GVPL2 - HALSA - GREMLIN Contacts

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GVPL2 - Protein GvpL 2

UniProt:	Q9HHU0	Sequences: MTPAQSQARAQLSDGRYVYCVVDTTSVPSASVGETTGIDDETVRVVSVDGVGAVVHDCTSVYDADDIDQVKRWLVTHQQVVDDVSDVFGTPLPMRFDTVFAGGDSALTDWLADTHPRLRTELDGFAGCWEYRVTLLWDPQPFEAHVTATDDTLQALEARQAEADAGTTFLLEKQYDARLAERRRARRSALASDLSAAVEPVATQVASQDTTTSLRDESVSERHTPIARLAVLAPETDESALGSQLDDIAARDGVTIRFTGPWPPYTFAPDICTDEPNQA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	279 (237)
Sequences:	895 (717)
Seq/√Len:	46.6

HALSA - GVPL2 GVPL1 GVPF1 GVPF2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
237_D	240_A	6.444	1.00
54_V	84_V	5.519	1.00
231_V	241_L	4.592	1.00
128_C	234_P	3.824	1.00
128_C	203_T	3.433	1.00
114_T	117_R	3.114	1.00
16_R	104_D	2.998	1.00
129_W	235_E	2.851	1.00
105_S	108_T	2.610	1.00
208_Q	230_A	2.575	1.00
50_G	115_H	2.553	1.00
20_C	81_V	2.502	1.00
195_S	231_V	2.484	1.00
135_L	256_I	2.458	1.00
53_A	107_L	2.454	1.00
44_R	57_D	2.314	1.00
225_P	228_R	2.269	1.00
173_K	176_D	2.241	1.00
23_D	123_D	2.144	1.00
90_T	125_F	2.143	1.00
49_D	115_H	2.132	1.00
208_Q	266_T	2.081	1.00
133_V	256_I	2.070	1.00
132_R	262_W	2.026	0.99
19_Y	56_H	1.989	0.99
134_T	228_R	1.975	0.99
44_R	104_D	1.962	0.99
23_D	126_A	1.945	0.99
17_Y	77_H	1.943	0.99
203_T	234_P	1.909	0.99
41_E	56_H	1.905	0.99
124_G	204_Q	1.901	0.99
45_V	52_G	1.873	0.99
259_T	262_W	1.784	0.99
48_V	115_H	1.760	0.98
16_R	57_D	1.744	0.98
115_H	119_R	1.732	0.98
202_A	245_L	1.713	0.98
69_Q	73_W	1.689	0.98
24_T	50_G	1.685	0.98
242_G	258_F	1.663	0.98
92_L	121_E	1.610	0.97
127_G	236_T	1.603	0.97
104_D	108_T	1.536	0.96
38_I	76_T	1.516	0.96
129_W	238_E	1.509	0.96
132_R	266_T	1.496	0.96
120_T	124_G	1.488	0.96
43_V	84_V	1.471	0.95
153_L	178_R	1.467	0.95
234_P	237_D	1.453	0.95
96_F	263_P	1.452	0.95
22_V	54_V	1.449	0.95
132_R	228_R	1.438	0.95
131_Y	238_E	1.382	0.93
20_C	54_V	1.338	0.92
195_S	259_T	1.321	0.92
166_G	170_L	1.317	0.92
19_Y	95_R	1.313	0.92
17_Y	263_P	1.307	0.91
73_W	96_F	1.300	0.91
135_L	227_A	1.287	0.91
24_T	52_G	1.283	0.91
47_S	50_G	1.278	0.90
71_K	75_V	1.276	0.90
20_C	84_V	1.255	0.90
74_L	96_F	1.252	0.89
71_K	74_L	1.250	0.89
57_D	104_D	1.250	0.89
137_W	226_I	1.240	0.89
95_R	99_V	1.231	0.89
82_D	263_P	1.226	0.88
170_L	173_K	1.225	0.88
151_D	154_Q	1.204	0.87
130_E	262_W	1.194	0.87
