DUF5058 - PFAM28P - GREMLIN Contacts

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DUF5058 - Domain of unknown function (DUF5058)

PFAM:	PF16481	Sequences: NSPFLWILAGIVILFVLAQSVFFLRKAWKRAKELGMDKEKLKKAIRSSAIFSIGPSIAILIGVIALSASLGGPLPWLRLSVIGSATYELMAATIAAEAMGVSLGGAGMTPQAFATIAWVMTLGIIGGLILVPLFTKKLQKGLKKLKKKDPKWGDILSTAAFLGMFSAFLGSYLAKGGTGLGGWIPLIALLVSALVMAILGLLAKKKKIKWLKEFALPISMLIGM	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	224 (223)
Sequences:	991 (771)
Seq/√Len:	51.6
META:	0.768

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
195_V	222_I	6.703	1.00
31_A	41_L	6.116	1.00
30_R	33_E	4.886	1.00
32_K	38_K	4.881	1.00
28_W	41_L	4.229	1.00
28_W	45_I	3.734	1.00
74_L	117_A	3.724	1.00
37_D	40_K	3.374	1.00
28_W	32_K	3.361	1.00
149_D	152_W	3.237	1.00
190_L	194_L	2.992	1.00
9_A	13_I	2.931	1.00
38_K	42_K	2.814	1.00
124_I	127_G	2.771	1.00
201_L	204_K	2.683	1.00
62_G	85_A	2.592	1.00
28_W	31_A	2.581	1.00
9_A	77_L	2.486	1.00
25_R	29_K	2.409	1.00
45_I	48_S	2.384	1.00
152_W	156_L	2.378	1.00
108_M	116_I	2.320	1.00
184_I	188_A	2.247	1.00
137_K	140_K	2.237	1.00
10_G	14_L	2.234	1.00
17_L	21_V	2.159	1.00
87_Y	123_G	2.110	1.00
66_L	75_P	2.100	1.00
92_A	103_L	1.998	1.00
169_L	189_L	1.868	0.99
99_M	112_A	1.837	0.99
41_L	45_I	1.794	0.99
56_S	59_I	1.699	0.99
199_L	218_I	1.683	0.99
69_S	89_L	1.676	0.98
203_A	211_L	1.657	0.98
11_I	14_L	1.644	0.98
93_T	97_E	1.638	0.98
70_L	75_P	1.620	0.98
30_R	34_L	1.567	0.98
95_A	116_I	1.548	0.97
194_L	198_I	1.548	0.97
32_K	41_L	1.469	0.96
76_W	79_L	1.459	0.96
4_F	8_L	1.427	0.96
97_E	129_I	1.424	0.96
198_I	211_L	1.408	0.95
21_V	25_R	1.370	0.95
65_A	89_L	1.356	0.94
220_M	224_M	1.342	0.94
131_V	135_T	1.339	0.94
187_I	202_L	1.330	0.94
191_V	195_V	1.321	0.94
75_P	80_S	1.313	0.93
13_I	75_P	1.292	0.93
18_A	22_F	1.281	0.93
76_W	80_S	1.256	0.92
163_G	196_M	1.254	0.92
44_A	48_S	1.247	0.92
96_A	134_F	1.216	0.90
6_W	72_G	1.197	0.90
138_L	141_G	1.197	0.90
138_L	142_L	1.192	0.90
3_P	7_I	1.191	0.90
220_M	223_G	1.180	0.89
74_L	120_M	1.178	0.89
196_M	215_A	1.174	0.89
61_I	221_L	1.162	0.88
43_K	46_R	1.160	0.88
7_I	11_I	1.147	0.88
134_F	137_K	1.142	0.87
10_G	202_L	1.141	0.87
101_V	105_G	1.137	0.87
36_M	41_L	1.116	0.86
25_R	33_E	1.112	0.86
31_A	34_L	1.112	0.86
202_L	208_I	1.105	0.86
74_L	95_A	1.078	0.84
202_L	206_K	1.076	0.84
109_T	112_A	1.072	0.84
91_A	119_V	1.064	0.83
141_G	144_K	1.048	0.83
205_K	211_L	1.045	0.82
218_I	222_I	1.042	0.82
130_L	134_F	1.030	0.81
96_A	108_M	1.026	0.81
219_S	223_G	1.020	0.81
51_F	212_K	1.007	0.80
31_A	60_L	1.007	0.80
85_A	89_L	1.006	0.80
48_S	51_F	1.004	0.80
188_A	192_S	0.989	0.79
206_K	211_L	0.984	0.78
45_I	49_A	0.977	0.78
54_G	214_F	0.975	0.78
144_K	147_K	0.974	0.78
24_L	45_I	0.973	0.78
201_L	205_K	0.958	0.76
21_V	28_W	0.956	0.76
209_K	218_I	0.951	0.76
187_I	191_V	0.947	0.76
122_L	145_L	0.939	0.75
6_W	73_P	0.926	0.74
