GREMLIN Database
VATD - V-type ATP synthase subunit D
UniProt: Q9UWW9 Sequences:
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

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_Q142_E7.0941.00
23_T176_R5.0371.00
49_K53_E4.2331.00
53_E139_K3.5811.00
40_L157_L2.5921.00
11_N14_Q2.5771.00
95_K104_T2.5601.00
57_E135_E2.5101.00
15_F179_I2.4061.00
117_F127_S2.2671.00
193_E196_R2.2171.00
19_L179_I2.2131.00
48_E52_N2.1930.99
18_Q175_Y2.1380.99
192_E198_K2.1130.99
167_I171_I2.0560.99
188_D191_R2.0500.99
60_K132_E2.0170.99
18_Q178_S2.0130.99
62_Y133_M1.9850.99
96_V100_V1.9500.99
135_E138_N1.9500.99
12_L179_I1.8630.98
91_N106_R1.8490.98
28_L32_K1.8390.98
171_I195_S1.8180.98
69_V74_I1.8090.98
182_I186_L1.7940.98
39_Y95_K1.7830.98
25_I163_L1.7720.98
25_I28_L1.7460.97
20_R23_T1.7300.97
106_R142_E1.7220.97
56_E59_K1.6960.97
46_Q135_E1.6530.96
72_E126_L1.6340.96
194_F198_K1.6240.96
15_F175_Y1.6130.96
92_S105_I1.6080.96
102_V149_T1.5960.96
32_K160_T1.5290.94
68_A129_S1.4850.93
178_S181_F1.4780.93
192_E196_R1.4760.93
36_L152_S1.4760.93
51_Y147_E1.4620.93
97_I102_V1.4570.93
53_E135_E1.4560.93
25_I32_K1.4530.93
61_V133_M1.4480.93
57_E139_K1.4370.92
57_E142_E1.4220.92
26_K164_I1.4060.91
4_K178_S1.3950.91
61_V65_Y1.3810.91
34_E68_A1.3720.90
43_Y149_T1.3600.90
30_E97_I1.3250.89
33_R203_I1.3240.89
189_R200_I1.3140.88
106_R138_N1.3120.88
34_E164_I1.3060.88
6_L11_N1.2950.88
19_L172_L1.2930.88
24_V27_R1.2880.87
9_K35_V1.2870.87
18_Q24_V1.2720.87
39_Y97_I1.2650.86
26_K168_D1.2470.86
9_K161_Q1.2320.85
36_L160_T1.2080.84
68_A75_S1.1670.81
5_V178_S1.1620.81
30_E40_L1.1600.81
174_F178_S1.1560.81
201_R205_Q1.1510.81
57_E132_E1.1420.80
60_K135_E1.1420.80
29_L32_K1.1260.79
32_K100_V1.1240.79
117_F122_T1.1230.79
72_E123_S1.1000.77
167_I188_D1.0960.77
22_I163_L1.0960.77
51_Y55_N1.0950.77
64_S129_S1.0870.77
27_R31_N1.0630.75
128_E131_E1.0620.75
119_D170_Y1.0620.75
56_E97_I1.0610.75
199_I202_R1.0520.74
124_P145_E1.0470.74
32_K36_L1.0430.74
98_F147_E1.0370.73
161_Q198_K1.0340.73
61_V136_A1.0320.73
52_N90_V1.0240.72
47_Y150_I1.0170.72
51_Y193_E1.0090.71
73_G99_G1.0070.71
90_V105_I1.0060.71
131_E135_E1.0060.71
45_S48_E1.0050.71
163_L186_L1.0030.71
37_L117_F1.0010.70
73_G198_K0.9940.70
175_Y178_S0.9860.69
93_A104_T0.9760.68
196_R199_I0.9710.68
22_I103_P0.9640.68
65_Y99_G0.9610.67
8_T73_G0.9550.67
128_E132_E0.9520.67
93_A142_E0.9500.66
99_G153_L0.9440.66
161_Q185_I0.9300.65
93_A106_R0.9280.65
37_L157_L0.9220.64
64_S132_E0.9080.63
56_E60_K0.9070.63
200_I204_L0.9060.63
30_E96_V0.9040.62
178_S188_D0.9000.62
131_E139_K0.8840.61
45_S128_E0.8810.60
5_V91_N0.8800.60
195_S203_I0.8760.60
156_E159_K0.8690.59
41_R146_L0.8660.59
33_R77_I0.8660.59
60_K113_P0.8600.59
139_K142_E0.8580.58
23_T60_K0.8550.58
28_L163_L0.8490.58
41_R150_I0.8420.57
52_N84_Q0.8390.57
15_F178_S0.8230.55
119_D122_T0.8150.55
34_E169_N0.8140.54
115_K134_T0.8120.54
30_E33_R0.8120.54
20_R108_D0.8080.54
52_N56_E0.8070.54
80_M122_T0.8050.54
129_S183_K0.8010.53
6_L9_K0.7920.52
148_S158_R0.7910.52
165_N186_L0.7880.52
141_I195_S0.7840.52
22_I28_L0.7830.52
