GVPL1 - HALSA - GREMLIN Contacts

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GVPL1 - Protein GvpL 1

UniProt:	Q9HI27	Sequences: MTDHRPSPEEEQTTANEERTVSNGRYLYCVVDTTSSESATLSTTGVDDNPVYVVEADGVGAVVHDCETVYETEDLEQVKRWLVTHQQVVDAASDAFGTPLPMRFDTVLEGGDASIERWLEDHYEGFRDELASFAGVWEYRINLLWDSAPFEETIADRDDRLRELRQRQQQSGAGKKFLLEKQSDQRLQELKRERRTELADQLKEAITPVVNDLTEQDTNTPLQDEHSSIEKEQIVRFAVLADEDDETALGDRLDTIVEHEGVEIRFTGPWPPYTFAPDIGK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	281 (235)
Sequences:	877 (702)
Seq/√Len:	45.8

HALSA - GVPL1 GVPL2 GVPF2 GVPF1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
245_D	248_A	6.398	1.00
62_V	92_A	5.425	1.00
239_V	249_L	4.455	1.00
136_V	242_D	3.771	1.00
136_V	211_N	3.411	1.00
122_H	125_G	3.025	1.00
58_G	123_Y	2.953	1.00
25_R	112_D	2.904	1.00
137_W	243_E	2.656	1.00
113_A	116_E	2.609	1.00
29_C	89_V	2.538	1.00
57_D	123_Y	2.499	1.00
203_K	239_V	2.404	1.00
216_Q	238_A	2.399	1.00
143_L	264_I	2.385	1.00
98_T	133_F	2.340	1.00
61_A	115_I	2.314	1.00
52_Y	65_D	2.256	1.00
181_K	184_D	2.218	1.00
142_N	236_R	2.187	1.00
24_G	68_T	2.168	1.00
233_Q	236_R	2.136	1.00
141_I	264_I	2.116	1.00
140_R	270_W	2.111	1.00
32_D	131_A	2.093	1.00
32_D	134_A	2.055	0.99
28_Y	64_H	2.031	0.99
216_Q	274_T	1.994	0.99
132_S	212_D	1.972	0.99
49_N	64_H	1.967	0.99
211_N	242_D	1.962	0.99
26_Y	85_H	1.826	0.99
25_R	65_D	1.822	0.99
52_Y	112_D	1.805	0.99
53_V	60_G	1.798	0.99
100_L	129_E	1.735	0.98
77_Q	81_W	1.695	0.98
250_G	266_F	1.675	0.98
56_A	123_Y	1.656	0.98
140_R	274_T	1.610	0.97
123_Y	127_R	1.609	0.97
135_G	244_D	1.586	0.97
128_D	132_S	1.553	0.96
31_V	62_V	1.552	0.96
29_C	62_V	1.546	0.96
242_D	245_D	1.525	0.96
267_T	270_W	1.517	0.96
46_V	84_T	1.507	0.96
47_D	130_L	1.465	0.95
210_V	253_L	1.462	0.95
174_G	178_L	1.442	0.94
28_Y	103_R	1.439	0.94
65_D	112_D	1.415	0.94
33_T	58_G	1.402	0.94
82_L	104_F	1.392	0.93
140_R	236_R	1.391	0.93
203_K	267_T	1.390	0.93
161_L	186_R	1.387	0.93
33_T	60_G	1.374	0.93
112_D	116_E	1.362	0.93
143_L	235_V	1.336	0.92
104_F	271_P	1.331	0.92
155_A	161_L	1.314	0.91
61_A	135_G	1.303	0.91
139_Y	246_E	1.287	0.90
138_E	270_W	1.284	0.90
100_L	104_F	1.275	0.90
29_C	92_A	1.259	0.89
137_W	246_E	1.238	0.88
103_R	107_V	1.234	0.88
247_T	251_D	1.234	0.88
79_K	83_V	1.223	0.88
51_V	92_A	1.219	0.88
79_K	82_L	1.207	0.87