109_T	115_T	0.924	0.74
22_F	25_R	0.923	0.74
74_L	121_T	0.921	0.74
66_L	95_A	0.916	0.73
128_L	131_V	0.909	0.73
195_V	223_G	0.909	0.73
17_L	111_Q	0.908	0.73
31_A	36_M	0.904	0.72
22_F	42_K	0.899	0.72
20_S	64_I	0.893	0.71
82_I	103_L	0.885	0.71
73_P	196_M	0.877	0.70
58_A	84_S	0.876	0.70
159_A	163_G	0.876	0.70
201_L	206_K	0.868	0.69
133_L	137_K	0.866	0.69
175_K	193_A	0.858	0.68
114_A	118_W	0.856	0.68
202_L	211_L	0.854	0.68
23_F	27_A	0.841	0.67
203_A	208_I	0.840	0.67
6_W	54_G	0.839	0.66
95_A	112_A	0.839	0.66
20_S	91_A	0.832	0.66
179_G	182_G	0.832	0.66
52_S	163_G	0.831	0.66
7_I	10_G	0.824	0.65
54_G	127_G	0.824	0.65
52_S	56_S	0.822	0.65
198_I	202_L	0.819	0.65
101_V	112_A	0.818	0.64
28_W	38_K	0.817	0.64
146_K	150_P	0.816	0.64
192_S	223_G	0.814	0.64
96_A	116_I	0.809	0.64
46_R	213_E	0.807	0.63
79_L	120_M	0.800	0.63
87_Y	91_A	0.799	0.63
195_V	219_S	0.793	0.62
54_G	58_A	0.790	0.62
51_F	163_G	0.790	0.62
90_M	93_T	0.778	0.61
42_K	46_R	0.770	0.60
149_D	214_F	0.763	0.59
183_W	187_I	0.750	0.58
82_I	131_V	0.749	0.58
96_A	101_V	0.748	0.58
200_G	221_L	0.746	0.57
187_I	223_G	0.744	0.57
93_T	123_G	0.740	0.57
2_S	9_A	0.739	0.57
53_I	111_Q	0.738	0.57
14_L	18_A	0.737	0.56
101_V	113_F	0.735	0.56
53_I	223_G	0.733	0.56
58_A	217_P	0.731	0.56
5_L	205_K	0.730	0.56
4_F	7_I	0.729	0.56
29_K	197_A	0.729	0.56
95_A	128_L	0.722	0.55
44_A	54_G	0.721	0.55
79_L	91_A	0.720	0.55
210_W	218_I	0.719	0.55
197_A	201_L	0.719	0.55
65_A	73_P	0.712	0.54
12_V	81_V	0.710	0.54
173_L	186_L	0.708	0.53
60_L	166_S	0.707	0.53
40_K	44_A	0.707	0.53
16_V	19_Q	0.704	0.53
200_G	215_A	0.704	0.53
38_K	41_L	0.703	0.53
204_K	207_K	0.703	0.53
51_F	164_M	0.702	0.53
181_G	194_L	0.700	0.53
33_E	37_D	0.699	0.52
48_S	52_S	0.699	0.52
84_S	89_L	0.697	0.52
136_K	140_K	0.696	0.52
182_G	185_P	0.694	0.52
24_L	27_A	0.693	0.52
74_L	119_V	0.692	0.52
56_S	187_I	0.690	0.52
17_L	57_I	0.689	0.51
13_I	70_L	0.689	0.51
62_G	87_Y	0.687	0.51
63_V	136_K	0.687	0.51
122_L	126_G	0.684	0.51
118_W	122_L	0.683	0.51
174_A	177_G	0.683	0.51
138_L	157_S	0.682	0.51
131_V	217_P	0.682	0.51
43_K	191_V	0.680	0.51
206_K	218_I	0.677	0.50
127_G	165_F	0.677	0.50
31_A	35_G	0.673	0.50
29_K	33_E	0.671	0.50
160_A	214_F	0.671	0.50
185_P	188_A	0.669	0.49
119_V	135_T	0.663	0.49
62_G	89_L	0.663	0.49
29_K	122_L	0.662	0.49
20_S	125_I	0.662	0.49
199_L	213_E	0.659	0.48
113_F	161_F	0.657	0.48
11_I	198_I	0.656	0.48
191_V	194_L	0.655	0.48
176_G	179_G	0.654	0.48
127_G	164_M	0.653	0.48
98_A	112_A	0.650	0.47
208_I	211_L	0.649	0.47
68_A	221_L	0.642	0.47
179_G	183_W	0.641	0.46
196_M	220_M	0.639	0.46
5_L	74_L	0.638	0.46
5_L	140_K	0.637	0.46
94_I	98_A	0.637	0.46
19_Q	118_W	0.635	0.46
28_W	36_M	0.634	0.46
39_E	43_K	0.631	0.45
32_K	42_K	0.631	0.45
209_K	212_K	0.629	0.45
70_L	84_S	0.628	0.45
58_A	216_L	0.628	0.45
193_A	196_M	0.626	0.45
90_M	168_F	0.623	0.45
42_K	202_L	0.623	0.45