208_Q	211_T	1.193	0.87
138_D	255_T	1.184	0.87
18_V	94_M	1.178	0.86
211_T	225_P	1.175	0.86
198_V	256_I	1.167	0.86
70_V	98_T	1.148	0.85
194_L	248_I	1.147	0.85
178_R	182_R	1.145	0.85
92_L	96_F	1.143	0.85
121_E	124_G	1.140	0.84
228_R	266_T	1.137	0.84
192_S	196_A	1.125	0.84
170_L	262_W	1.124	0.84
239_S	243_S	1.120	0.83
112_A	243_S	1.111	0.83
35_T	84_V	1.110	0.83
25_T	91_P	1.107	0.83
196_A	199_E	1.096	0.82
140_Q	162_E	1.093	0.82
92_L	204_Q	1.089	0.82
43_V	80_V	1.088	0.82
46_V	122_L	1.077	0.81
195_S	207_S	1.070	0.80
238_E	242_G	1.065	0.80
39_D	56_H	1.060	0.80
53_A	127_G	1.057	0.80
174_Q	178_R	1.046	0.79
78_Q	266_T	1.044	0.79
136_L	225_P	1.044	0.79
21_V	101_A	1.040	0.79
27_V	86_D	1.037	0.78
225_P	263_P	1.036	0.78
188_S	192_S	1.031	0.78
21_V	51_V	1.031	0.78
245_L	258_F	1.029	0.78
78_Q	82_D	1.024	0.77
39_D	122_L	1.022	0.77
193_D	251_R	1.020	0.77
126_A	240_A	1.013	0.77
67_I	95_R	1.009	0.76
53_A	122_L	1.005	0.76
193_D	196_A	1.003	0.76
133_V	234_P	0.998	0.76
166_G	266_T	0.997	0.75
246_D	249_A	0.993	0.75
77_H	134_T	0.992	0.75
76_T	134_T	0.985	0.75
133_V	254_V	0.982	0.74
46_V	111_L	0.981	0.74
150_D	153_L	0.976	0.74
153_L	175_Y	0.975	0.74
137_W	187_R	0.963	0.73
56_H	73_W	0.959	0.73
20_C	74_L	0.958	0.73
58_C	69_Q	0.948	0.72
120_T	140_Q	0.944	0.71
21_V	150_D	0.936	0.71
195_S	227_A	0.936	0.71
144_A	250_A	0.927	0.70
166_G	173_K	0.916	0.69
207_S	229_L	0.915	0.69
194_L	235_E	0.906	0.68
247_D	251_R	0.900	0.68
201_V	248_I	0.899	0.68
18_V	34_E	0.898	0.68
155_A	159_R	0.891	0.67
192_S	207_S	0.882	0.66
132_R	259_T	0.881	0.66
17_Y	265_Y	0.878	0.66
85_S	266_T	0.878	0.66
198_V	241_L	0.861	0.64
46_V	108_T	0.858	0.64
197_A	251_R	0.857	0.64
20_C	43_V	0.856	0.64
195_S	229_L	0.845	0.63
233_A	241_L	0.844	0.63
195_S	205_V	0.843	0.63
117_R	196_A	0.837	0.62
67_I	134_T	0.834	0.62
107_L	127_G	0.833	0.62
195_S	199_E	0.828	0.61
230_A	266_T	0.827	0.61
71_K	78_Q	0.827	0.61
246_D	250_A	0.824	0.61
125_F	263_P	0.822	0.61
100_F	110_W	0.821	0.61
202_A	231_V	0.818	0.60
241_L	245_L	0.817	0.60
130_E	263_P	0.815	0.60
136_L	257_R	0.815	0.60
79_Q	193_D	0.813	0.60
46_V	113_D	0.810	0.60
22_V	52_G	0.807	0.59
70_V	73_W	0.807	0.59
17_Y	92_L	0.806	0.59
194_L	210_T	0.804	0.59
49_D	151_D	0.804	0.59
34_E	243_S	0.802	0.59
67_I	266_T	0.799	0.58
171_L	174_Q	0.796	0.58