81_W	104_F	1.199	0.87
34_T	99_P	1.197	0.87
163_E	167_R	1.196	0.87
47_D	64_H	1.194	0.87
54_V	130_L	1.187	0.86
178_L	181_K	1.181	0.86
27_L	102_M	1.172	0.86
145_W	234_I	1.170	0.85
186_R	190_L	1.168	0.85
90_D	271_P	1.166	0.85
159_D	162_R	1.164	0.85
202_L	256_I	1.161	0.85
26_Y	273_Y	1.160	0.85
26_Y	271_P	1.151	0.84
178_L	270_W	1.142	0.84
134_A	248_A	1.133	0.84
141_I	242_D	1.122	0.83
86_Q	274_T	1.112	0.82
120_E	251_D	1.111	0.82
128_D	148_A	1.105	0.82
246_E	250_G	1.063	0.79
254_D	257_V	1.061	0.79
78_V	106_T	1.059	0.79
182_Q	186_R	1.046	0.78
146_D	263_E	1.046	0.78
148_A	170_Q	1.044	0.78
75_L	103_R	1.042	0.78
64_H	81_W	1.036	0.78
55_E	58_G	1.031	0.77
196_T	200_D	1.027	0.77
236_R	274_T	1.021	0.77
144_L	233_Q	1.021	0.77
206_I	264_I	1.018	0.76
29_C	82_L	1.008	0.76
254_D	258_E	1.003	0.75
86_Q	90_D	1.002	0.75
200_D	204_E	0.997	0.75
206_I	249_L	0.984	0.74
100_L	212_D	0.980	0.74
241_A	249_L	0.978	0.73
51_V	88_V	0.978	0.73
203_K	235_V	0.977	0.73
129_E	132_S	0.976	0.73
161_L	183_S	0.968	0.73
204_E	207_T	0.966	0.72
30_V	109_E	0.959	0.72
138_E	271_P	0.958	0.72
54_V	119_L	0.957	0.72
201_Q	204_E	0.955	0.72
203_K	215_E	0.953	0.71
202_L	243_E	0.948	0.71
141_I	262_V	0.943	0.71
115_I	135_G	0.934	0.70
233_Q	271_P	0.930	0.70
140_R	267_T	0.928	0.69
29_C	51_V	0.918	0.69
45_G	51_V	0.913	0.68
84_T	142_N	0.909	0.68
61_A	130_L	0.909	0.68
253_L	266_F	0.901	0.67
66_C	77_Q	0.899	0.67
42_S	251_D	0.896	0.67
203_K	207_T	0.892	0.66
43_T	92_A	0.884	0.66
31_V	60_G	0.883	0.66
27_L	42_S	0.881	0.65
215_E	237_F	0.875	0.65
209_V	256_I	0.873	0.65
179_L	182_Q	0.871	0.64
210_V	239_V	0.867	0.64
85_H	142_N	0.865	0.64
108_L	142_N	0.860	0.63
151_E	155_A	0.859	0.63
61_A	119_L	0.857	0.63
26_Y	100_L	0.857	0.63
134_A	243_E	0.853	0.63
165_R	169_Q	0.852	0.63
30_V	59_V	0.846	0.62
135_G	243_E	0.845	0.62
206_I	256_I	0.838	0.61
77_Q	139_Y	0.833	0.61
158_D	161_L	0.828	0.60
92_A	97_G	0.824	0.60
57_D	133_F	0.821	0.60
56_A	120_E	0.805	0.58
139_Y	266_F	0.805	0.58
87_Q	201_Q	0.802	0.58
104_F	154_I	0.797	0.58
98_T	207_T	0.795	0.57
145_W	195_R	0.792	0.57
77_Q	144_L	0.784	0.56
78_V	139_Y	0.782	0.56
188_Q	201_Q	0.780	0.56
82_L	265_R	0.777	0.56
38_S	55_E	0.772	0.55
160_R	163_E	0.771	0.55
58_G	127_R	0.769	0.55
106_T	230_E	0.769	0.55
37_E	40_T	0.768	0.55
27_L	61_A	0.768	0.55
