DUF2587 - PFAM28P - GREMLIN Contacts

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DUF2587 - Protein of unknown function (DUF2587)

PFAM:	PF10759	Sequences: EAEEDDEEDEEESVTELVEQPAKVMRIGSMIKQLLEEVRAAPLDEASRARLREIHERSIKELEDGLSPELREELERLSLPFTEDETPSEAELRIAQAQLVGWLEGLFHGIQAALFAQQMAARAQLEQMRRALPPGGGPPGGPGQPGQPGQPGRGTGQYL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	159 (137)
Sequences:	2232 (677)
Seq/√Len:	57.8
META:	0.843

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
122_R	126_E	8.076	1.00
45_E	89_E	4.193	1.00
127_Q	130_R	3.055	1.00
55_H	63_E	2.621	1.00
116_A	122_R	2.620	1.00
36_E	39_R	2.488	1.00
43_L	92_L	2.483	1.00
125_L	128_M	2.181	1.00
63_E	71_R	2.057	1.00
17_L	67_S	1.979	1.00
71_R	75_E	1.957	1.00
63_E	75_E	1.866	1.00
121_A	124_Q	1.845	1.00
52_R	75_E	1.833	0.99
42_P	89_E	1.832	0.99
123_A	127_Q	1.702	0.99
17_L	69_E	1.657	0.99
56_E	60_K	1.637	0.99
112_A	130_R	1.600	0.99
60_K	63_E	1.582	0.98
31_I	108_H	1.576	0.98
123_A	130_R	1.569	0.98
49_A	86_T	1.536	0.98
47_S	96_Q	1.510	0.98
112_A	123_A	1.485	0.98
14_V	18_V	1.448	0.97
114_L	128_M	1.429	0.97
28_G	32_K	1.424	0.97
31_I	107_F	1.398	0.97
25_M	50_R	1.387	0.96
56_E	75_E	1.379	0.96
138_P	143_G	1.351	0.96
12_E	16_E	1.351	0.96
24_V	28_G	1.333	0.96
38_V	46_A	1.333	0.96
19_E	110_I	1.326	0.95
118_Q	124_Q	1.326	0.95
115_F	126_E	1.325	0.95
115_F	119_M	1.317	0.95
25_M	33_Q	1.312	0.95
27_I	58_S	1.283	0.95
39_R	47_S	1.278	0.94
22_A	28_G	1.273	0.94
140_G	143_G	1.269	0.94
93_R	107_F	1.251	0.94
74_L	100_V	1.203	0.92
71_R	77_L	1.200	0.92
9_D	12_E	1.178	0.92
136_G	139_P	1.161	0.91
62_L	66_L	1.154	0.91
19_E	76_R	1.153	0.91
29_S	89_E	1.150	0.91
23_K	61_E	1.148	0.91
115_F	125_L	1.144	0.90
52_R	56_E	1.140	0.90
29_S	32_K	1.125	0.90
32_K	39_R	1.118	0.89
34_L	116_A	1.117	0.89
28_G	65_G	1.112	0.89
138_P	141_G	1.101	0.89
57_R	71_R	1.096	0.88
19_E	119_M	1.077	0.88
52_R	78_S	1.069	0.87
49_A	52_R	1.059	0.87
13_S	16_E	1.051	0.86
47_S	77_L	1.035	0.85
57_R	79_L	1.029	0.85
34_L	78_S	1.028	0.85
42_P	46_A	1.016	0.84
28_G	81_F	1.009	0.84
138_P	142_P	1.006	0.84
75_E	82_T	1.005	0.84
49_A	65_G	1.001	0.83
137_G	140_G	0.995	0.83
125_L	129_R	0.985	0.82
57_R	60_K	0.972	0.82
41_A	96_Q	0.970	0.81
119_M	122_R	0.962	0.81
8_E	11_E	0.959	0.81
14_V	94_I	0.955	0.80
137_G	142_P	0.950	0.80
33_Q	113_A	0.947	0.80
55_H	67_S	0.922	0.78
59_I	63_E	0.921	0.78
68_P	71_R	0.911	0.77
68_P	114_L	0.904	0.77
24_V	47_S	0.900	0.76
32_K	57_R	0.898	0.76
22_A	34_L	0.897	0.76
71_R	76_R	0.893	0.76
14_V	17_L	0.891	0.76
38_V	108_H	0.883	0.75
32_K	104_E	0.875	0.74
7_E	10_E	0.870	0.74
28_G	33_Q	0.870	0.74
51_L	94_I	0.868	0.74
81_F	92_L	0.863	0.73
8_E	18_V	0.860	0.73
65_G	76_R	0.836	0.71
46_A	96_Q	0.830	0.70
50_R	91_E	0.830	0.70
52_R	84_D	0.815	0.69
115_F	130_R	0.803	0.68
