LssY_C - PFAM28P - GREMLIN Contacts

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LssY_C - LssY C-terminus

PFAM:	PF14067	Sequences: WKRLPRRTRTADGIPGDPVNLVLVGSEEQLLAAFAAAGWVPADPLTLRSSLRIARAFLLGRPYPTAPVSPLYLFGRPQDLAFQKARGNSPRKRHHLRFWKTPFTFELPGDGRPVWVGAATRDIGVGLSRRTGQITHKIDPDVDAERDYLVADLLAAGLVAAVGYVDGVGPPLEGRNGTGDPYFTDGRL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	188 (181)
Sequences:	5883 (3467)
Seq/√Len:	257.7
META:	0.945

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
68_V	81_A	4.138	1.00
84_K	152_D	3.682	1.00
119_A	149_L	3.602	1.00
27_E	31_L	3.432	1.00
148_Y	152_D	3.146	1.00
43_D	63_Y	2.744	1.00
166_D	187_R	2.718	1.00
141_D	144_A	2.708	1.00
45_L	50_S	2.669	1.00
96_L	149_L	2.659	1.00
9_R	13_G	2.632	1.00
76_R	79_D	2.582	1.00
84_K	148_Y	2.491	1.00
70_P	77_P	2.418	1.00
23_L	30_L	2.273	1.00
26_S	29_Q	2.262	1.00
141_D	183_F	2.219	1.00
146_R	185_D	2.016	1.00
86_R	121_R	2.015	1.00
37_A	156_A	1.990	1.00
176_N	180_D	1.981	1.00
27_E	100_K	1.964	1.00
94_H	145_E	1.915	1.00
164_Y	187_R	1.868	1.00
126_G	137_K	1.820	1.00
42_A	83_Q	1.803	1.00
78_Q	81_A	1.771	1.00
98_F	117_G	1.769	1.00
31_L	82_F	1.689	1.00
10_T	13_G	1.685	1.00
74_F	101_T	1.620	1.00
19_V	73_L	1.616	1.00
95_H	136_H	1.607	1.00
150_V	162_V	1.588	1.00
40_V	64_P	1.576	1.00
120_T	138_I	1.554	1.00
22_V	114_V	1.545	1.00
50_S	54_A	1.534	1.00
23_L	98_F	1.516	1.00
40_V	65_T	1.514	1.00
40_V	85_A	1.494	1.00
31_L	41_P	1.493	1.00
173_E	181_P	1.491	1.00
33_A	156_A	1.441	1.00
34_F	149_L	1.428	1.00
51_L	55_R	1.424	1.00
11_A	72_Y	1.396	1.00
174_G	182_Y	1.382	1.00
55_R	59_L	1.376	1.00
46_T	50_S	1.374	1.00
79_D	100_K	1.374	1.00
151_A	155_A	1.368	1.00
36_A	158_L	1.364	1.00
171_P	174_G	1.342	1.00
151_A	154_L	1.338	1.00
167_G	172_L	1.309	1.00
31_L	80_L	1.295	1.00
29_Q	112_R	1.289	1.00
60_G	91_R	1.287	1.00
25_G	30_L	1.282	1.00
28_E	32_A	1.277	1.00
21_L	149_L	1.274	1.00
23_L	117_G	1.244	1.00
47_L	50_S	1.232	1.00
95_H	122_D	1.231	1.00
137_K	180_D	1.228	1.00
45_L	49_S	1.223	1.00
173_E	183_F	1.202	1.00
56_A	90_P	1.194	1.00
30_L	98_F	1.176	1.00
52_R	56_A	1.164	1.00
147_D	151_A	1.162	1.00
31_L	35_A	1.151	1.00
34_F	96_L	1.141	1.00
102_P	110_D	1.133	1.00
30_L	80_L	1.127	1.00
41_P	83_Q	1.126	1.00
60_G	89_S	1.120	1.00
122_D	136_H	1.110	1.00
100_K	113_P	1.099	1.00
128_S	131_T	1.087	1.00
123_I	137_K	1.083	1.00
71_L	135_T	1.080	1.00
86_R	92_K	1.068	1.00