97_G	238_A	0.767	0.55
140_R	234_I	0.766	0.55
203_K	237_F	0.761	0.54
249_L	253_L	0.760	0.54
93_S	274_T	0.759	0.54
30_V	158_D	0.758	0.54
81_W	181_K	0.754	0.53
181_K	261_G	0.752	0.53
28_Y	100_L	0.749	0.53
97_G	271_P	0.747	0.53
54_V	121_D	0.747	0.53
241_A	266_F	0.747	0.53
98_T	216_Q	0.737	0.52
174_G	274_T	0.735	0.52
144_L	265_R	0.733	0.51
53_V	214_T	0.732	0.51
29_C	196_T	0.732	0.51
110_G	260_E	0.731	0.51
108_L	118_W	0.728	0.51
78_V	81_W	0.726	0.51
102_M	106_T	0.726	0.51
176_K	179_L	0.725	0.51
203_K	213_L	0.722	0.50
247_T	252_R	0.718	0.50
68_T	175_K	0.717	0.50
67_E	142_N	0.715	0.50
152_E	258_E	0.713	0.49
91_A	94_D	0.713	0.49
167_R	179_L	0.712	0.49
56_A	119_L	0.712	0.49
30_V	126_F	0.709	0.49
79_K	185_Q	0.709	0.49
197_E	204_E	0.708	0.49
54_V	116_E	0.707	0.49
119_L	137_W	0.706	0.49
200_D	215_E	0.706	0.49
79_K	86_Q	0.705	0.49
100_L	238_A	0.702	0.48
174_G	181_K	0.700	0.48
59_V	214_T	0.698	0.48
86_Q	93_S	0.695	0.48
94_D	193_E	0.694	0.47
54_V	134_A	0.685	0.47
125_G	204_E	0.683	0.46
197_E	209_V	0.681	0.46
54_V	63_V	0.681	0.46
79_K	104_F	0.680	0.46
89_V	162_R	0.678	0.46
200_D	218_T	0.678	0.46
261_G	270_W	0.677	0.46
202_L	218_T	0.677	0.46
113_A	120_E	0.674	0.46
92_A	235_V	0.673	0.45
133_F	271_P	0.672	0.45
66_C	265_R	0.671	0.45
177_F	181_K	0.670	0.45
185_Q	189_E	0.670	0.45
30_V	100_L	0.668	0.45
167_R	196_T	0.667	0.45
82_L	217_D	0.664	0.45
106_T	177_F	0.662	0.44
103_R	106_T	0.660	0.44
203_K	208_P	0.658	0.44
100_L	233_Q	0.658	0.44
134_A	242_D	0.646	0.43
157_R	194_R	0.646	0.43
257_V	272_P	0.645	0.43
34_T	127_R	0.641	0.42
58_G	245_D	0.640	0.42
78_V	82_L	0.639	0.42
108_L	265_R	0.638	0.42
242_D	251_D	0.635	0.42
117_R	200_D	0.634	0.42
155_A	193_E	0.633	0.42
207_T	211_N	0.631	0.41
32_D	218_T	0.630	0.41
25_R	272_P	0.630	0.41
141_I	255_T	0.630	0.41
142_N	233_Q	0.629	0.41
58_G	143_L	0.629	0.41
29_C	241_A	0.624	0.41
47_D	126_F	0.622	0.41
119_L	130_L	0.621	0.40
64_H	105_D	0.621	0.40
184_D	270_W	0.617	0.40
38_S	247_T	0.616	0.40
66_C	178_L	0.615	0.40
139_Y	241_A	0.614	0.40
74_D	77_Q	0.611	0.40
75_L	142_N	0.610	0.39
102_M	263_E	0.609	0.39
68_T	196_T	0.609	0.39
238_A	271_P	0.607	0.39
108_L	114_S	0.603	0.39
76_E	79_K	0.599	0.38
195_R	250_G	0.598	0.38
205_A	256_I	0.597	0.38
77_Q	181_K	0.596	0.38
114_S	117_R	0.590	0.38
59_V	192_R	0.589	0.37
