Prp19 - PFAM28P - GREMLIN Contacts

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Prp19 - Prp19/Pso4-like

PFAM:	PF08606	Sequences: TATSIPGLLSTFQNEWDALMLETFTLRQQLETTRQELSHALYQHDAACRVIARLIKERDEAREALANL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	68 (66)
Sequences:	599 (371)
Seq/√Len:	45.7
META:	0.618

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
30_L	33_T	4.359	1.00
44_H	48_C	3.290	1.00
58_R	61_A	2.956	1.00
39_H	43_Q	2.515	1.00
22_E	27_R	2.436	1.00
2_A	11_T	2.333	1.00
10_S	14_N	1.962	0.99
8_L	11_T	1.957	0.99
51_I	54_L	1.945	0.99
43_Q	48_C	1.873	0.99
58_R	62_R	1.732	0.98
24_F	28_Q	1.533	0.96
64_A	67_N	1.477	0.95
23_T	26_L	1.423	0.94
63_E	67_N	1.410	0.94
59_D	63_E	1.343	0.92
25_T	28_Q	1.308	0.91
62_R	66_A	1.258	0.89
20_M	48_C	1.217	0.88
8_L	12_F	1.216	0.87
46_A	50_V	1.214	0.87
60_E	64_A	1.201	0.87
4_S	13_Q	1.141	0.84
13_Q	27_R	1.090	0.81
31_E	48_C	1.059	0.79
29_Q	56_K	1.029	0.77
31_E	55_I	1.026	0.77
8_L	52_A	0.999	0.75
19_L	25_T	0.991	0.74
36_E	64_A	0.980	0.73
31_E	35_Q	0.972	0.73
34_R	49_R	0.961	0.72
59_D	62_R	0.950	0.71
43_Q	51_I	0.945	0.71
31_E	45_D	0.943	0.71
3_T	66_A	0.940	0.70
4_S	45_D	0.935	0.70
49_R	52_A	0.918	0.68
17_D	21_L	0.907	0.68
25_T	29_Q	0.898	0.67
14_N	36_E	0.888	0.66
63_E	66_A	0.854	0.63
2_A	19_L	0.831	0.61
39_H	48_C	0.825	0.60
23_T	34_R	0.817	0.59
5_I	56_K	0.814	0.59
21_L	45_D	0.797	0.57
26_L	55_I	0.793	0.57
6_P	39_H	0.792	0.57
12_F	30_L	0.787	0.57
10_S	44_H	0.784	0.56
16_W	51_I	0.780	0.56
17_D	20_M	0.778	0.56
11_T	14_N	0.771	0.55
30_L	60_E	0.769	0.55
3_T	7_G	0.767	0.55
25_T	32_T	0.767	0.55
3_T	47_A	0.767	0.55
48_C	55_I	0.741	0.52
28_Q	35_Q	0.739	0.52
32_T	67_N	0.735	0.51
24_F	34_R	0.733	0.51
12_F	16_W	0.730	0.51
18_A	56_K	0.727	0.51
16_W	24_F	0.726	0.51
5_I	12_F	0.722	0.50
30_L	43_Q	0.716	0.50
20_M	27_R	0.708	0.49
5_I	29_Q	0.705	0.49
5_I	9_L	0.681	0.46
21_L	65_L	0.670	0.45
18_A	39_H	0.666	0.45
4_S	42_Y	0.644	0.43
14_N	28_Q	0.625	0.41
55_I	58_R	0.613	0.40
4_S	14_N	0.608	0.39
10_S	63_E	0.608	0.39
15_E	57_E	0.597	0.38
55_I	59_D	0.595	0.38
54_L	57_E	0.585	0.37
23_T	27_R	0.580	0.37
49_R	54_L	0.573	0.36
5_I	17_D	0.571	0.36
23_T	52_A	0.565	0.35
2_A	63_E	0.557	0.35
9_L	65_L	0.554	0.34
16_W	20_M	0.538	0.33
60_E	63_E	0.528	0.32
19_L	23_T	0.527	0.32
14_N	38_S	0.522	0.31
26_L	32_T	0.522	0.31
25_T	57_E	0.517	0.31
36_E	43_Q	0.515	0.31
33_T	40_A	0.511	0.31
38_S	47_A	0.509	0.30
45_D	49_R	0.505	0.30
46_A	53_R	0.505	0.30
42_Y	45_D	0.502	0.30
40_A	59_D	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
3hnwA	2	1	55.3	0.862	Contact Map
1ciiA	1	1	49.1	0.867	Contact Map
4q4gX	1	0	47	0.868	Contact Map
3vkgA	2	0.8971	40	0.874	Contact Map
4rh7A	1	0.8971	32.9	0.88	Contact Map
1i84S	2	0	30.8	0.881	Contact Map
4cgkA	3	0.6618	30.6	0.881	Contact Map
4l0rA	2	0.9412	26.8	0.885	Contact Map
2lf0A	1	0.7647	25.6	0.886	Contact Map
2lw1A	1	0.9706	25.1	0.886	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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