47_L	51_L	1.053	1.00
16_G	71_L	1.041	1.00
175_R	181_P	1.039	1.00
139_D	144_A	1.037	1.00
9_R	12_D	1.027	1.00
26_S	113_P	1.014	1.00
28_E	31_L	1.005	1.00
96_L	117_G	1.005	1.00
93_R	122_D	0.999	1.00
57_F	90_P	0.989	1.00
154_L	159_V	0.974	1.00
153_L	159_V	0.968	1.00
96_L	119_A	0.958	1.00
45_L	70_P	0.950	1.00
80_L	98_F	0.949	1.00
172_L	187_R	0.938	1.00
147_D	164_Y	0.937	1.00
46_T	49_S	0.937	1.00
21_L	96_L	0.928	1.00
9_R	14_I	0.925	1.00
174_G	183_F	0.919	1.00
17_D	20_N	0.910	1.00
122_D	138_I	0.902	1.00
154_L	162_V	0.901	1.00
117_G	149_L	0.892	1.00
123_I	139_D	0.882	1.00
97_R	136_H	0.879	1.00
73_L	116_V	0.879	1.00
170_P	174_G	0.873	1.00
53_I	90_P	0.872	1.00
94_H	121_R	0.861	1.00
99_W	118_A	0.859	1.00
169_G	182_Y	0.856	0.99
4_L	116_V	0.853	0.99
69_S	135_T	0.851	0.99
105_F	114_V	0.845	0.99
32_A	36_A	0.845	0.99
110_D	114_V	0.836	0.99
120_T	142_V	0.834	0.99
106_E	112_R	0.827	0.99
93_R	136_H	0.820	0.99
119_A	148_Y	0.797	0.99
97_R	120_T	0.791	0.99
101_T	116_V	0.776	0.99
182_Y	187_R	0.775	0.99
43_D	65_T	0.771	0.99
149_L	152_D	0.768	0.99
19_V	116_V	0.768	0.99
29_Q	32_A	0.764	0.99
37_A	153_L	0.763	0.99
49_S	53_I	0.757	0.99
79_D	99_W	0.751	0.99
48_R	52_R	0.750	0.99
152_D	155_A	0.748	0.99
37_A	152_D	0.737	0.98
36_A	155_A	0.736	0.98
100_K	104_T	0.735	0.98
82_F	96_L	0.735	0.98
129_R	137_K	0.733	0.98
25_G	115_W	0.732	0.98
27_E	80_L	0.732	0.98
49_S	63_Y	0.730	0.98
119_A	145_E	0.727	0.98
126_G	129_R	0.726	0.98
22_V	116_V	0.724	0.98
34_F	98_F	0.718	0.98
126_G	135_T	0.707	0.98
171_P	176_N	0.706	0.98
122_D	145_E	0.706	0.98
21_L	117_G	0.705	0.98
24_V	114_V	0.699	0.98
150_V	154_L	0.698	0.98
68_V	120_T	0.697	0.98
94_H	119_A	0.691	0.98
41_P	80_L	0.684	0.98
168_V	184_T	0.683	0.98
126_G	180_D	0.681	0.97
169_G	172_L	0.676	0.97
20_N	118_A	0.676	0.97
154_L	161_A	0.675	0.97
174_G	179_G	0.674	0.97
18_P	142_V	0.674	0.97
41_P	65_T	0.672	0.97
53_I	66_A	0.672	0.97
122_D	142_V	0.670	0.97
17_D	71_L	0.669	0.97
129_R	132_G	0.668	0.97
33_A	158_L	0.667	0.97
51_L	54_A	0.667	0.97
124_G	137_K	0.665	0.97
127_L	132_G	0.661	0.97
140_P	181_P	0.659	0.97
11_A	14_I	0.657	0.97
169_G	173_E	0.657	0.97
94_H	148_Y	0.653	0.97
42_A	81_A	0.646	0.97
177_G	180_D	0.644	0.96
27_E	113_P	0.640	0.96
42_A	94_H	0.634	0.96
168_V	171_P	0.631	0.96
16_G	20_N	0.631	0.96
68_V	97_R	0.630	0.96
102_P	114_V	0.626	0.96
9_R	15_P	0.625	0.96
49_S	66_A	0.624	0.96
45_L	53_I	0.624	0.96
