VATD - SULSO - GREMLIN Contacts

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VATD - V-type ATP synthase subunit D

UniProt:	Q9UWW9	Sequences: MSQKVLPTKINLIQFRRQLRLITVIKRLLENKREVLLLYLRTYASQYEKIYNEVNEEMKKVYESYLQAVASEGISNIEEMALSQKPSLEVNSAIKVIFGVKVPTIRLDKSTIPAKPFSDVETSPYLSESYEEMTEALNKIIELVELESTIRSLVSELRKTQRLINSIDNYILPFYRGSIKFIKQILEDRQREEFSRLKIIRRILQRRRESGSR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	213 (202)
Sequences:	880 (578)
Seq/√Len:	40.7

HALSA - VATD
SULSO - VATD

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
46_Q	142_E	7.094	1.00
23_T	176_R	5.037	1.00
49_K	53_E	4.233	1.00
53_E	139_K	3.581	1.00
40_L	157_L	2.592	1.00
11_N	14_Q	2.577	1.00
95_K	104_T	2.560	1.00
57_E	135_E	2.510	1.00
15_F	179_I	2.406	1.00
117_F	127_S	2.267	1.00
193_E	196_R	2.217	1.00
19_L	179_I	2.213	1.00
48_E	52_N	2.193	0.99
18_Q	175_Y	2.138	0.99
192_E	198_K	2.113	0.99
167_I	171_I	2.056	0.99
188_D	191_R	2.050	0.99
60_K	132_E	2.017	0.99
18_Q	178_S	2.013	0.99
62_Y	133_M	1.985	0.99
96_V	100_V	1.950	0.99
135_E	138_N	1.950	0.99
12_L	179_I	1.863	0.98
91_N	106_R	1.849	0.98
28_L	32_K	1.839	0.98
171_I	195_S	1.818	0.98
69_V	74_I	1.809	0.98
182_I	186_L	1.794	0.98
39_Y	95_K	1.783	0.98
25_I	163_L	1.772	0.98
25_I	28_L	1.746	0.97
20_R	23_T	1.730	0.97
106_R	142_E	1.722	0.97
56_E	59_K	1.696	0.97
46_Q	135_E	1.653	0.96
72_E	126_L	1.634	0.96
194_F	198_K	1.624	0.96
15_F	175_Y	1.613	0.96
92_S	105_I	1.608	0.96
102_V	149_T	1.596	0.96
32_K	160_T	1.529	0.94
68_A	129_S	1.485	0.93
178_S	181_F	1.478	0.93
192_E	196_R	1.476	0.93
36_L	152_S	1.476	0.93
51_Y	147_E	1.462	0.93
97_I	102_V	1.457	0.93
53_E	135_E	1.456	0.93
25_I	32_K	1.453	0.93
61_V	133_M	1.448	0.93
57_E	139_K	1.437	0.92
57_E	142_E	1.422	0.92
26_K	164_I	1.406	0.91
4_K	178_S	1.395	0.91
61_V	65_Y	1.381	0.91
34_E	68_A	1.372	0.90
43_Y	149_T	1.360	0.90
30_E	97_I	1.325	0.89
33_R	203_I	1.324	0.89
189_R	200_I	1.314	0.88
106_R	138_N	1.312	0.88
34_E	164_I	1.306	0.88
6_L	11_N	1.295	0.88
19_L	172_L	1.293	0.88
24_V	27_R	1.288	0.87
9_K	35_V	1.287	0.87
18_Q	24_V	1.272	0.87
39_Y	97_I	1.265	0.86
26_K	168_D	1.247	0.86
9_K	161_Q	1.232	0.85
36_L	160_T	1.208	0.84
68_A	75_S	1.167	0.81
5_V	178_S	1.162	0.81
30_E	40_L	1.160	0.81
174_F	178_S	1.156	0.81
201_R	205_Q	1.151	0.81
57_E	132_E	1.142	0.80
60_K	135_E	1.142	0.80
29_L	32_K	1.126	0.79
32_K	100_V	1.124	0.79
117_F	122_T	1.123	0.79
72_E	123_S	1.100	0.77
167_I	188_D	1.096	0.77
22_I	163_L	1.096	0.77
51_Y	55_N	1.095	0.77
64_S	129_S	1.087	0.77
27_R	31_N	1.063	0.75
128_E	131_E	1.062	0.75
119_D	170_Y	1.062	0.75
56_E	97_I	1.061	0.75
199_I	202_R	1.052	0.74
124_P	145_E	1.047	0.74
