PAP_fibrillin - PFAM28P - GREMLIN Contacts

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PAP_fibrillin - PAP_fibrillin

PFAM:	PF04755	Sequences: QELKAELLEAIAGTNRGLLATPEDRAEIEELIAQLEALNPTPRPTEALDLLDGRWRLLYTTSSELLSLLQRGRLPLLKLGQIYQVIDVETGRVYNIVELSGLPLLEGSVSVTAKFEPVSPRRVQVKFERGILGLPRLLKGLLTPLQDTLSQVPRGIKKFLPLDFPIPGRSAQGWLDITYLDEDLRIGRGNKGSLFVLK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	198 (194)
Sequences:	1291 (912)
Seq/√Len:	65.5
META:	0.437

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	188_R	5.141	1.00
36_E	178_T	4.333	1.00
50_L	182_E	4.078	1.00
32_I	194_L	3.762	1.00
114_K	128_E	3.118	1.00
32_I	186_I	2.991	1.00
32_I	196_V	2.863	1.00
39_N	44_P	2.809	1.00
41_T	44_P	2.402	1.00
145_L	149_L	2.259	1.00
16_R	80_G	2.247	1.00
54_R	85_V	2.246	1.00
122_R	176_D	2.237	1.00
141_L	144_P	2.167	1.00
51_L	180_L	2.156	1.00
87_D	90_T	2.099	1.00
138_L	141_L	2.071	1.00
52_D	88_V	1.995	1.00
122_R	174_W	1.990	1.00
142_L	145_L	1.958	1.00
141_L	145_L	1.957	1.00
173_G	191_K	1.909	1.00
145_L	151_Q	1.884	1.00
148_T	151_Q	1.871	1.00
27_E	31_L	1.866	1.00
138_L	142_L	1.859	1.00
177_I	187_G	1.805	1.00
175_L	187_G	1.779	1.00
43_R	46_E	1.769	1.00
56_R	81_Q	1.728	1.00
189_G	193_S	1.691	0.99
6_E	34_Q	1.664	0.99
14_T	24_D	1.653	0.99
178_T	188_R	1.650	0.99
123_V	175_L	1.626	0.99
144_P	148_T	1.601	0.99
144_P	149_L	1.584	0.99
147_D	151_Q	1.522	0.99
7_L	28_I	1.506	0.99
56_R	83_Y	1.458	0.98
11_I	28_I	1.457	0.98
21_T	24_D	1.449	0.98
29_E	33_A	1.439	0.98
140_G	150_S	1.431	0.98
86_I	93_V	1.410	0.98
4_K	181_D	1.403	0.98
3_L	6_E	1.387	0.98
113_A	127_F	1.387	0.98
6_E	10_A	1.386	0.98
23_E	27_E	1.367	0.97
60_T	66_L	1.363	0.97
79_L	82_I	1.343	0.97
14_T	28_I	1.327	0.97
3_L	31_L	1.316	0.97
62_S	65_L	1.303	0.97
17_G	20_A	1.301	0.96
152_V	158_K	1.259	0.96
65_L	189_G	1.251	0.96
39_N	180_L	1.234	0.95
15_N	19_L	1.228	0.95
187_G	195_F	1.225	0.95
7_L	11_I	1.211	0.95
39_N	42_P	1.209	0.95
71_R	75_P	1.206	0.95
4_K	183_D	1.202	0.95
62_S	66_L	1.200	0.94
178_T	197_L	1.200	0.94
160_L	163_D	1.180	0.94
3_L	10_A	1.179	0.94
40_P	44_P	1.176	0.94
139_K	143_T	1.167	0.94
127_F	189_G	1.162	0.93
57_L	185_R	1.161	0.93
141_L	148_T	1.151	0.93
146_Q	150_S	1.148	0.93
29_E	194_L	1.142	0.93
12_A	20_A	1.134	0.93
143_T	148_T	1.112	0.92
118_V	124_Q	1.109	0.92
84_Q	95_N	1.093	0.91
139_K	142_L	1.078	0.91
25_R	59_Y	1.069	0.90
85_V	96_I	1.059	0.90
162_L	166_I	1.054	0.90
174_W	190_N	1.053	0.90
121_R	127_F	1.049	0.89
173_G	190_N	1.045	0.89
175_L	195_F	1.035	0.89
95_N	98_E	1.033	0.89
152_V	155_G	1.026	0.88