198_L	250_G	0.587	0.37
165_R	179_L	0.586	0.37
25_R	99_P	0.586	0.37
25_R	86_Q	0.586	0.37
77_Q	137_W	0.586	0.37
206_I	235_V	0.584	0.37
238_A	274_T	0.583	0.37
81_W	140_R	0.583	0.37
113_A	117_R	0.582	0.37
145_W	262_V	0.577	0.36
51_V	258_E	0.575	0.36
61_A	102_M	0.572	0.36
101_P	275_F	0.572	0.36
55_E	65_D	0.569	0.36
51_V	64_H	0.568	0.36
205_A	255_T	0.567	0.35
174_G	177_F	0.566	0.35
42_S	195_R	0.564	0.35
164_L	186_R	0.563	0.35
140_R	216_Q	0.563	0.35
30_V	39_A	0.559	0.35
129_E	277_P	0.559	0.35
198_L	261_G	0.557	0.35
115_I	118_W	0.557	0.35
59_V	130_L	0.554	0.34
58_G	201_Q	0.554	0.34
113_A	202_L	0.553	0.34
151_E	188_Q	0.553	0.34
33_T	55_E	0.552	0.34
59_V	190_L	0.551	0.34
92_A	141_I	0.550	0.34
82_L	270_W	0.550	0.34
29_C	187_L	0.543	0.33
101_P	138_E	0.542	0.33
62_V	235_V	0.541	0.33
110_G	130_L	0.539	0.33
209_V	245_D	0.539	0.33
154_I	169_Q	0.538	0.33
141_I	239_V	0.538	0.33
113_A	160_R	0.537	0.33
30_V	67_E	0.536	0.33
75_L	274_T	0.536	0.33
45_G	88_V	0.534	0.33
194_R	205_A	0.533	0.32
81_W	184_D	0.532	0.32
81_W	105_D	0.531	0.32
82_L	86_Q	0.531	0.32
177_F	270_W	0.530	0.32
218_T	232_E	0.529	0.32
29_C	99_P	0.529	0.32
148_A	193_E	0.528	0.32
192_R	196_T	0.528	0.32
32_D	177_F	0.524	0.32
101_P	240_L	0.522	0.32
33_T	143_L	0.520	0.31
92_A	128_D	0.520	0.31
102_M	179_L	0.519	0.31
81_W	274_T	0.518	0.31
85_H	236_R	0.517	0.31
45_G	112_D	0.517	0.31
78_V	236_R	0.517	0.31
64_H	118_W	0.517	0.31
57_D	159_D	0.513	0.31
102_M	110_G	0.513	0.31
57_D	98_T	0.512	0.31
26_Y	142_N	0.511	0.31
56_A	258_E	0.511	0.31
257_V	260_E	0.510	0.31
41_L	169_Q	0.509	0.30
74_D	181_K	0.508	0.30
150_F	246_E	0.507	0.30
209_V	248_A	0.506	0.30
188_Q	207_T	0.503	0.30
114_S	176_K	0.503	0.30
94_D	129_E	0.503	0.30
166_Q	247_T	0.502	0.30
133_F	231_K	0.502	0.30
28_Y	45_G	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
4qsgA	1	0.847	100	0.217	Contact Map
2jpkA	1	0.0498	34.5	0.954	Contact Map
1pb7A	1	0.1815	27.4	0.956	Contact Map
2pvuA	1	0.089	25.5	0.957	Contact Map
2ylnA	1	0.1246	16.5	0.961	Contact Map
4q0cA	2	0.1815	15.8	0.961	Contact Map
1xt8A	1	0.1246	13.4	0.962	Contact Map
2yjpA	1	0.1139	13.2	0.962	Contact Map
2q9rA	2	0.3274	10.8	0.964	Contact Map
3f7cA	2	0.3381	8.4	0.966	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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