GREMLIN Database
Vma12 - Endoplasmic reticulum-based factor for assembly of V-ATPase
PFAM: PF11712 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 137 (130)
Sequences: 514 (379)
Seq/√Len: 33.2
META: 0.265

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
92_G114_G3.7831.00
23_L26_R3.6481.00
27_L31_R3.5161.00
36_E40_Q3.0831.00
23_L27_L2.8261.00
21_P25_A2.5281.00
89_F111_G2.4711.00
89_F93_Y2.2940.99
118_V121_A2.2750.99
33_E37_R2.1360.99
86_V90_A2.0010.98
88_V92_G1.9770.98
19_P23_L1.9340.97
9_Y12_P1.9220.97
122_E125_L1.9040.97
84_S118_V1.8550.97
71_V86_V1.7720.96
31_R35_E1.7630.95
122_E126_Y1.7400.95
90_A94_Y1.7330.95
121_A124_Y1.6500.94
88_V118_V1.6340.93
21_P24_K1.6080.93
28_E33_E1.5660.92
94_Y107_R1.5530.91
121_A125_L1.5460.91
17_P32_A1.5450.91
124_Y128_G1.5080.90
85_V125_L1.4850.89
77_L80_N1.4400.88
81_V126_Y1.4290.87
87_A95_A1.4260.87
112_L122_E1.3860.86
34_Q38_E1.3590.84
85_V119_A1.3530.84
118_V125_L1.3440.84
91_A124_Y1.3090.82
125_L128_G1.3070.82
78_I85_V1.2670.80
26_R30_L1.2660.80
20_S26_R1.2390.78
20_S23_L1.2290.78
57_R115_A1.2150.77
3_L25_A1.2110.77
84_S88_V1.1890.76
120_V123_V1.1690.74
14_P29_R1.1550.73
24_K28_E1.1420.72
84_S122_E1.1400.72
63_V133_V1.1290.72
13_P18_E1.1170.71
117_V121_A1.1120.70
83_V86_V1.1010.70
34_Q37_R1.0630.67
87_A118_V1.0620.67
18_E24_K1.0570.66
84_S105_P1.0490.66
81_V123_V1.0470.66
5_G8_V1.0310.65
54_F57_R1.0280.64
25_A29_R1.0270.64
111_G133_V1.0220.64
29_R33_E1.0220.64
67_E71_V1.0220.64
96_A110_L1.0180.64
27_L30_L1.0100.63
20_S24_K1.0090.63
95_A119_A1.0050.62
36_E48_P1.0000.62
27_L108_V0.9820.61
107_R115_A0.9660.59
77_L95_A0.9580.59
28_E32_A0.9400.57
116_L126_Y0.9400.57
50_E57_R0.9350.57
69_K109_L0.9340.57
47_D50_E0.9330.57
30_L111_G0.9280.56
77_L125_L0.9240.56
75_L79_L0.9220.56
76_S88_V0.9130.55
78_I118_V0.9110.55
76_S87_A0.9110.55
85_V120_V0.8930.53
68_V111_G0.8920.53
43_T132_K0.8890.53
85_V121_A0.8880.53
28_E112_L0.8860.53
40_Q86_V0.8810.52
101_G110_L0.8750.52
76_S79_L0.8730.52
121_A129_Y0.8530.50
7_E11_P0.8400.49
5_G15_P0.8280.48
107_R121_A0.8270.48
81_V98_Y0.8250.48
33_E46_V0.8140.47
70_S129_Y0.8130.47
76_S125_L0.8010.46
8_V32_A0.8010.46
98_Y125_L0.7920.45
30_L74_Q0.7840.44
34_Q47_D0.7840.44
11_P123_V0.7840.44
119_A122_E0.7830.44
38_E127_A0.7780.44
34_Q42_M0.7700.43
43_T46_V0.7650.43
30_L107_R0.7640.43
28_E102_P0.7630.43
28_E36_E0.7610.42
88_V114_G0.7550.42
7_E10_L0.7540.42
76_S91_A0.7530.42
69_K72_K0.7510.42
127_A130_L0.7410.41
77_L110_L0.7410.41
105_P119_A0.7330.40
87_A128_G0.7320.40
107_R118_V0.7300.40
93_Y124_Y0.7300.40
74_Q110_L0.7300.40
122_E128_G0.7280.40
38_E43_T0.7270.40
96_A107_R0.7230.39
18_E28_E0.6950.37
7_E86_V0.6850.36
5_G12_P0.6800.36
72_K76_S0.6770.36
104_T119_A0.6710.35
16_K19_P0.6650.35
10_L55_E0.6570.34
47_D56_D0.6500.34
81_V131_R0.6490.34
78_I87_A0.6420.33
89_F99_W0.6380.33
91_A98_Y0.6310.32
115_A122_E0.6310.32
30_L34_Q0.6260.32
9_Y78_I0.6230.32
21_P134_E0.6230.32
94_Y97_R0.6220.32
49_S103_S0.6200.31
97_R107_R0.6160.31
67_E80_N0.6120.31
79_L119_A0.6120.31
37_R132_K0.6100.31
32_A113_I0.6070.31
78_I127_A0.6020.30
3_L17_P0.6020.30
23_L29_R0.6020.30
78_I125_L0.5990.30
108_V112_L0.5970.30
79_L83_V0.5960.30
42_M63_V0.5930.30
35_E108_V0.5890.29
39_Y42_M0.5870.29
110_L113_I0.5850.29
87_A98_Y0.5800.29
69_K108_V0.5800.29
90_A98_Y0.5800.29
42_M104_T0.5740.28
42_M96_A0.5740.28
14_P18_E0.5730.28
19_P127_A0.5710.28
112_L120_V0.5680.28
40_Q57_R0.5650.28
43_T134_E0.5620.27
25_A32_A0.5620.27
93_Y111_G0.5560.27
21_P86_V0.5560.27
27_L96_A0.5560.27
77_L85_V0.5520.27
84_S119_A0.5480.27
54_F127_A0.5470.26
78_I121_A0.5460.26
78_I126_Y0.5420.26
88_V111_G0.5420.26
74_Q93_Y0.5380.26
53_T56_D0.5370.26
4_R7_E0.5360.26
51_K57_R0.5350.26
111_G131_R0.5310.25
93_Y107_R0.5280.25
26_R111_G0.5280.25
15_P18_E0.5220.25
43_T53_T0.5220.25
43_T71_V0.5180.25
8_V102_P0.5170.25
3_L83_V0.5160.25
80_N84_S0.5140.24
44_K63_V0.5090.24
19_P27_L0.5090.24
30_L128_G0.5090.24
4_R13_P0.5000.24
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  
3zymA 1 0.2409 9.2 0.932 Contact Map
4i0uA 4 0.781 8.9 0.933 Contact Map
3ne5A 3 0.9197 7.6 0.935 Contact Map
2m20A 2 0.2409 7.3 0.935 Contact Map
2kncB 1 0.3066 7.1 0.936 Contact Map
4tllB 2 0.6496 7 0.936 Contact Map
2dprA 3 0.1533 6.8 0.936 Contact Map
1zrtD 1 0.6715 6.3 0.937 Contact Map
4hhuA 1 0.3869 5.7 0.938 Contact Map
4ev6A 3 0.7956 5.3 0.939 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.

Page generated in 0.006 seconds.