GREMLIN Database
Vps54 - Vps54-like protein
PFAM: PF07928 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 133 (132)
Sequences: 511 (364)
Seq/√Len: 31.7
META: 0.352

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
17_L38_L3.5741.00
47_S51_Q3.5731.00
16_M41_L3.1161.00
42_L115_Y3.1061.00
49_T75_A2.9531.00
72_L122_I2.6141.00
97_L101_Q2.5131.00
50_C121_E2.4690.99
90_R109_D2.4230.99
51_Q57_G2.2420.99
13_L41_L2.1100.98
91_E95_R2.0740.98
48_R51_Q2.0640.98
24_A93_L2.0470.98
6_V10_A2.0230.98
46_N50_C1.9620.97
127_V130_M1.8590.96
13_L16_M1.7870.95
63_G130_M1.7710.95
37_R40_E1.7500.95
51_Q55_G1.7190.94
50_C114_D1.6890.93
82_I115_Y1.6710.93
10_A78_S1.6450.93
123_H126_L1.6340.92
126_L130_M1.6320.92
19_E22_Q1.6190.92
114_D121_E1.5480.90
39_L108_F1.4670.87
11_L15_K1.4390.86
30_L44_L1.3980.85
66_N91_E1.3970.85
46_N118_H1.3870.84
68_T129_I1.3850.84
77_Q80_S1.3750.84
37_R100_K1.3450.82
40_E56_A1.3150.81
53_V93_L1.3080.80
58_A64_L1.3000.80
70_K127_V1.2980.80
41_L49_T1.2600.78
31_A89_I1.2590.78
52_L122_I1.2430.77
3_K13_L1.2330.76
97_L100_K1.2210.76
69_A78_S1.2100.75
70_K107_E1.1910.74
17_L89_I1.1870.74
47_S55_G1.1830.73
121_E128_S1.1440.71
89_I112_K1.1240.69
38_L69_A1.1230.69
59_T62_A1.1170.69
39_L111_V1.0910.67
6_V9_S1.0570.64
130_M133_R1.0510.64
47_S56_A1.0470.64
15_K19_E1.0460.64
76_S119_Q1.0390.63
53_V91_E1.0380.63
25_A116_Q1.0230.62
13_L22_Q1.0200.62
8_G15_K1.0180.62
58_A67_I1.0030.60
12_L15_K0.9860.59
52_L66_N0.9700.58
12_L20_Y0.9620.57
83_I112_K0.9560.57
69_A132_D0.9540.56
52_L87_P0.9520.56
54_L67_I0.9510.56
56_A66_N0.9490.56
43_K84_A0.9490.56
17_L124_A0.9140.53
12_L16_M0.9130.53
34_I74_L0.9130.53
119_Q123_H0.9130.53
4_F12_L0.9080.53
50_C55_G0.9040.52
45_F82_I0.8950.52
54_L125_K0.8800.50
75_A79_L0.8750.50
56_A59_T0.8700.50
88_Y95_R0.8640.49
69_A73_A0.8630.49
114_D117_E0.8550.48
59_T69_A0.8540.48
7_V13_L0.8540.48
45_F87_P0.8510.48
33_D92_F0.8480.48
46_N54_L0.8340.47
120_N124_A0.8320.47
53_V78_S0.8280.46
43_K50_C0.8200.46
73_A126_L0.8140.45
42_L87_P0.7980.44
83_I86_I0.7960.44
9_S25_A0.7890.43
5_I10_A0.7860.43
15_K27_L0.7860.43
16_M30_L0.7800.42
125_K129_I0.7740.42
91_E94_R0.7740.42
51_Q60_R0.7730.42
121_E126_L0.7670.41
24_A41_L0.7640.41
53_V130_M0.7640.41
128_S132_D0.7580.41
56_A60_R0.7550.40
11_L89_I0.7520.40
80_S119_Q0.7460.40
45_F65_K0.7450.40
101_Q105_L0.7440.40
56_A64_L0.7360.39
48_R56_A0.7360.39
16_M78_S0.7320.39
44_L110_K0.7270.38
8_G11_L0.7250.38
56_A129_I0.7210.38
97_L105_L0.7180.38
56_A62_A0.7090.37
10_A68_T0.7030.36
33_D37_R0.7000.36
52_L82_I0.6990.36
6_V108_F0.6970.36
49_T111_V0.6910.35
6_V23_L0.6890.35
69_A81_F0.6840.35
7_V81_F0.6800.35
58_A68_T0.6710.34
104_L107_E0.6680.34
31_A128_S0.6670.34
48_R114_D0.6660.34
6_V81_F0.6620.33
4_F10_A0.6600.33
44_L88_Y0.6530.33
20_Y97_L0.6520.33
63_G73_A0.6510.33
123_H130_M0.6510.33
90_R94_R0.6500.32
112_K116_Q0.6450.32
19_E98_P0.6450.32
34_I93_L0.6440.32
52_L61_S0.6430.32
101_Q112_K0.6420.32
5_I69_A0.6390.32
128_S131_S0.6360.31
13_L127_V0.6330.31
13_L40_E0.6330.31
43_K126_L0.6290.31
4_F20_Y0.6260.31
12_L111_V0.6230.31
68_T78_S0.6130.30
123_H129_I0.6090.30
27_L50_C0.6030.29
53_V102_A0.6030.29
9_S13_L0.6000.29
45_F128_S0.5990.29
29_S38_L0.5970.29
60_R78_S0.5960.29
2_E8_G0.5960.29
76_S123_H0.5900.28
80_S114_D0.5850.28
45_F77_Q0.5850.28
49_T53_V0.5800.28
113_R116_Q0.5770.27
14_L31_A0.5750.27
33_D53_V0.5740.27
121_E124_A0.5740.27
77_Q126_L0.5720.27
2_E26_N0.5710.27
32_T68_T0.5670.27
48_R62_A0.5670.27
10_A81_F0.5630.27
57_G79_L0.5610.26
71_H84_A0.5570.26
105_L109_D0.5570.26
16_M19_E0.5530.26
27_L123_H0.5470.26
48_R64_L0.5430.25
22_Q101_Q0.5420.25
5_I8_G0.5410.25
14_L19_E0.5390.25
77_Q119_Q0.5370.25
50_C61_S0.5360.25
118_H122_I0.5350.25
110_K130_M0.5340.25
111_V127_V0.5340.25
71_H77_Q0.5270.24
43_K123_H0.5230.24
71_H127_V0.5220.24
25_A74_L0.5210.24
90_R122_I0.5190.24
71_H80_S0.5130.24
77_Q84_A0.5090.23
4_F86_I0.5030.23
6_V78_S0.5030.23
39_L104_L0.5000.23
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  
2fji1 1 1 12.4 0.933 Contact Map
4jjnC 2 0.6992 9.9 0.936 Contact Map
4g92C 1 0.5714 9.6 0.936 Contact Map
3q7rA 2 0.609 9.5 0.936 Contact Map
2f8nK 1 0.6767 8.9 0.937 Contact Map
4csrB 1 0.5865 8.7 0.937 Contact Map
2f8nG 1 0.6541 8.3 0.938 Contact Map
2nqbC 2 0.6541 7 0.94 Contact Map
2qk2A 1 0.8647 6.8 0.941 Contact Map
1tzyA 2 0.6466 6.6 0.941 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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