GREMLIN Database
Vps55 - Vacuolar protein sorting 55
PFAM: PF04133 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 117 (115)
Sequences: 525 (346)
Seq/√Len: 32.3
META: 0.284

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_L21_L3.2611.00
19_C27_P3.1201.00
74_G99_G3.1141.00
77_L80_V2.9271.00
26_W29_L2.8201.00
44_F63_G2.7311.00
89_W93_G2.4570.99
1_I14_L2.2940.99
57_S60_V2.2530.99
75_F100_L2.2440.99
11_G102_I2.2070.99
93_G97_A2.2070.99
19_C87_I2.1500.99
20_A25_W2.1480.99
74_G103_Y2.1260.98
79_I92_C1.9780.98
40_P65_F1.9330.97
11_G98_G1.6830.94
82_A89_W1.6730.93
17_L91_A1.6540.93
17_L40_P1.6310.93
4_L11_G1.5660.91
15_V98_G1.5370.90
39_L80_V1.5140.89
36_L71_V1.5040.89
16_I23_N1.4740.88
4_L21_L1.3310.82
25_W28_L1.3290.82
59_W63_G1.3170.82
66_L88_Q1.2970.81
108_G111_M1.2720.79
13_L17_L1.2690.79
60_V83_H1.2600.79
25_W109_F1.2540.78
12_F70_L1.2450.78
33_F73_S1.2450.78
106_I109_F1.2450.78
89_W96_L1.2350.77
3_A7_V1.2060.75
73_S77_L1.1860.74
34_Y105_T1.1780.74
40_P67_T1.1630.73
39_L43_I1.1260.70
96_L100_L1.1160.70
6_F46_R1.1150.69
18_S94_M1.0950.68
57_S63_G1.0910.68
29_L73_S1.0900.68
34_Y99_G1.0230.63
24_N27_P1.0230.63
98_G102_I1.0190.62
38_P87_I1.0080.62
26_W86_V0.9940.60
81_L91_A0.9920.60
81_L86_V0.9900.60
41_N99_G0.9850.60
10_I72_V0.9750.59
10_I77_L0.9730.59
41_N74_G0.9630.58
15_V33_F0.9530.57
104_G112_F0.9500.57
30_V103_Y0.9380.56
15_V34_Y0.9320.55
2_I81_L0.9260.55
104_G108_G0.9240.55
4_L8_L0.9190.54
89_W92_C0.9110.54
14_L94_M0.9100.54
14_L23_N0.9090.54
28_L31_V0.9070.53
24_N101_L0.8980.53
39_L77_L0.8910.52
95_S99_G0.8720.51
55_S58_A0.8660.50
21_L106_I0.8610.50
109_F114_D0.8530.49
11_G21_L0.8530.49
34_Y40_P0.8480.49
91_A105_T0.8440.48
18_S28_L0.8370.48
62_L68_G0.8180.46
17_L65_F0.8130.46
10_I35_V0.8070.45
5_S8_L0.8050.45
71_V87_I0.8040.45
34_Y67_T0.8010.45
49_S52_D0.8010.45
58_A81_L0.7950.44
96_L111_M0.7950.44
26_W95_S0.7920.44
16_I47_C0.7900.44
69_F76_A0.7890.44
4_L32_L0.7870.44
107_L112_F0.7870.44
13_L18_S0.7840.43
28_L99_G0.7790.43
79_I83_H0.7730.42
62_L71_V0.7590.41
32_L90_G0.7570.41
25_W31_V0.7530.41
49_S87_I0.7490.41
35_V51_D0.7340.39
60_V104_G0.7310.39
82_A105_T0.7290.39
8_L83_H0.7140.38
68_G74_G0.7120.38
16_I20_A0.7110.38
38_P67_T0.7050.37
5_S28_L0.7040.37
93_G115_E0.6990.37
32_L92_C0.6940.36
9_A98_G0.6900.36
59_W70_L0.6890.36
18_S25_W0.6860.36
42_L48_S0.6850.36
1_I5_S0.6830.35
111_M114_D0.6800.35
14_L20_A0.6800.35
7_V101_L0.6690.34
9_A95_S0.6650.34
20_A28_L0.6630.34
22_Y94_M0.6570.33
5_S9_A0.6550.33
59_W92_C0.6540.33
16_I51_D0.6510.33
18_S37_A0.6500.33
36_L69_F0.6290.31
96_L104_G0.6260.31
50_D66_L0.6210.31
62_L66_L0.6160.31
27_P88_Q0.6140.30
8_L12_F0.6120.30
30_V71_V0.6090.30
25_W62_L0.6070.30
6_F10_I0.6010.29
63_G99_G0.6010.29
41_N98_G0.5980.29
73_S101_L0.5960.29
82_A92_C0.5960.29
47_C61_D0.5920.29
79_I115_E0.5920.29
32_L112_F0.5790.28
42_L76_A0.5780.28
21_L86_V0.5730.28
6_F105_T0.5680.27
6_F11_G0.5610.27
79_I98_G0.5610.27
1_I114_D0.5600.27
30_V34_Y0.5560.26
30_V102_I0.5460.26
45_G97_A0.5450.26
5_S12_F0.5440.26
24_N38_P0.5430.26
3_A14_L0.5420.26
15_V73_S0.5370.25
81_L104_G0.5340.25
44_F58_A0.5300.25
78_P106_I0.5290.25
75_F82_A0.5270.25
79_I95_S0.5240.24
66_L114_D0.5220.24
35_V85_G0.5210.24
5_S40_P0.5170.24
64_R75_F0.5140.24
3_A112_F0.5070.23
85_G88_Q0.5070.23
8_L77_L0.5070.23
51_D58_A0.5060.23
95_S106_I0.5060.23
12_F28_L0.5030.23
50_D62_L0.5020.23
19_C63_G0.5000.23
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  
4j05A 3 0.9402 4 0.928 Contact Map
4oh3A 2 0.9829 4 0.928 Contact Map
2cfqA 1 0.9145 3.7 0.93 Contact Map
4qncA 2 0.7009 3.5 0.93 Contact Map
3o7qA 1 0.8632 3.2 0.932 Contact Map
4pypA 1 0.9231 3.1 0.932 Contact Map
3wdoA 1 0.9145 2.8 0.934 Contact Map
1pw4A 1 0.9402 2.6 0.935 Contact Map
3wqjA 3 0.5897 2.3 0.937 Contact Map
4tq3A 1 0.906 2.2 0.937 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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