DUF3277 - PFAM28P - GREMLIN Contacts

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DUF3277 - Protein of unknown function (DUF3277)

PFAM:	PF11681	Sequences: MSTYSFLDVSATISGPGGGIDLGTGAGDGDEGITIERAEDKNTMTVGADGEVMRSLSADKSGTITITLLQTSPSNALLSALYNAQRASSAGWGVNPITIKDLSGGDLITATGAAFQKPPDVTYGKEGGTREWVFDAADIDSFLG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	144 (135)
Sequences:	1326 (1148)
Seq/√Len:	98.8
META:	0.864

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
36_E	120_D	4.895	1.00
39_E	59_D	3.404	1.00
52_V	137_A	3.025	1.00
101_D	104_G	2.557	1.00
40_D	116_Q	2.488	1.00
44_M	135_D	2.405	1.00
53_M	127_G	2.329	1.00
63_T	116_Q	2.206	1.00
62_G	139_I	2.204	1.00
75_N	132_W	2.201	1.00
67_T	131_E	2.168	1.00
65_T	133_V	2.049	1.00
65_T	131_E	2.040	1.00
38_A	61_S	2.033	1.00
55_S	127_G	1.905	1.00
40_D	117_K	1.894	1.00
113_A	136_A	1.850	1.00
46_V	52_V	1.790	1.00
64_I	136_A	1.699	1.00
124_G	128_G	1.699	1.00
41_K	82_Y	1.697	1.00
60_K	86_R	1.666	1.00
110_A	136_A	1.615	1.00
86_R	92_W	1.582	1.00
44_M	61_S	1.548	1.00
53_M	71_T	1.498	1.00
39_E	125_K	1.491	1.00
46_V	61_S	1.484	1.00
53_M	69_L	1.478	1.00
54_R	85_Q	1.470	1.00
43_T	57_S	1.452	1.00
122_T	128_G	1.411	1.00
44_M	52_V	1.391	0.99
42_N	135_D	1.386	0.99
42_N	54_R	1.377	0.99
36_E	65_T	1.361	0.99
54_R	114_A	1.349	0.99
117_K	120_D	1.340	0.99
112_G	137_A	1.331	0.99
37_R	41_K	1.318	0.99
34_T	120_D	1.316	0.99
76_A	105_G	1.303	0.99
123_Y	130_R	1.299	0.99
116_Q	135_D	1.285	0.99
108_I	123_Y	1.269	0.99
81_L	115_F	1.264	0.99
64_I	97_I	1.258	0.99
43_T	126_E	1.244	0.99
41_K	118_P	1.225	0.99
38_A	44_M	1.211	0.99
45_T	69_L	1.181	0.98
52_V	61_S	1.172	0.98
36_E	63_T	1.158	0.98
67_T	129_T	1.157	0.98
34_T	67_T	1.152	0.98
64_I	110_A	1.136	0.98
39_E	57_S	1.130	0.98
108_I	141_S	1.118	0.98
34_T	122_T	1.117	0.98
30_D	125_K	1.055	0.97
63_T	133_V	1.047	0.96
76_A	80_A	1.044	0.96
66_I	134_F	1.037	0.96
46_V	59_D	1.026	0.96
68_L	74_S	1.024	0.96
57_S	125_K	1.021	0.96
42_N	56_L	1.015	0.96
79_S	83_N	1.014	0.96
44_M	114_A	0.989	0.95
23_G	26_A	0.988	0.95
136_A	139_I	0.986	0.95
38_A	63_T	0.977	0.95
74_S	77_L	0.957	0.94
38_A	135_D	0.956	0.94
97_I	134_F	0.944	0.94
9_V	99_I	0.937	0.93
98_T	109_T	0.933	0.93
41_K	86_R	0.931	0.93
37_R	86_R	0.929	0.93
76_A	106_D	0.926	0.93
37_R	62_G	0.921	0.93
116_Q	133_V	0.920	0.93
108_I	121_V	0.915	0.93
82_Y	86_R	0.903	0.92
37_R	60_K	0.898	0.92
35_I	99_I	0.893	0.92
85_Q	93_G	0.874	0.91
104_G	107_L	0.859	0.90
45_T	126_E	0.851	0.90
97_I	113_A	0.849	0.89
77_L	81_L	0.846	0.89
42_N	114_A	0.844	0.89
97_I	136_A	0.844	0.89
30_D	122_T	0.838	0.89
81_L	95_N	0.837	0.89
63_T	135_D	0.835	0.89
95_N	115_F	0.820	0.88
118_P	141_S	0.819	0.88
82_Y	118_P	0.819	0.88
60_K	140_D	0.818	0.88
11_A	99_I	0.817	0.88
30_D	67_T	0.801	0.87