32_K	36_L	1.043	0.74
98_F	147_E	1.037	0.73
161_Q	198_K	1.034	0.73
61_V	136_A	1.032	0.73
52_N	90_V	1.024	0.72
47_Y	150_I	1.017	0.72
51_Y	193_E	1.009	0.71
73_G	99_G	1.007	0.71
90_V	105_I	1.006	0.71
131_E	135_E	1.006	0.71
45_S	48_E	1.005	0.71
163_L	186_L	1.003	0.71
37_L	117_F	1.001	0.70
73_G	198_K	0.994	0.70
175_Y	178_S	0.986	0.69
93_A	104_T	0.976	0.68
196_R	199_I	0.971	0.68
22_I	103_P	0.964	0.68
65_Y	99_G	0.961	0.67
8_T	73_G	0.955	0.67
128_E	132_E	0.952	0.67
93_A	142_E	0.950	0.66
99_G	153_L	0.944	0.66
161_Q	185_I	0.930	0.65
93_A	106_R	0.928	0.65
37_L	157_L	0.922	0.64
64_S	132_E	0.908	0.63
56_E	60_K	0.907	0.63
200_I	204_L	0.906	0.63
30_E	96_V	0.904	0.62
178_S	188_D	0.900	0.62
131_E	139_K	0.884	0.61
45_S	128_E	0.881	0.60
5_V	91_N	0.880	0.60
195_S	203_I	0.876	0.60
156_E	159_K	0.869	0.59
41_R	146_L	0.866	0.59
33_R	77_I	0.866	0.59
60_K	113_P	0.860	0.59
139_K	142_E	0.858	0.58
23_T	60_K	0.855	0.58
28_L	163_L	0.849	0.58
41_R	150_I	0.842	0.57
52_N	84_Q	0.839	0.57
15_F	178_S	0.823	0.55
119_D	122_T	0.815	0.55
34_E	169_N	0.814	0.54
115_K	134_T	0.812	0.54
30_E	33_R	0.812	0.54
20_R	108_D	0.808	0.54
52_N	56_E	0.807	0.54
80_M	122_T	0.805	0.54
129_S	183_K	0.801	0.53
6_L	9_K	0.792	0.52
148_S	158_R	0.791	0.52
165_N	186_L	0.788	0.52
141_I	195_S	0.784	0.52
22_I	28_L	0.783	0.52
173_P	188_D	0.777	0.51
58_M	65_Y	0.773	0.51
113_P	202_R	0.761	0.50
53_E	60_K	0.761	0.50
18_Q	189_R	0.758	0.49
150_I	199_I	0.758	0.49
90_V	93_A	0.757	0.49
150_I	154_V	0.755	0.49
18_Q	30_E	0.754	0.49
40_L	97_I	0.753	0.49
85_K	187_E	0.749	0.48
99_G	198_K	0.745	0.48
54_V	143_L	0.740	0.48
9_K	40_L	0.739	0.47
59_K	92_S	0.734	0.47
10_I	25_I	0.734	0.47
6_L	22_I	0.733	0.47
110_S	134_T	0.728	0.46
69_V	157_L	0.726	0.46
6_L	200_I	0.714	0.45
140_I	164_I	0.712	0.45
100_V	160_T	0.707	0.45
57_E	136_A	0.699	0.44
30_E	189_R	0.698	0.44
40_L	161_Q	0.695	0.43
122_T	127_S	0.693	0.43
172_L	176_R	0.692	0.43
58_M	136_A	0.690	0.43
13_I	99_G	0.689	0.43
25_I	186_L	0.688	0.43
191_R	198_K	0.687	0.43
93_A	135_E	0.686	0.43
144_V	201_R	0.681	0.42
97_I	196_R	0.679	0.42
14_Q	149_T	0.676	0.42
171_I	175_Y	0.674	0.42
19_L	176_R	0.674	0.42
18_Q	137_L	0.673	0.41
34_E	167_I	0.673	0.41
120_V	183_K	0.673	0.41
12_L	84_Q	0.669	0.41
29_L	152_S	0.668	0.41
23_T	171_I	0.668	0.41
174_F	194_F	0.667	0.41
116_P	134_T	0.663	0.41
16_R	26_K	0.662	0.40
50_I	115_K	0.662	0.40
26_K	189_R	0.656	0.40
96_V	162_R	0.654	0.40
40_L	162_R	0.648	0.39
64_S	67_Q	0.647	0.39
11_N	184_Q	0.647	0.39
17_R	118_S	0.643	0.39
202_R	205_Q	0.640	0.39
26_K	169_N	0.639	0.38
52_N	112_I	0.638	0.38
35_V	39_Y	0.634	0.38
36_L	143_L	0.633	0.38
39_Y	152_S	0.632	0.38