49_D	125_F	0.786	0.57
111_L	122_L	0.783	0.57
83_D	86_D	0.783	0.57
198_V	248_I	0.782	0.57
70_V	131_Y	0.781	0.57
133_V	231_V	0.781	0.57
127_G	235_E	0.780	0.57
48_V	111_L	0.775	0.56
173_K	253_G	0.774	0.56
177_A	181_E	0.774	0.56
74_L	209_D	0.772	0.56
106_A	109_D	0.771	0.56
112_A	146_V	0.763	0.55
100_F	134_T	0.762	0.55
74_L	257_R	0.758	0.54
81_V	154_Q	0.754	0.54
46_V	55_V	0.749	0.54
94_M	102_G	0.747	0.53
74_L	262_W	0.744	0.53
189_A	196_A	0.744	0.53
53_A	111_L	0.744	0.53
50_G	112_A	0.742	0.53
66_D	69_Q	0.741	0.53
131_Y	258_F	0.739	0.53
16_R	78_Q	0.733	0.52
253_G	262_W	0.733	0.52
190_L	242_G	0.732	0.52
69_Q	131_Y	0.730	0.52
150_D	178_R	0.730	0.52
230_A	263_P	0.726	0.51
24_T	158_A	0.723	0.51
180_A	193_D	0.719	0.51
140_Q	185_A	0.717	0.50
189_A	201_V	0.711	0.50
197_A	248_I	0.709	0.50
16_R	264_P	0.705	0.49
48_V	112_A	0.703	0.49
95_R	98_T	0.698	0.49
137_W	254_V	0.694	0.48
176_D	262_W	0.691	0.48
233_A	258_F	0.690	0.48
67_I	73_W	0.685	0.47
69_Q	173_K	0.684	0.47
189_A	237_D	0.684	0.47
149_T	186_R	0.683	0.47
73_W	173_K	0.680	0.47
100_F	106_A	0.678	0.47
102_G	252_D	0.671	0.46
71_K	177_A	0.669	0.46
94_M	98_T	0.669	0.46
132_R	208_Q	0.667	0.45
19_Y	92_L	0.666	0.45
109_D	192_S	0.665	0.45
18_V	270_D	0.662	0.45
201_V	237_D	0.662	0.45
58_C	170_L	0.662	0.45
111_L	129_W	0.659	0.45
96_F	146_V	0.659	0.45
132_R	226_I	0.650	0.44
89_G	230_A	0.647	0.44
90_T	208_Q	0.647	0.44
21_V	92_L	0.646	0.43
51_V	206_A	0.646	0.43
126_A	234_P	0.645	0.43
134_T	225_P	0.643	0.43
169_F	173_K	0.641	0.43
20_C	91_P	0.638	0.43
143_E	176_D	0.638	0.43
45_V	206_A	0.635	0.42
92_L	225_P	0.634	0.42
234_P	243_S	0.633	0.42
40_D	149_T	0.633	0.42
105_S	112_A	0.633	0.42
18_V	53_A	0.632	0.42
46_V	126_A	0.630	0.42
187_R	242_G	0.626	0.41
92_L	230_A	0.625	0.41
78_Q	85_S	0.625	0.41
69_Q	129_W	0.625	0.41
20_C	163_A	0.621	0.41
84_V	89_G	0.617	0.41
159_R	171_L	0.616	0.41
70_V	74_L	0.613	0.40
38_I	56_H	0.612	0.40
90_T	199_E	0.612	0.40
201_V	240_A	0.611	0.40
239_S	244_Q	0.610	0.40
59_T	134_T	0.610	0.40
249_A	252_D	0.610	0.40
94_M	255_T	0.609	0.40
122_L	179_L	0.608	0.40
126_A	235_E	0.607	0.40
71_K	96_F	0.605	0.39
192_S	210_T	0.603	0.39
74_L	78_Q	0.601	0.39
120_T	251_R	0.601	0.39
143_E	160_Q	0.601	0.39
98_T	169_F	0.600	0.39
98_T	170_L	0.600	0.39
15_G	84_V	0.598	0.39
135_L	254_V	0.596	0.39
33_G	41_E	0.596	0.39
