DUF1440 - PFAM28P - GREMLIN Contacts

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DUF1440 - Protein of unknown function (DUF1440)

PFAM:	PF07274	Sequences: LISAAVKWGAEVILPPRTPGRPATPPPAVLAEQLGISEDLTHATYTYSGQQLPWASLAVHFGFGAAFGAAYGALAEYFPKITLWQGAAFGLAVWAATHEGLLPALGLSPPPWEQPAREHASELAGHLVWGWTIEI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	135 (128)
Sequences:	806 (543)
Seq/√Len:	48.0
META:	0.68

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
91_L	123_L	4.696	1.00
75_A	82_T	4.694	1.00
87_A	127_L	3.420	1.00
98_H	122_E	3.170	1.00
33_Q	107_L	2.603	1.00
69_A	72_G	2.332	1.00
110_P	113_E	2.270	1.00
118_E	122_E	2.216	1.00
27_P	30_L	2.211	1.00
27_P	31_A	2.160	1.00
118_E	121_S	1.931	0.99
3_S	6_V	1.859	0.99
108_S	114_Q	1.829	0.99
97_T	100_G	1.829	0.99
75_A	81_I	1.805	0.99
4_A	8_W	1.752	0.99
9_G	105_L	1.743	0.99
99_E	119_H	1.700	0.98
5_A	8_W	1.649	0.98
29_V	32_E	1.606	0.97
27_P	60_H	1.602	0.97
98_H	114_Q	1.564	0.97
84_W	87_A	1.561	0.97
91_L	127_L	1.545	0.97
36_I	40_L	1.538	0.97
129_W	133_I	1.509	0.96
63_F	121_S	1.502	0.96
89_F	93_V	1.476	0.96
17_R	21_R	1.453	0.95
94_W	99_E	1.427	0.95
98_H	121_S	1.424	0.95
104_A	134_E	1.395	0.94
106_G	109_P	1.394	0.94
88_A	93_V	1.361	0.93
28_A	56_S	1.349	0.93
18_T	21_R	1.312	0.92
114_Q	118_E	1.286	0.91
93_V	129_W	1.264	0.91
8_W	12_V	1.247	0.90
114_Q	121_S	1.226	0.89
69_A	73_A	1.198	0.88
63_F	97_T	1.179	0.87
111_P	119_H	1.170	0.87
74_L	78_F	1.126	0.85
5_A	13_I	1.116	0.84
6_V	14_L	1.109	0.84
8_W	13_I	1.104	0.83
74_L	81_I	1.101	0.83
119_H	123_L	1.100	0.83
31_A	35_G	1.079	0.82
98_H	119_H	1.055	0.81
73_A	77_Y	1.048	0.80
32_E	36_I	1.045	0.80
68_G	133_I	1.043	0.80
121_S	125_G	1.024	0.79
52_L	57_L	1.022	0.78
114_Q	122_E	1.021	0.78
7_K	11_E	1.011	0.78
46_T	49_G	1.005	0.77
122_E	125_G	0.990	0.76
51_Q	113_E	0.988	0.76
3_S	54_W	0.977	0.75
114_Q	117_R	0.975	0.75
60_H	126_H	0.970	0.75
71_Y	76_E	0.970	0.75
30_L	33_Q	0.962	0.74
30_L	34_L	0.960	0.74
66_A	69_A	0.948	0.73
101_L	105_L	0.944	0.73
31_A	102_L	0.943	0.73
26_P	29_V	0.939	0.72
27_P	98_H	0.927	0.71
92_A	96_A	0.926	0.71
72_G	76_E	0.914	0.70
72_G	106_G	0.904	0.69
21_R	25_P	0.902	0.69
97_T	101_L	0.885	0.68
92_A	95_A	0.881	0.67
17_R	27_P	0.881	0.67
66_A	111_P	0.880	0.67
46_T	70_A	0.875	0.67
95_A	99_E	0.872	0.66
99_E	123_L	0.869	0.66
8_W	134_E	0.869	0.66
119_H	122_E	0.864	0.66
48_S	52_L	0.855	0.65
35_G	40_L	0.855	0.65
109_P	114_Q	0.851	0.65
76_E	82_T	0.845	0.64
49_G	96_A	0.843	0.64
60_H	63_F	0.841	0.64
12_V	22_P	0.837	0.63
124_A	128_V	0.836	0.63
8_W	56_S	0.828	0.62
91_L	115_P	0.820	0.62
30_L	107_L	0.815	0.61
83_L	88_A	0.799	0.60
