26_A	48_A	0.851	0.97
11_L	213_A	0.843	0.97
175_E	178_L	0.843	0.97
89_G	93_L	0.843	0.97
128_Q	135_L	0.838	0.97
178_L	183_A	0.836	0.97
82_H	85_L	0.835	0.97
5_E	10_W	0.833	0.97
168_P	172_R	0.832	0.97
178_L	181_D	0.831	0.97
38_E	41_R	0.829	0.96
188_R	191_G	0.828	0.96
150_Y	154_Q	0.814	0.96
84_A	88_R	0.812	0.96
55_W	77_V	0.809	0.96
82_H	89_G	0.805	0.96
81_E	84_A	0.803	0.96
89_G	108_G	0.800	0.96
45_L	48_A	0.799	0.96
102_L	106_M	0.796	0.96
30_G	39_P	0.793	0.95
77_V	81_E	0.793	0.95
64_L	69_G	0.792	0.95
74_F	161_L	0.789	0.95
43_S	100_A	0.787	0.95
16_P	56_A	0.781	0.95
19_A	23_G	0.780	0.95
46_L	97_D	0.779	0.95
124_F	128_Q	0.773	0.95
120_E	123_A	0.770	0.95
43_S	46_L	0.770	0.95
21_L	164_C	0.762	0.94
80_E	117_D	0.761	0.94
11_L	215_R	0.761	0.94
72_Y	76_E	0.759	0.94
15_Q	19_A	0.754	0.94
106_M	132_Q	0.750	0.94
168_P	177_P	0.747	0.94
133_A	143_E	0.745	0.94
171_G	176_V	0.745	0.94
23_G	26_A	0.745	0.94
25_L	159_L	0.744	0.94
119_P	122_D	0.741	0.94
110_G	147_E	0.740	0.94
46_L	92_R	0.740	0.94
55_W	59_D	0.735	0.93
174_L	177_P	0.734	0.93
190_L	194_R	0.733	0.93
30_G	37_P	0.731	0.93
159_L	187_L	0.731	0.93
27_R	42_E	0.730	0.93
22_A	48_A	0.728	0.93
23_G	27_R	0.727	0.93
29_W	155_F	0.726	0.93
77_V	85_L	0.726	0.93
175_E	182_G	0.723	0.93
18_H	51_H	0.719	0.93
147_E	151_R	0.718	0.92
55_W	85_L	0.713	0.92
48_A	150_Y	0.709	0.92
55_W	89_G	0.708	0.92
187_L	197_L	0.707	0.92
154_Q	158_L	0.705	0.92
86_W	90_I	0.705	0.92
127_E	130_A	0.703	0.92
170_E	174_L	0.700	0.92
63_T	80_E	0.699	0.91
185_L	188_R	0.696	0.91
31_N	37_P	0.694	0.91
172_R	177_P	0.692	0.91
54_G	86_W	0.686	0.91
168_P	174_L	0.685	0.91
179_G	182_G	0.685	0.91
66_P	72_Y	0.683	0.90
123_A	133_A	0.683	0.90
16_P	20_R	0.682	0.90
47_A	103_L	0.682	0.90
77_V	86_W	0.682	0.90
155_F	185_L	0.679	0.90
94_A	135_L	0.677	0.90
86_W	97_D	0.676	0.90
5_E	70_R	0.674	0.90
140_G	145_E	0.669	0.90
91_D	127_E	0.669	0.90
54_G	85_L	0.664	0.89
14_T	214_R	0.664	0.89
155_F	159_L	0.661	0.89
115_R	150_Y	0.660	0.89
174_L	187_L	0.660	0.89
173_E	186_T	0.659	0.89
70_R	76_E	0.658	0.89
129_E	133_A	0.657	0.89
136_R	140_G	0.657	0.89
150_Y	158_L	0.656	0.89
55_W	62_P	0.652	0.88
123_A	126_A	0.649	0.88
82_H	86_W	0.649	0.88
19_A	164_C	0.648	0.88
116_Y	150_Y	0.647	0.88
152_L	202_F	0.646	0.88
167_E	171_G	0.643	0.88
109_T	125_L	0.642	0.88
42_E	45_L	0.638	0.87
58_W	85_L	0.636	0.87
