DUF2937 - PFAM28P - GREMLIN Contacts

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DUF2937 - Protein of unknown function (DUF2937)

PFAM:	PF11157	Sequences: LRRYLDLALGLAGALAGSQVPEFAQQYRQRLGGALDELRRVLAGFDADAARFGLGDREALIARYLASADPFFRARGESMQATVARYERLSAALAALQGAGPFERLLVLLRHADPEIARATWADFEPAVPLTPEGLVYALAGFLLGWLLFELLLALLRRPFRR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	162 (157)
Sequences:	1692 (1365)
Seq/√Len:	109.0
META:	0.806

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
63_R	69_D	3.564	1.00
46_D	57_R	3.394	1.00
37_E	85_R	3.268	1.00
65_L	80_Q	2.965	1.00
64_Y	72_F	2.937	1.00
46_D	50_A	2.634	1.00
48_D	78_S	2.473	1.00
67_S	72_F	2.448	1.00
52_F	74_A	2.437	1.00
22_E	127_A	2.330	1.00
105_L	137_Y	2.291	1.00
42_L	83_V	2.276	1.00
35_L	86_Y	2.147	1.00
38_L	86_Y	2.113	1.00
56_D	59_A	2.100	1.00
37_E	40_R	2.059	1.00
36_D	119_A	2.048	1.00
35_L	93_L	1.885	1.00
125_E	131_T	1.823	1.00
39_R	90_S	1.814	1.00
30_R	120_T	1.764	1.00
34_A	37_E	1.758	1.00
51_R	74_A	1.736	1.00
22_E	25_Q	1.730	1.00
34_A	119_A	1.697	1.00
48_D	75_R	1.690	1.00
20_V	24_A	1.666	1.00
11_L	14_A	1.657	1.00
6_D	10_G	1.652	1.00
42_L	86_Y	1.624	1.00
86_Y	90_S	1.615	1.00
61_I	83_V	1.603	1.00
64_Y	75_R	1.595	1.00
93_L	97_Q	1.572	1.00
45_F	60_L	1.558	1.00
54_L	63_R	1.530	1.00
34_A	116_I	1.528	1.00
155_L	159_P	1.483	1.00
32_G	36_D	1.471	1.00
39_R	86_Y	1.456	1.00
25_Q	29_Q	1.451	1.00
97_Q	123_D	1.449	1.00
15_L	130_L	1.423	1.00
151_L	155_L	1.388	1.00
90_S	94_A	1.382	1.00
112_A	117_A	1.351	1.00
119_A	122_A	1.329	1.00
47_A	50_A	1.321	0.99
32_G	123_D	1.275	0.99
75_R	78_S	1.273	0.99
30_R	34_A	1.265	0.99
64_Y	76_G	1.222	0.99
34_A	85_R	1.218	0.99
93_L	123_D	1.216	0.99
32_G	93_L	1.201	0.99
72_F	76_G	1.199	0.99
10_G	14_A	1.199	0.99
23_F	121_W	1.195	0.99
100_G	103_E	1.159	0.99
37_E	41_V	1.136	0.98
104_R	133_E	1.133	0.98
87_E	91_A	1.124	0.98
116_I	120_T	1.118	0.98
3_R	6_D	1.113	0.98
35_L	90_S	1.109	0.98
24_A	28_R	1.107	0.98
58_E	62_A	1.103	0.98
58_E	80_Q	1.098	0.98
41_V	60_L	1.074	0.98
65_L	76_G	1.069	0.98
57_R	60_L	1.068	0.98
44_G	75_R	1.067	0.98
82_T	86_Y	1.067	0.98
134_G	138_A	1.063	0.98
29_Q	32_G	1.050	0.97
45_F	78_S	1.045	0.97
10_G	142_F	1.045	0.97
99_A	107_V	1.038	0.97
84_A	87_E	1.029	0.97
141_G	145_G	1.024	0.97
31_L	92_A	1.023	0.97
62_A	66_A	1.023	0.97
60_L	75_R	1.023	0.97
71_F	75_R	1.018	0.97
151_L	154_A	0.987	0.96
129_P	134_G	0.980	0.96
114_P	117_A	0.975	0.96
34_A	120_T	0.970	0.96
109_L	112_A	0.956	0.95
150_E	154_A	0.947	0.95
80_Q	84_A	0.946	0.95
23_F	117_A	0.945	0.95
92_A	95_A	0.932	0.95
29_Q	33_G	0.921	0.94
47_A	51_R	0.905	0.94
64_Y	71_F	0.903	0.94
94_A	98_G	0.889	0.93
26_Q	127_A	0.888	0.93
132_P	136_V	0.879	0.93
22_E	26_Q	0.875	0.93
14_A	138_A	0.864	0.92
33_G	36_D	0.859	0.92
117_A	121_W	0.852	0.92
30_R	36_D	0.849	0.92
64_Y	78_S	0.845	0.91
23_F	120_T	0.830	0.91
4_Y	7_L	0.827	0.91
44_G	48_D	0.827	0.91
135_L	139_L	0.826	0.90
45_F	75_R	0.822	0.90
48_D	71_F	0.821	0.90
44_G	82_T	0.820	0.90
7_L	10_G	0.818	0.90
79_M	82_T	0.813	0.90
14_A	142_F	0.812	0.90
92_A	107_V	0.809	0.90
94_A	97_Q	0.800	0.89
125_E	133_E	0.797	0.89
39_R	43_A	0.796	0.89