31_L	34_Q	1.024	0.88
145_L	148_T	1.020	0.88
174_W	178_T	1.010	0.88
173_G	176_D	0.998	0.87
20_A	59_Y	0.996	0.87
107_G	111_V	0.995	0.87
47_A	50_L	0.993	0.87
125_V	175_L	0.973	0.85
138_L	145_L	0.973	0.85
175_L	189_G	0.970	0.85
84_Q	127_F	0.964	0.85
122_R	197_L	0.964	0.85
6_E	9_E	0.951	0.84
40_P	197_L	0.946	0.84
62_S	189_G	0.943	0.84
65_L	82_I	0.941	0.84
146_Q	149_L	0.941	0.84
94_Y	97_V	0.932	0.83
43_R	120_P	0.927	0.83
64_E	171_A	0.921	0.82
147_D	150_S	0.909	0.81
150_S	155_G	0.907	0.81
95_N	127_F	0.905	0.81
138_L	147_D	0.904	0.81
125_V	189_G	0.903	0.81
167_P	170_S	0.902	0.81
34_Q	180_L	0.900	0.81
185_R	189_G	0.897	0.80
14_T	20_A	0.885	0.80
41_T	47_A	0.879	0.79
177_I	185_R	0.868	0.78
64_E	68_L	0.867	0.78
168_G	171_A	0.865	0.78
145_L	150_S	0.861	0.78
191_K	197_L	0.855	0.77
97_V	175_L	0.855	0.77
142_L	149_L	0.847	0.77
36_E	53_G	0.842	0.76
123_V	187_G	0.842	0.76
67_S	70_Q	0.836	0.76
63_S	66_L	0.835	0.76
161_P	167_P	0.834	0.75
109_V	132_L	0.829	0.75
15_N	58_L	0.828	0.75
68_L	74_L	0.828	0.75
80_G	113_A	0.810	0.73
72_G	75_P	0.809	0.73
58_L	184_L	0.809	0.73
20_A	24_D	0.809	0.73
139_K	148_T	0.796	0.72
125_V	185_R	0.789	0.71
149_L	154_R	0.786	0.71
10_A	14_T	0.783	0.71
140_G	152_V	0.781	0.71
148_T	154_R	0.780	0.70
106_E	136_R	0.774	0.70
62_S	177_I	0.774	0.70
111_V	127_F	0.772	0.70
151_Q	155_G	0.771	0.70
188_R	194_L	0.769	0.69
161_P	164_F	0.768	0.69
60_T	93_V	0.766	0.69
61_T	64_E	0.766	0.69
152_V	156_I	0.766	0.69
176_D	185_R	0.765	0.69
126_K	172_Q	0.765	0.69
147_D	155_G	0.764	0.69
161_P	165_P	0.764	0.69
80_G	83_Y	0.764	0.69
140_G	144_P	0.760	0.68
93_V	187_G	0.754	0.68
142_L	148_T	0.752	0.68
64_E	130_G	0.748	0.67
60_T	82_I	0.740	0.66
138_L	152_V	0.735	0.66
54_R	99_L	0.734	0.66
48_L	115_F	0.734	0.66
29_E	59_Y	0.733	0.66
78_K	100_S	0.730	0.65
146_Q	151_Q	0.728	0.65
60_T	173_G	0.725	0.65
94_Y	98_E	0.725	0.65
138_L	144_P	0.719	0.64
109_V	115_F	0.718	0.64
68_L	175_L	0.715	0.64
131_I	134_L	0.715	0.64
149_L	152_V	0.706	0.63
121_R	176_D	0.706	0.63
87_D	95_N	0.703	0.62
5_A	19_L	0.687	0.61
123_V	133_G	0.683	0.60
43_R	102_L	0.682	0.60
113_A	195_F	0.680	0.60
85_V	94_Y	0.679	0.60
125_V	195_F	0.679	0.60
179_Y	186_I	0.678	0.60
86_I	100_S	0.678	0.60
111_V	119_S	0.677	0.59
88_V	92_R	0.674	0.59
52_D	87_D	0.672	0.59
35_L	39_N	0.669	0.59
8_L	11_I	0.668	0.58
18_L	80_G	0.667	0.58
141_L	147_D	0.666	0.58
10_A	32_I	0.666	0.58
65_L	86_I	0.664	0.58
18_L	24_D	0.661	0.58
14_T	19_L	0.661	0.58
162_L	165_P	0.660	0.58
145_L	152_V	0.659	0.57
12_A	22_P	0.656	0.57
84_Q	185_R	0.656	0.57