23_T	50_I	0.628	0.37
5_V	63_E	0.626	0.37
73_G	153_L	0.625	0.37
59_K	155_S	0.625	0.37
72_E	75_S	0.623	0.37
67_Q	90_V	0.621	0.37
19_L	158_R	0.621	0.37
9_K	189_R	0.619	0.37
64_S	136_A	0.618	0.37
63_E	66_L	0.617	0.37
61_V	73_G	0.615	0.36
162_R	197_L	0.614	0.36
95_K	135_E	0.613	0.36
60_K	111_T	0.611	0.36
51_Y	154_V	0.611	0.36
21_L	200_I	0.608	0.36
10_I	13_I	0.601	0.35
43_Y	150_I	0.600	0.35
37_L	41_R	0.600	0.35
142_E	146_L	0.599	0.35
61_V	149_T	0.595	0.35
162_R	168_D	0.595	0.35
24_V	169_N	0.595	0.35
35_V	133_M	0.594	0.35
72_E	182_I	0.593	0.35
10_I	28_L	0.592	0.34
59_K	88_L	0.589	0.34
6_L	14_Q	0.588	0.34
32_K	163_L	0.587	0.34
7_P	181_F	0.587	0.34
161_Q	168_D	0.587	0.34
32_K	186_L	0.584	0.34
76_N	82_L	0.577	0.33
46_Q	49_K	0.576	0.33
29_L	162_R	0.573	0.33
18_Q	107_L	0.572	0.33
7_P	82_L	0.568	0.32
97_I	144_V	0.565	0.32
132_E	135_E	0.563	0.32
64_S	78_E	0.560	0.32
8_T	190_Q	0.560	0.32
44_A	47_Y	0.560	0.32
27_R	109_K	0.560	0.32
57_E	62_Y	0.559	0.32
71_S	150_I	0.559	0.32
123_S	167_I	0.555	0.31
59_K	185_I	0.551	0.31
27_R	30_E	0.550	0.31
16_R	38_L	0.549	0.31
98_F	190_Q	0.549	0.31
61_V	140_I	0.549	0.31
61_V	95_K	0.544	0.31
38_L	42_T	0.544	0.31
6_L	10_I	0.543	0.30
31_N	204_L	0.542	0.30
69_V	133_M	0.540	0.30
9_K	30_E	0.539	0.30
66_L	136_A	0.538	0.30
7_P	34_E	0.538	0.30
190_Q	205_Q	0.538	0.30
99_G	192_E	0.537	0.30
187_E	193_E	0.536	0.30
115_K	189_R	0.535	0.30
17_R	92_S	0.533	0.30
47_Y	151_R	0.533	0.30
68_A	103_P	0.533	0.30
96_V	99_G	0.531	0.30
23_T	87_S	0.531	0.30
30_E	164_I	0.530	0.29
120_V	170_Y	0.530	0.29
77_I	81_A	0.530	0.29
109_K	155_S	0.527	0.29
8_T	12_L	0.527	0.29
37_L	164_I	0.526	0.29
39_Y	192_E	0.526	0.29
50_I	117_F	0.526	0.29
95_K	112_I	0.526	0.29
81_A	105_I	0.525	0.29
105_I	152_S	0.522	0.29
129_S	132_E	0.522	0.29
73_G	81_A	0.522	0.29
138_N	195_S	0.520	0.29
24_V	77_I	0.520	0.29
154_V	193_E	0.516	0.28
83_S	195_S	0.515	0.28
10_I	162_R	0.514	0.28
62_Y	69_V	0.513	0.28
32_K	166_S	0.513	0.28
35_V	150_I	0.511	0.28
59_K	131_E	0.508	0.28
33_R	73_G	0.507	0.28
16_R	179_I	0.505	0.28
87_S	111_T	0.503	0.27
29_L	59_K	0.500	0.27

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
3aonA	1	0.8685	100	0.106	Contact Map
4rndA	2	0.8216	100	0.114	Contact Map
3w3aG	1	0.9812	100	0.117	Contact Map
4iloA	3	0.385	23.4	0.949	Contact Map
1yz7A	1	0.615	22	0.949	Contact Map
3c9iA	5	0.7559	17	0.952	Contact Map
3wuqA	1	0.3099	14.6	0.953	Contact Map
4cg4A	2	0.3897	13	0.954	Contact Map
3na7A	1	0.3756	10.3	0.956	Contact Map
2wujA	2	0.2347	10.2	0.956	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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