98_P	135_L	0.634	0.87
37_P	152_L	0.634	0.87
175_E	180_P	0.630	0.87
16_P	19_A	0.628	0.86
90_I	124_F	0.625	0.86
103_L	153_L	0.624	0.86
28_A	204_G	0.624	0.86
19_A	53_D	0.623	0.86
129_E	132_Q	0.620	0.86
185_L	189_P	0.620	0.86
88_R	92_R	0.620	0.86
31_N	203_A	0.618	0.86
184_R	187_L	0.615	0.85
83_L	112_Y	0.615	0.85
90_I	108_G	0.613	0.85
88_R	91_D	0.613	0.85
80_E	84_A	0.612	0.85
25_L	163_F	0.609	0.85
99_Y	103_L	0.609	0.85
172_R	178_L	0.607	0.85
50_E	92_R	0.599	0.84
132_Q	136_R	0.596	0.83
186_T	194_R	0.596	0.83
99_Y	152_L	0.595	0.83
205_D	208_E	0.595	0.83
12_L	16_P	0.592	0.83
162_Y	165_L	0.592	0.83
123_A	134_R	0.587	0.83
200_W	207_L	0.587	0.83
169_G	172_R	0.586	0.82
109_T	129_E	0.578	0.82
32_D	38_E	0.577	0.81
19_A	160_S	0.575	0.81
117_D	122_D	0.574	0.81
195_V	207_L	0.573	0.81
75_L	111_L	0.572	0.81
50_E	93_L	0.571	0.81
74_F	160_S	0.570	0.81
163_F	209_V	0.561	0.80
63_T	77_V	0.561	0.80
57_E	123_A	0.560	0.80
17_D	211_V	0.557	0.79
173_E	182_G	0.554	0.79
170_E	181_D	0.551	0.78
73_D	108_G	0.550	0.78
162_Y	187_L	0.549	0.78
102_L	146_L	0.548	0.78
45_L	49_A	0.544	0.78
144_E	148_R	0.543	0.77
134_R	137_A	0.541	0.77
22_A	164_C	0.541	0.77
58_W	84_A	0.540	0.77
3_V	141_A	0.537	0.77
198_D	203_A	0.536	0.77
103_L	149_N	0.534	0.76
59_D	165_L	0.534	0.76
196_T	205_D	0.534	0.76
55_W	86_W	0.533	0.76
90_I	105_S	0.531	0.76
31_N	36_R	0.531	0.76
176_V	182_G	0.531	0.76
112_Y	165_L	0.530	0.76
79_L	83_L	0.528	0.75
30_G	35_A	0.526	0.75
89_G	104_V	0.525	0.75
73_D	116_Y	0.524	0.75
74_F	165_L	0.523	0.75
13_I	62_P	0.517	0.74
38_E	145_E	0.515	0.74
64_L	216_L	0.514	0.74
32_D	35_A	0.513	0.73
8_D	217_P	0.512	0.73
177_P	182_G	0.510	0.73
22_A	155_F	0.510	0.73
209_V	216_L	0.508	0.73
144_E	147_E	0.506	0.72
170_E	175_E	0.503	0.72
52_D	161_L	0.502	0.72
53_D	57_E	0.502	0.72
133_A	136_R	0.500	0.72

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
3ljxA	1	0.422	21	0.951	Contact Map
2dvzA	1	0.6376	18.2	0.952	Contact Map
3m1tA	1	0.5138	17.8	0.953	Contact Map
4r8zA	2	0.6101	15.8	0.954	Contact Map
3tm8A	1	0.4679	15.1	0.954	Contact Map
2qpqA	1	0.6376	13	0.956	Contact Map
2f5xA	1	0.6468	9.2	0.958	Contact Map
3i7aA	1	0.5	9.1	0.959	Contact Map
3memA	1	0.5138	8.5	0.959	Contact Map
3hc1A	1	0.5642	7.5	0.96	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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