249_A	264_P	0.589	0.38
205_V	231_V	0.588	0.38
69_Q	136_L	0.587	0.38
148_A	151_D	0.587	0.38
153_L	179_L	0.587	0.38
55_V	233_A	0.587	0.38
20_C	188_S	0.586	0.38
16_R	91_P	0.586	0.38
240_A	243_S	0.585	0.38
157_E	161_A	0.585	0.38
100_F	257_R	0.583	0.37
26_S	47_S	0.583	0.37
198_V	227_A	0.580	0.37
260_G	267_F	0.578	0.37
24_T	47_S	0.575	0.37
186_R	197_A	0.573	0.37
89_G	263_P	0.573	0.37
86_D	185_A	0.572	0.36
78_Q	208_Q	0.571	0.36
159_R	188_S	0.570	0.36
84_V	227_A	0.568	0.36
84_V	133_V	0.565	0.36
56_H	97_D	0.564	0.36
152_T	155_A	0.563	0.36
199_E	203_T	0.561	0.35
244_Q	247_D	0.559	0.35
84_V	120_T	0.559	0.35
45_V	54_V	0.558	0.35
133_V	199_E	0.558	0.35
36_T	40_D	0.556	0.35
39_D	118_L	0.556	0.35
37_G	43_V	0.550	0.34
43_V	250_A	0.549	0.34
231_V	245_L	0.548	0.34
21_V	59_T	0.548	0.34
235_E	254_V	0.545	0.34
125_F	255_T	0.544	0.34
68_D	71_K	0.544	0.34
93_P	232_L	0.541	0.34
73_W	176_D	0.540	0.34
197_A	247_D	0.540	0.34
172_E	180_A	0.538	0.33
107_L	110_W	0.535	0.33
51_V	122_L	0.535	0.33
133_V	202_A	0.535	0.33
131_Y	233_A	0.534	0.33
93_P	267_F	0.533	0.33
171_L	176_D	0.532	0.33
50_G	237_D	0.531	0.33
81_V	97_D	0.530	0.33
208_Q	228_R	0.530	0.33
16_R	194_L	0.528	0.32
50_G	119_R	0.527	0.32
168_T	171_L	0.525	0.32
140_Q	144_A	0.525	0.32
115_H	240_A	0.525	0.32
157_E	171_L	0.525	0.32
102_G	122_L	0.524	0.32
43_V	79_Q	0.524	0.32
51_V	184_R	0.521	0.32
22_V	26_S	0.520	0.32
21_V	43_V	0.519	0.32
133_V	246_D	0.517	0.32
93_P	130_E	0.514	0.31
143_E	180_A	0.513	0.31
19_Y	38_I	0.513	0.31
58_C	257_R	0.512	0.31
51_V	108_T	0.509	0.31
210_T	224_T	0.508	0.31
25_T	119_R	0.508	0.31
39_D	202_A	0.508	0.31
189_A	203_T	0.507	0.31
134_T	211_T	0.507	0.31
50_G	135_L	0.506	0.31
80_V	264_P	0.504	0.30
21_V	118_L	0.504	0.30
128_C	228_R	0.502	0.30
53_A	94_M	0.502	0.30
46_V	81_V	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	0.853	100	0.191	Contact Map
3vv5A	1	0.147	9.3	0.964	Contact Map
4n8nA	1	0.3584	9	0.964	Contact Map
2v25A	1	0.1326	7.9	0.965	Contact Map
2pvuA	1	0.1075	7.5	0.965	Contact Map
2yjpA	1	0.1362	6.6	0.966	Contact Map
1pb7A	1	0.2043	6.5	0.966	Contact Map
4ymxA	1	0.1004	6.5	0.966	Contact Map
2ylnA	1	0.147	5.5	0.967	Contact Map
3vwnX	2	0.2975	5.2	0.968	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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