173_P188_D0.7770.51
58_M65_Y0.7730.51
113_P202_R0.7610.50
53_E60_K0.7610.50
18_Q189_R0.7580.49
150_I199_I0.7580.49
90_V93_A0.7570.49
150_I154_V0.7550.49
18_Q30_E0.7540.49
40_L97_I0.7530.49
85_K187_E0.7490.48
99_G198_K0.7450.48
54_V143_L0.7400.48
9_K40_L0.7390.47
59_K92_S0.7340.47
10_I25_I0.7340.47
6_L22_I0.7330.47
110_S134_T0.7280.46
69_V157_L0.7260.46
6_L200_I0.7140.45
140_I164_I0.7120.45
100_V160_T0.7070.45
57_E136_A0.6990.44
30_E189_R0.6980.44
40_L161_Q0.6950.43
122_T127_S0.6930.43
172_L176_R0.6920.43
58_M136_A0.6900.43
13_I99_G0.6890.43
25_I186_L0.6880.43
191_R198_K0.6870.43
93_A135_E0.6860.43
144_V201_R0.6810.42
97_I196_R0.6790.42
14_Q149_T0.6760.42
171_I175_Y0.6740.42
19_L176_R0.6740.42
18_Q137_L0.6730.41
34_E167_I0.6730.41
120_V183_K0.6730.41
12_L84_Q0.6690.41
29_L152_S0.6680.41
23_T171_I0.6680.41
174_F194_F0.6670.41
116_P134_T0.6630.41
16_R26_K0.6620.40
50_I115_K0.6620.40
26_K189_R0.6560.40
96_V162_R0.6540.40
40_L162_R0.6480.39
64_S67_Q0.6470.39
11_N184_Q0.6470.39
17_R118_S0.6430.39
202_R205_Q0.6400.39
26_K169_N0.6390.38
52_N112_I0.6380.38
35_V39_Y0.6340.38
36_L143_L0.6330.38
39_Y152_S0.6320.38
23_T50_I0.6280.37
5_V63_E0.6260.37
73_G153_L0.6250.37
59_K155_S0.6250.37
72_E75_S0.6230.37
67_Q90_V0.6210.37
19_L158_R0.6210.37
9_K189_R0.6190.37
64_S136_A0.6180.37
63_E66_L0.6170.37
61_V73_G0.6150.36
162_R197_L0.6140.36
95_K135_E0.6130.36
60_K111_T0.6110.36
51_Y154_V0.6110.36
21_L200_I0.6080.36
10_I13_I0.6010.35
43_Y150_I0.6000.35
37_L41_R0.6000.35
142_E146_L0.5990.35
61_V149_T0.5950.35
162_R168_D0.5950.35
24_V169_N0.5950.35
35_V133_M0.5940.35
72_E182_I0.5930.35
10_I28_L0.5920.34
59_K88_L0.5890.34
6_L14_Q0.5880.34
32_K163_L0.5870.34
7_P181_F0.5870.34
161_Q168_D0.5870.34
32_K186_L0.5840.34
76_N82_L0.5770.33
46_Q49_K0.5760.33
29_L162_R0.5730.33
18_Q107_L0.5720.33
7_P82_L0.5680.32
97_I144_V0.5650.32
132_E135_E0.5630.32
64_S78_E0.5600.32
8_T190_Q0.5600.32
44_A47_Y0.5600.32
27_R109_K0.5600.32
57_E62_Y0.5590.32
71_S150_I0.5590.32
123_S167_I0.5550.31
59_K185_I0.5510.31
27_R30_E0.5500.31
16_R38_L0.5490.31
98_F190_Q0.5490.31
61_V140_I0.5490.31
61_V95_K0.5440.31
38_L42_T0.5440.31
6_L10_I0.5430.30
31_N204_L0.5420.30
69_V133_M0.5400.30
9_K30_E0.5390.30
66_L136_A0.5380.30
7_P34_E0.5380.30
190_Q205_Q0.5380.30
99_G192_E0.5370.30
187_E193_E0.5360.30
115_K189_R0.5350.30
17_R92_S0.5330.30
47_Y151_R0.5330.30
68_A103_P0.5330.30
96_V99_G0.5310.30
23_T87_S0.5310.30
30_E164_I0.5300.29
120_V170_Y0.5300.29
77_I81_A0.5300.29
109_K155_S0.5270.29
8_T12_L0.5270.29
37_L164_I0.5260.29
39_Y192_E0.5260.29
50_I117_F0.5260.29
95_K112_I0.5260.29
81_A105_I0.5250.29
105_I152_S0.5220.29
129_S132_E0.5220.29
73_G81_A0.5220.29
138_N195_S0.5200.29
24_V77_I0.5200.29
154_V193_E0.5160.28
83_S195_S0.5150.28
10_I162_R0.5140.28
62_Y69_V0.5130.28
32_K166_S0.5130.28
35_V150_I0.5110.28
59_K131_E0.5080.28
33_R73_G0.5070.28
16_R179_I0.5050.28
87_S111_T0.5030.27
29_L59_K0.5000.27
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

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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