121_A	128_M	0.803	0.68
32_K	115_F	0.801	0.67
8_E	13_S	0.798	0.67
20_Q	65_G	0.793	0.67
61_E	76_R	0.788	0.66
139_P	142_P	0.786	0.66
82_T	85_E	0.771	0.64
24_V	34_L	0.761	0.63
21_P	27_I	0.759	0.63
7_E	11_E	0.757	0.63
58_S	108_H	0.750	0.62
57_R	115_F	0.747	0.62
9_D	88_S	0.731	0.60
115_F	123_A	0.728	0.60
55_H	79_L	0.727	0.60
95_A	116_A	0.726	0.60
22_A	45_E	0.717	0.59
27_I	64_D	0.716	0.59
128_M	131_A	0.713	0.58
18_V	107_F	0.712	0.58
20_Q	108_H	0.711	0.58
119_M	133_P	0.710	0.58
10_E	13_S	0.708	0.58
28_G	116_A	0.708	0.58
108_H	116_A	0.706	0.58
55_H	69_E	0.705	0.58
93_R	108_H	0.689	0.56
49_A	123_A	0.688	0.56
53_E	56_E	0.688	0.56
79_L	108_H	0.687	0.56
82_T	94_I	0.683	0.55
74_L	129_R	0.682	0.55
86_T	89_E	0.682	0.55
47_S	57_R	0.678	0.55
27_I	32_K	0.677	0.55
15_T	72_E	0.673	0.54
65_G	71_R	0.673	0.54
62_L	96_Q	0.667	0.53
31_I	77_L	0.662	0.53
50_R	80_P	0.655	0.52
47_S	68_P	0.645	0.51
17_L	20_Q	0.635	0.50
14_V	67_S	0.634	0.50
12_E	64_D	0.631	0.49
53_E	60_K	0.627	0.49
137_G	143_G	0.626	0.49
27_I	107_F	0.622	0.48
120_A	123_A	0.622	0.48
11_E	88_S	0.617	0.48
64_D	115_F	0.616	0.48
139_P	143_G	0.616	0.48
136_G	143_G	0.616	0.48
115_F	118_Q	0.613	0.47
50_R	94_I	0.608	0.47
52_R	57_R	0.607	0.47
29_S	113_A	0.607	0.47
78_S	90_A	0.602	0.46
24_V	76_R	0.597	0.46
96_Q	113_A	0.591	0.45
42_P	92_L	0.590	0.45
16_E	68_P	0.588	0.45
137_G	141_G	0.588	0.45
56_E	67_S	0.586	0.45
81_F	87_P	0.583	0.44
132_L	135_G	0.583	0.44
57_R	63_E	0.582	0.44
127_Q	137_G	0.581	0.44
46_A	86_T	0.580	0.44
136_G	141_G	0.579	0.44
31_I	116_A	0.578	0.44
9_D	13_S	0.578	0.44
12_E	15_T	0.576	0.43
46_A	82_T	0.574	0.43
18_V	24_V	0.573	0.43
60_K	76_R	0.573	0.43
31_I	78_S	0.570	0.43
56_E	83_E	0.563	0.42
106_L	110_I	0.556	0.41
60_K	82_T	0.554	0.41
57_R	125_L	0.554	0.41
47_S	78_S	0.553	0.41
16_E	20_Q	0.541	0.40
30_M	100_V	0.540	0.40
60_K	72_E	0.535	0.39
13_S	134_P	0.531	0.39
53_E	106_L	0.529	0.38
72_E	75_E	0.526	0.38
93_R	110_I	0.523	0.38
55_H	76_R	0.520	0.38
45_E	86_T	0.519	0.37
49_A	53_E	0.519	0.37
58_S	104_E	0.514	0.37
114_L	125_L	0.512	0.37
46_A	88_S	0.512	0.37
77_L	115_F	0.509	0.36
80_P	104_E	0.508	0.36
93_R	96_Q	0.507	0.36
65_G	123_A	0.505	0.36
121_A	125_L	0.504	0.36
20_Q	41_A	0.503	0.36
72_E	76_R	0.502	0.36
72_E	137_G	0.500	0.35
8_E	12_E	0.500	0.35

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
4zriC	1	0.1258	10.7	0.957	Contact Map
1zbpA	1	0.8176	4.3	0.964	Contact Map
4bjjB	1	0.434	3.5	0.966	Contact Map
4zrkE	1	0.1384	3.5	0.966	Contact Map
2qneA	2	0.3648	3.4	0.966	Contact Map
2a01A	1	0.6981	3.2	0.966	Contact Map
4yycA	2	0.3711	3	0.967	Contact Map
4bzjA	2	0	2.9	0.967	Contact Map
4xpmA	1	0.2453	2.7	0.967	Contact Map
4uqxA	1	0.8365	2.7	0.968	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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