15_N	72_G	0.647	0.56
30_E	33_A	0.646	0.56
88_V	98_E	0.646	0.56
123_V	127_F	0.643	0.56
42_P	47_A	0.642	0.55
62_S	125_V	0.638	0.55
149_L	153_P	0.634	0.55
145_L	153_P	0.633	0.54
132_L	144_P	0.630	0.54
66_L	173_G	0.629	0.54
26_A	30_E	0.625	0.53
111_V	121_R	0.623	0.53
149_L	155_G	0.622	0.53
40_P	45_T	0.621	0.53
147_D	152_V	0.621	0.53
73_R	76_L	0.619	0.53
153_P	159_F	0.619	0.53
10_A	15_N	0.618	0.53
130_G	133_G	0.615	0.52
44_P	53_G	0.615	0.52
148_T	152_V	0.614	0.52
13_G	18_L	0.613	0.52
187_G	197_L	0.611	0.52
176_D	190_N	0.610	0.52
139_K	144_P	0.609	0.52
64_E	109_V	0.608	0.52
58_L	183_D	0.605	0.51
143_T	147_D	0.596	0.50
5_A	9_E	0.595	0.50
64_E	189_G	0.593	0.50
83_Y	96_I	0.593	0.50
138_L	149_L	0.591	0.50
67_S	71_R	0.590	0.49
68_L	75_P	0.588	0.49
39_N	179_Y	0.587	0.49
165_P	168_G	0.584	0.49
28_I	59_Y	0.583	0.49
125_V	130_G	0.582	0.48
132_L	194_L	0.578	0.48
61_T	178_T	0.576	0.48
16_R	93_V	0.575	0.48
158_K	163_D	0.575	0.48
139_K	145_L	0.574	0.48
28_I	33_A	0.574	0.48
62_S	67_S	0.573	0.47
123_V	195_F	0.573	0.47
16_R	103_P	0.573	0.47
171_A	175_L	0.571	0.47
120_P	172_Q	0.570	0.47
144_P	150_S	0.570	0.47
178_T	187_G	0.570	0.47
175_L	193_S	0.566	0.47
11_I	45_T	0.565	0.46
68_L	77_L	0.560	0.46
142_L	151_Q	0.560	0.46
149_L	156_I	0.560	0.46
183_D	186_I	0.558	0.46
65_L	97_V	0.556	0.45
60_T	174_W	0.554	0.45
113_A	175_L	0.547	0.44
159_F	163_D	0.545	0.44
158_K	194_L	0.543	0.44
13_G	28_I	0.543	0.44
36_E	57_L	0.543	0.44
8_L	61_T	0.543	0.44
17_G	25_R	0.541	0.44
158_K	161_P	0.541	0.44
32_I	117_P	0.540	0.44
58_L	162_L	0.538	0.43
14_T	17_G	0.534	0.43
144_P	153_P	0.533	0.43
5_A	13_G	0.529	0.42
70_Q	73_R	0.527	0.42
3_L	27_E	0.527	0.42
138_L	148_T	0.525	0.42
113_A	187_G	0.523	0.42
16_R	20_A	0.520	0.41
136_R	150_S	0.518	0.41
82_I	133_G	0.516	0.41
192_G	195_F	0.514	0.41
60_T	65_L	0.513	0.40
67_S	76_L	0.511	0.40
117_P	120_P	0.510	0.40
30_E	43_R	0.508	0.40
34_Q	120_P	0.506	0.40
118_V	122_R	0.504	0.39
6_E	32_I	0.502	0.39
65_L	93_V	0.500	0.39
76_L	193_S	0.500	0.39

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
2gpeA	2	0.1919	8.1	0.94	Contact Map
2kvuA	1	0.2222	7.6	0.94	Contact Map
1mqbA	1	0.2424	7.6	0.941	Contact Map
2q80A	5	0.2828	6.2	0.943	Contact Map
3iynQ	5	0.2222	6.1	0.943	Contact Map
2ma3A	1	0.2626	6	0.943	Contact Map
2lnbA	1	0.2879	5.4	0.944	Contact Map
2rp4A	4	0.1061	5.4	0.944	Contact Map
4lttA	1	0.3636	5.4	0.944	Contact Map
4iabA	3	0.6515	5.3	0.945	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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