PIG-H - PFAM28P - GREMLIN Contacts

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PIG-H - GPI-GlcNAc transferase complex, PIG-H component

PFAM:	PF10181	Sequences: SLLVIRGLGVQLSTSLLRGSPYYSGRESTRFIPTSKIQDIVINEAFTGFEVRYYLAILVEGEEESSLVVVFP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	72 (65)
Sequences:	505 (375)
Seq/√Len:	46.5
META:	0.366

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
45_A	54_Y	4.818	1.00
57_I	70_V	2.546	1.00
13_S	29_T	2.352	1.00
43_N	54_Y	2.336	1.00
15_S	27_E	2.237	1.00
38_Q	60_E	2.198	1.00
9_G	31_F	2.000	0.99
46_F	51_V	1.885	0.99
37_I	57_I	1.866	0.99
32_I	57_I	1.766	0.98
21_P	25_G	1.712	0.98
32_I	68_V	1.686	0.98
10_V	57_I	1.595	0.97
2_L	70_V	1.386	0.93
11_Q	14_T	1.381	0.93
41_V	58_L	1.380	0.93
45_A	56_A	1.332	0.92
41_V	60_E	1.331	0.92
34_T	37_I	1.272	0.90
46_F	49_F	1.245	0.89
43_N	53_Y	1.218	0.88
7_G	55_L	1.175	0.86
2_L	12_L	1.166	0.86
2_L	51_V	1.158	0.85
30_R	68_V	1.152	0.85
43_N	56_A	1.144	0.85
39_D	70_V	1.142	0.84
39_D	49_F	1.131	0.84
33_P	36_K	1.096	0.82
37_I	40_I	1.083	0.81
5_I	25_G	1.074	0.81
5_I	33_P	1.066	0.80
67_L	71_F	1.060	0.80
13_S	27_E	1.053	0.79
42_I	53_Y	1.045	0.79
56_A	67_L	1.023	0.77
41_V	56_A	0.966	0.73
42_I	58_L	0.956	0.72
6_R	61_G	0.949	0.72
30_R	62_E	0.918	0.69
36_K	60_E	0.901	0.68
7_G	59_V	0.890	0.67
52_R	55_L	0.886	0.66
22_Y	26_R	0.847	0.63
21_P	28_S	0.824	0.61
6_R	29_T	0.808	0.59
64_E	67_L	0.801	0.59
58_L	62_E	0.798	0.58
27_E	57_I	0.792	0.58
12_L	49_F	0.776	0.56
7_G	28_S	0.771	0.56
2_L	68_V	0.764	0.55
35_S	60_E	0.757	0.54
3_L	23_Y	0.753	0.54
14_T	22_Y	0.740	0.53
59_V	68_V	0.736	0.52
59_V	62_E	0.735	0.52
69_V	72_P	0.734	0.52
13_S	40_I	0.730	0.52
34_T	59_V	0.724	0.51
46_F	52_R	0.694	0.48
46_F	70_V	0.693	0.48
27_E	33_P	0.690	0.48
7_G	34_T	0.681	0.47
10_V	46_F	0.679	0.47
30_R	57_I	0.673	0.46
48_G	52_R	0.647	0.43
55_L	62_E	0.646	0.43
37_I	68_V	0.643	0.43
8_L	11_Q	0.637	0.42
39_D	54_Y	0.627	0.42
38_Q	53_Y	0.620	0.41
34_T	45_A	0.607	0.40
1_S	45_A	0.606	0.40
26_R	59_V	0.595	0.38
49_F	58_L	0.590	0.38
32_I	45_A	0.579	0.37
11_Q	32_I	0.579	0.37
29_T	55_L	0.574	0.37
14_T	28_S	0.572	0.36
5_I	35_S	0.570	0.36
22_Y	29_T	0.567	0.36
24_S	35_S	0.563	0.36
2_L	63_E	0.562	0.35
30_R	72_P	0.561	0.35
5_I	47_T	0.556	0.35
36_K	61_G	0.551	0.34
40_I	54_Y	0.550	0.34
1_S	30_R	0.537	0.33
40_I	55_L	0.537	0.33
64_E	72_P	0.532	0.33
14_T	30_R	0.528	0.32
41_V	68_V	0.523	0.32
49_F	69_V	0.521	0.32
8_L	14_T	0.520	0.32
12_L	22_Y	0.517	0.31
34_T	50_E	0.515	0.31
12_L	32_I	0.500	0.30

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
1j0gA	1	0.5278	5.8	0.883	Contact Map
4djgA	2	0.25	4.2	0.891	Contact Map
5a21H	1	0.3333	4.1	0.891	Contact Map
3j7yf	1	0.1111	2.7	0.901	Contact Map
2xlkA	1	0.6528	2.4	0.904	Contact Map
1wkyA	1	0.4444	1.9	0.909	Contact Map
2i1jA	3	0.7917	1.8	0.91	Contact Map
3vu9B	1	0.7639	1.5	0.913	Contact Map
4jk8A	1	0.6111	1.5	0.914	Contact Map
1azoA	1	0.8333	1.5	0.914	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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