66_L	193_A	0.622	0.44
82_I	115_T	0.620	0.44
72_G	75_P	0.620	0.44
56_S	121_T	0.616	0.44
67_S	116_I	0.612	0.43
130_L	190_L	0.606	0.43
62_G	124_I	0.605	0.43
102_S	140_K	0.604	0.43
5_L	211_L	0.603	0.43
51_F	161_F	0.601	0.42
142_L	146_K	0.601	0.42
188_A	223_G	0.600	0.42
84_S	90_M	0.600	0.42
132_P	167_A	0.596	0.42
77_L	121_T	0.594	0.42
29_K	39_E	0.590	0.41
172_Y	220_M	0.590	0.41
191_V	222_I	0.587	0.41
60_L	85_A	0.586	0.41
5_L	56_S	0.585	0.41
42_K	49_A	0.584	0.41
34_L	75_P	0.584	0.41
51_F	59_I	0.583	0.41
134_F	223_G	0.581	0.40
53_I	198_I	0.581	0.40
63_V	95_A	0.580	0.40
13_I	175_K	0.579	0.40
163_G	220_M	0.578	0.40
14_L	150_P	0.576	0.40
29_K	36_M	0.573	0.40
34_L	40_K	0.572	0.39
10_G	170_G	0.572	0.39
130_L	142_L	0.572	0.39
51_F	124_I	0.571	0.39
122_L	198_I	0.570	0.39
58_A	132_P	0.570	0.39
34_L	198_I	0.570	0.39
48_S	62_G	0.569	0.39
24_L	28_W	0.569	0.39
155_I	203_A	0.568	0.39
84_S	220_M	0.568	0.39
73_P	210_W	0.568	0.39
210_W	214_F	0.567	0.39
46_R	107_G	0.567	0.39
32_K	35_G	0.565	0.39
63_V	79_L	0.565	0.39
199_L	211_L	0.564	0.39
213_E	221_L	0.564	0.39
70_L	74_L	0.563	0.39
67_S	82_I	0.561	0.38
91_A	95_A	0.560	0.38
99_M	111_Q	0.560	0.38
57_I	85_A	0.558	0.38
29_K	202_L	0.557	0.38
7_I	144_K	0.555	0.38
116_I	120_M	0.555	0.38
122_L	207_K	0.553	0.38
153_G	165_F	0.553	0.38
40_K	80_S	0.552	0.37
111_Q	114_A	0.552	0.37
67_S	165_F	0.546	0.37
70_L	121_T	0.546	0.37
102_S	105_G	0.545	0.37
203_A	212_K	0.545	0.37
99_M	159_A	0.541	0.36
26_K	29_K	0.541	0.36
160_A	164_M	0.538	0.36
95_A	115_T	0.538	0.36
46_R	194_L	0.538	0.36
129_I	209_K	0.536	0.36
13_I	77_L	0.533	0.36
147_K	150_P	0.533	0.36
10_G	132_P	0.532	0.36
117_A	121_T	0.530	0.35
99_M	147_K	0.528	0.35
66_L	89_L	0.528	0.35
34_L	37_D	0.527	0.35
90_M	154_D	0.526	0.35
210_W	219_S	0.525	0.35
111_Q	115_T	0.519	0.34
62_G	108_M	0.516	0.34
1_N	73_P	0.515	0.34
91_A	120_M	0.515	0.34
18_A	143_K	0.514	0.34
199_L	203_A	0.513	0.34
56_S	85_A	0.511	0.34
124_I	160_A	0.511	0.34
115_T	118_W	0.511	0.34
36_M	39_E	0.510	0.33
180_L	183_W	0.510	0.33
92_A	156_L	0.508	0.33
27_A	52_S	0.505	0.33
152_W	164_M	0.505	0.33
106_A	109_T	0.505	0.33
99_M	115_T	0.505	0.33
25_R	37_D	0.504	0.33
101_V	104_G	0.504	0.33
93_T	165_F	0.503	0.33
133_L	162_L	0.502	0.33
195_V	199_L	0.502	0.33
23_F	31_A	0.502	0.33
162_L	166_S	0.500	0.33
47_S	87_Y	0.500	0.33
111_Q	197_A	0.500	0.33

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
2lorA	1	0.3214	26.4	0.955	Contact Map
3wdoA	1	0.3705	13.8	0.96	Contact Map
2nq2A	2	0.7857	12.4	0.961	Contact Map
4tphA	2	0.3482	11.3	0.962	Contact Map
4xnjA	1	0.3661	11	0.962	Contact Map
3ne5A	3	0.4777	9	0.963	Contact Map
1jb0I	1	0.1696	6.9	0.965	Contact Map
4pypA	1	0.3348	6.5	0.966	Contact Map
2cfqA	1	0.3571	5.5	0.967	Contact Map
2cwqA	4	0.2946	4	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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