28_A	32_E	0.796	0.59
29_V	56_S	0.789	0.59
31_A	59_V	0.784	0.58
77_Y	82_T	0.778	0.58
88_A	92_A	0.768	0.57
98_H	118_E	0.767	0.57
74_L	109_P	0.758	0.56
102_L	118_E	0.757	0.56
61_F	107_L	0.754	0.55
3_S	12_V	0.754	0.55
32_E	106_G	0.748	0.55
69_A	88_A	0.747	0.55
41_T	44_T	0.747	0.55
71_Y	134_E	0.745	0.54
119_H	129_W	0.744	0.54
4_A	61_F	0.742	0.54
53_P	57_L	0.737	0.54
95_A	100_G	0.735	0.53
83_L	93_V	0.735	0.53
114_Q	119_H	0.734	0.53
87_A	131_W	0.729	0.53
74_L	80_K	0.719	0.52
4_A	10_A	0.718	0.52
46_T	51_Q	0.714	0.51
59_V	98_H	0.711	0.51
47_Y	52_L	0.707	0.51
11_E	16_P	0.706	0.50
78_F	81_I	0.701	0.50
64_G	69_A	0.700	0.50
46_T	50_Q	0.699	0.50
115_P	127_L	0.693	0.49
72_G	89_F	0.688	0.49
68_G	80_K	0.681	0.48
59_V	97_T	0.680	0.48
116_A	120_A	0.678	0.48
73_A	79_P	0.678	0.48
102_L	108_S	0.677	0.48
64_G	68_G	0.675	0.47
76_E	79_P	0.669	0.47
25_P	28_A	0.669	0.47
85_Q	134_E	0.668	0.47
117_R	125_G	0.666	0.46
115_P	123_L	0.664	0.46
16_P	71_Y	0.657	0.46
79_P	91_L	0.656	0.45
3_S	94_W	0.655	0.45
62_G	112_W	0.649	0.45
58_A	67_F	0.648	0.45
101_L	107_L	0.643	0.44
66_A	100_G	0.641	0.44
67_F	93_V	0.639	0.44
28_A	49_G	0.634	0.43
84_W	109_P	0.633	0.43
45_Y	64_G	0.632	0.43
14_L	68_G	0.630	0.43
36_I	58_A	0.628	0.43
66_A	95_A	0.627	0.43
4_A	64_G	0.623	0.42
19_P	22_P	0.622	0.42
72_G	85_Q	0.622	0.42
26_P	122_E	0.621	0.42
3_S	132_T	0.620	0.42
87_A	91_L	0.620	0.42
30_L	114_Q	0.614	0.41
11_E	15_P	0.613	0.41
70_A	89_F	0.610	0.41
63_F	98_H	0.608	0.41
84_W	88_A	0.604	0.40
85_Q	100_G	0.604	0.40
14_L	78_F	0.602	0.40
16_P	20_G	0.600	0.40
29_V	107_L	0.588	0.39
76_E	92_A	0.587	0.39
5_A	14_L	0.587	0.39
67_F	85_Q	0.581	0.38
56_S	61_F	0.575	0.38
67_F	129_W	0.573	0.37
85_Q	88_A	0.566	0.37
48_S	66_A	0.560	0.36
26_P	118_E	0.548	0.35
73_A	76_E	0.547	0.35
61_F	119_H	0.536	0.34
73_A	92_A	0.535	0.34
93_V	97_T	0.531	0.34
94_W	123_L	0.518	0.32
108_S	121_S	0.517	0.32
22_P	25_P	0.517	0.32
39_D	105_L	0.515	0.32
102_L	128_V	0.515	0.32
25_P	129_W	0.512	0.32
85_Q	104_A	0.512	0.32
130_G	133_I	0.511	0.32
99_E	108_S	0.503	0.31
100_G	122_E	0.501	0.31
99_E	122_E	0.500	0.31

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
4aw6A	2	0.9778	6.5	0.937	Contact Map
4il3A	1	0.9926	4.9	0.941	Contact Map
3kv9A	2	0.3333	2.7	0.948	Contact Map
1iynA	1	0.1778	1.9	0.952	Contact Map
2ln3A	1	0.2296	1.6	0.954	Contact Map
3vw4A	1	0.3481	1.5	0.955	Contact Map
3kv4A	1	0.3556	1.5	0.955	Contact Map
4myvA	1	0	1.4	0.956	Contact Map
2kegA	1	0.237	1.4	0.956	Contact Map
2gj7F	1	0.1037	1.3	0.957	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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