79_S	118_P	0.793	0.86
37_R	118_P	0.789	0.86
38_A	59_D	0.786	0.85
30_D	124_G	0.784	0.85
117_K	133_V	0.779	0.85
121_V	130_R	0.777	0.85
110_A	139_I	0.773	0.85
21_D	24_T	0.772	0.84
45_T	127_G	0.772	0.84
114_A	135_D	0.766	0.84
84_A	91_G	0.766	0.84
84_A	87_A	0.760	0.84
70_Q	128_G	0.759	0.83
68_L	72_S	0.743	0.82
69_L	127_G	0.742	0.82
99_I	108_I	0.742	0.82
26_A	68_L	0.741	0.82
34_T	65_T	0.739	0.82
47_G	69_L	0.737	0.82
35_I	108_I	0.734	0.81
85_Q	88_S	0.729	0.81
32_G	67_T	0.722	0.80
17_G	24_T	0.721	0.80
35_I	123_Y	0.716	0.80
60_K	138_D	0.715	0.80
40_D	43_T	0.714	0.80
55_S	128_G	0.698	0.78
25_G	28_D	0.697	0.78
51_E	138_D	0.697	0.78
75_N	79_S	0.697	0.78
7_L	24_T	0.691	0.77
45_T	129_T	0.690	0.77
8_D	101_D	0.689	0.77
13_I	21_D	0.688	0.77
115_F	134_F	0.687	0.77
48_A	69_L	0.677	0.76
38_A	62_G	0.671	0.75
35_I	64_I	0.668	0.75
48_A	58_A	0.654	0.73
78_L	132_W	0.653	0.73
51_E	69_L	0.650	0.73
55_S	126_E	0.648	0.73
62_G	110_A	0.647	0.73
100_K	107_L	0.645	0.72
47_G	51_E	0.643	0.72
63_T	120_D	0.643	0.72
62_G	108_I	0.642	0.72
36_E	131_E	0.638	0.71
13_I	17_G	0.637	0.71
45_T	53_M	0.637	0.71
70_Q	130_R	0.633	0.71
37_R	117_K	0.633	0.71
26_A	29_G	0.629	0.70
102_L	105_G	0.622	0.70
61_S	135_D	0.608	0.68
44_M	54_R	0.602	0.67
48_A	127_G	0.600	0.67
122_T	126_E	0.588	0.65
17_G	85_Q	0.586	0.65
77_L	80_A	0.586	0.65
31_E	67_T	0.585	0.65
5_S	8_D	0.583	0.65
42_N	92_W	0.582	0.64
11_A	64_I	0.578	0.64
84_A	96_P	0.576	0.64
82_Y	117_K	0.572	0.63
49_D	69_L	0.570	0.63
95_N	113_A	0.568	0.63
99_I	123_Y	0.567	0.62
88_S	91_G	0.567	0.62
83_N	86_R	0.564	0.62
64_I	113_A	0.561	0.62
13_I	97_I	0.561	0.62
62_G	136_A	0.558	0.61
37_R	82_Y	0.555	0.61
14_S	17_G	0.555	0.61
78_L	119_P	0.551	0.60
52_V	136_A	0.550	0.60
10_S	24_T	0.549	0.60
21_D	26_A	0.548	0.60
54_R	93_G	0.543	0.59
42_N	85_Q	0.543	0.59
98_T	107_L	0.541	0.59
27_G	30_D	0.538	0.58
14_S	80_A	0.535	0.58
40_D	133_V	0.535	0.58
98_T	102_L	0.530	0.57
82_Y	115_F	0.526	0.57
90_A	107_L	0.520	0.56
99_I	107_L	0.517	0.56
67_T	122_T	0.516	0.55
17_G	91_G	0.516	0.55
120_D	130_R	0.515	0.55
45_T	55_S	0.515	0.55
61_S	78_L	0.513	0.55
48_A	125_K	0.506	0.54
33_I	108_I	0.502	0.53
36_E	116_Q	0.502	0.53
71_T	127_G	0.501	0.53
38_A	139_I	0.500	0.53

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
2gujA	1	0.875	19.2	0.925	Contact Map
4ljsA	1	0.4167	5.1	0.942	Contact Map
4o66A	2	0.3958	4.6	0.943	Contact Map
4mypA	2	0.5347	4.2	0.944	Contact Map
2o6pA	2	0.5694	3.1	0.948	Contact Map
4ur6A	2	0.2847	3.1	0.948	Contact Map
4kdwA	1	0.6042	3.1	0.948	Contact Map
2wcoA	1	0.4306	2.9	0.949	Contact Map
2ltlA	1	0.3958	2.5	0.95	Contact Map
3qzmA	1	0.6042	2.3	0.951	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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