57_F	130_R	0.622	0.96
131_T	134_I	0.622	0.96
93_R	146_R	0.619	0.96
27_E	41_P	0.606	0.95
83_Q	136_H	0.606	0.95
143_D	184_T	0.603	0.95
32_A	35_A	0.601	0.95
17_D	95_H	0.597	0.95
153_L	157_G	0.596	0.95
102_P	163_G	0.596	0.95
180_D	183_F	0.596	0.95
167_G	171_P	0.594	0.95
72_Y	78_Q	0.587	0.94
97_R	122_D	0.584	0.94
68_V	78_Q	0.582	0.94
177_G	182_Y	0.578	0.94
8_T	16_G	0.578	0.94
56_A	61_R	0.575	0.94
142_V	182_Y	0.574	0.93
167_G	182_Y	0.573	0.93
41_P	44_P	0.573	0.93
64_P	89_S	0.572	0.93
59_L	91_R	0.571	0.93
165_V	168_V	0.571	0.93
171_P	183_F	0.565	0.93
69_S	95_H	0.564	0.93
32_A	158_L	0.561	0.93
11_A	70_P	0.557	0.92
154_L	163_G	0.557	0.92
41_P	82_F	0.556	0.92
106_E	111_G	0.556	0.92
52_R	63_Y	0.555	0.92
84_K	149_L	0.553	0.92
64_P	85_A	0.552	0.92
104_T	113_P	0.551	0.92
71_L	118_A	0.550	0.92
56_A	63_Y	0.549	0.92
150_V	164_Y	0.549	0.92
166_D	172_L	0.546	0.92
153_L	158_L	0.545	0.92
91_R	125_V	0.545	0.92
80_L	145_E	0.543	0.91
140_P	183_F	0.543	0.91
169_G	187_R	0.541	0.91
35_A	41_P	0.540	0.91
20_N	71_L	0.540	0.91
168_V	187_R	0.537	0.91
154_L	157_G	0.537	0.91
129_R	133_Q	0.537	0.91
72_Y	75_G	0.536	0.91
155_A	158_L	0.534	0.91
55_R	61_R	0.534	0.91
6_R	9_R	0.529	0.90
18_P	99_W	0.528	0.90
103_F	114_V	0.528	0.90
68_V	118_A	0.528	0.90
24_V	112_R	0.524	0.90
128_S	177_G	0.523	0.90
172_L	175_R	0.523	0.90
175_R	178_T	0.522	0.90
73_L	78_Q	0.522	0.90
52_R	55_R	0.520	0.90
143_D	146_R	0.519	0.90
103_F	160_A	0.519	0.90
92_K	121_R	0.518	0.89
4_L	150_V	0.516	0.89
54_A	58_L	0.516	0.89
158_L	162_V	0.515	0.89
8_T	11_A	0.514	0.89
57_F	91_R	0.512	0.89
25_G	28_E	0.512	0.89
74_F	114_V	0.511	0.89
168_V	183_F	0.511	0.89
171_P	182_Y	0.510	0.89
129_R	134_I	0.508	0.89
8_T	87_G	0.506	0.88
127_L	130_R	0.506	0.88
71_L	146_R	0.503	0.88
26_S	112_R	0.502	0.88
56_A	88_N	0.502	0.88
104_T	111_G	0.500	0.88
142_V	168_V	0.500	0.88

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
1nzjA	1	0.3032	8.8	0.949	Contact Map
3go9A	1	0.1915	4	0.956	Contact Map
3kvhA	2	0.3404	3.8	0.957	Contact Map
1jr2A	1	0.2819	3.2	0.959	Contact Map
2czvC	2	0.1915	3.2	0.959	Contact Map
3pfgA	2	0.3138	3.2	0.959	Contact Map
4gekA	2	0.3351	3.1	0.959	Contact Map
3eyiA	1	0.266	2.9	0.959	Contact Map
2a3zC	1	0.0904	2.9	0.959	Contact Map
2uyoA	1	0.3617	2.7	0.96	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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