38_L	41_V	0.790	0.88
19_Q	129_P	0.789	0.88
40_R	76_G	0.787	0.88
146_W	149_F	0.783	0.88
36_D	39_R	0.777	0.88
44_G	81_A	0.774	0.87
64_Y	69_D	0.771	0.87
9_L	13_G	0.769	0.87
42_L	57_R	0.764	0.87
106_L	110_R	0.761	0.86
156_L	159_P	0.757	0.86
10_G	17_G	0.740	0.85
152_L	156_L	0.739	0.85
28_R	96_L	0.738	0.85
41_V	79_M	0.737	0.85
40_R	115_E	0.731	0.84
114_P	118_R	0.728	0.84
115_E	118_R	0.727	0.84
107_V	110_R	0.725	0.84
132_P	140_A	0.724	0.84
77_E	81_A	0.722	0.83
43_A	47_A	0.721	0.83
68_A	157_R	0.719	0.83
88_R	113_D	0.715	0.83
153_L	157_R	0.711	0.83
10_G	146_W	0.710	0.82
155_L	158_R	0.702	0.82
148_L	153_L	0.701	0.82
50_A	56_D	0.698	0.81
18_S	138_A	0.693	0.81
2_R	5_L	0.683	0.80
17_G	141_G	0.683	0.80
98_G	124_F	0.681	0.80
11_L	88_R	0.678	0.79
67_S	71_F	0.676	0.79
16_A	20_V	0.674	0.79
8_A	12_A	0.668	0.78
74_A	77_E	0.668	0.78
102_F	106_L	0.663	0.78
108_L	116_I	0.663	0.78
8_A	16_A	0.662	0.78
73_R	76_G	0.655	0.77
35_L	38_L	0.655	0.77
13_G	145_G	0.652	0.77
136_V	147_L	0.647	0.76
30_R	113_D	0.642	0.76
33_G	127_A	0.639	0.75
142_F	149_F	0.631	0.74
24_A	108_L	0.631	0.74
35_L	42_L	0.630	0.74
75_R	79_M	0.627	0.74
60_L	71_F	0.624	0.74
5_L	51_R	0.624	0.74
41_V	78_S	0.623	0.74
88_R	122_A	0.617	0.73
41_V	82_T	0.606	0.71
45_F	121_W	0.599	0.71
103_E	132_P	0.599	0.71
63_R	67_S	0.598	0.70
29_Q	36_D	0.597	0.70
37_E	119_A	0.596	0.70
17_G	137_Y	0.593	0.70
54_L	60_L	0.592	0.70
128_V	138_A	0.591	0.70
94_A	124_F	0.590	0.69
154_A	157_R	0.589	0.69
44_G	78_S	0.589	0.69
23_F	26_Q	0.586	0.69
44_G	47_A	0.585	0.69
22_E	45_F	0.581	0.68
54_L	59_A	0.580	0.68
60_L	78_S	0.580	0.68
18_S	22_E	0.580	0.68
90_S	93_L	0.577	0.68
81_A	115_E	0.575	0.67
77_E	140_A	0.573	0.67
77_E	84_A	0.566	0.66
8_A	128_V	0.565	0.66
6_D	149_F	0.565	0.66
91_A	95_A	0.563	0.66
18_S	134_G	0.560	0.65
33_G	126_P	0.560	0.65
90_S	97_Q	0.558	0.65
42_L	46_D	0.557	0.65
61_I	65_L	0.555	0.65
53_G	56_D	0.547	0.64
152_L	158_R	0.547	0.64
78_S	82_T	0.546	0.64
28_R	104_R	0.545	0.63
92_A	112_A	0.545	0.63
140_A	148_L	0.544	0.63
16_A	122_A	0.542	0.63
52_F	63_R	0.542	0.63
108_L	112_A	0.541	0.63
16_A	155_L	0.538	0.62
71_F	82_T	0.537	0.62
92_A	137_Y	0.537	0.62
105_L	120_T	0.534	0.62
96_L	108_L	0.531	0.61
130_L	134_G	0.530	0.61
101_P	104_R	0.527	0.61
151_L	158_R	0.525	0.61
45_F	79_M	0.523	0.60
77_E	80_Q	0.518	0.60
12_A	84_A	0.518	0.60
134_G	141_G	0.517	0.59
88_R	128_V	0.516	0.59
98_G	103_E	0.516	0.59
53_G	71_F	0.515	0.59
71_F	78_S	0.514	0.59
28_R	125_E	0.510	0.58
98_G	109_L	0.507	0.58
149_F	153_L	0.507	0.58
3_R	7_L	0.505	0.58
26_Q	126_P	0.505	0.58
52_F	72_F	0.504	0.57
22_E	30_R	0.500	0.57

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
2l2tA	2	0.2407	40.4	0.923	Contact Map
2m20A	2	0.1975	39	0.923	Contact Map
2l9uA	2	0.216	38.2	0.924	Contact Map
2ks1B	1	0.2469	28.5	0.929	Contact Map
2kluA	1	0.2222	26	0.93	Contact Map
2jwaA	2	0.2531	22.1	0.932	Contact Map
4wl1A	3	0.642	21	0.933	Contact Map
1iijA	1	0.216	18.6	0.934	Contact Map
4hw9A	3	0.1975	12.3	0.94	Contact Map
4abxA	2	0.5062	8.2	0.944	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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