GREMLIN Database
VMA21 - VMA21-like domain
PFAM: PF09446 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 64 (63)
Sequences: 734 (559)
Seq/√Len: 70.5
META: 0.403

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
16_L51_V3.7131.00
20_T51_V3.6091.00
57_A61_Y3.3241.00
20_T47_L3.0291.00
10_S13_M2.2201.00
46_I50_V2.1141.00
5_K62_V2.0331.00
61_Y64_F1.8971.00
24_T47_L1.7071.00
10_S14_I1.6520.99
11_L15_V1.4460.99
8_F12_A1.4310.98
45_G49_V1.3970.98
21_Y25_K1.3680.98
42_T46_I1.3450.98
24_T44_A1.2950.97
6_L10_S1.2700.97
9_F62_V1.2550.97
24_T28_L1.2370.96
9_F58_A1.2340.96
4_K23_L1.1990.95
9_F13_M1.1900.95
50_V53_N1.1890.95
46_I49_V1.1830.95
2_V5_K1.1580.95
4_K44_A1.1130.93
36_S54_V1.0660.92
57_A62_V1.0470.91
12_A50_V1.0230.90
60_I64_F1.0110.89
30_E51_V0.9990.89
44_A60_I0.9940.89
5_K59_Y0.9900.88
13_M56_L0.9250.85
53_N59_Y0.9160.84
34_G37_S0.9130.84
6_L60_I0.8890.82
14_I56_L0.8870.82
8_F57_A0.8700.81
7_L19_G0.8660.81
33_F36_S0.8620.80
42_T56_L0.8610.80
10_S59_Y0.8540.80
56_L60_I0.8470.79
59_Y63_A0.8360.78
5_K9_F0.8270.78
8_F49_V0.8120.76
21_Y24_T0.8010.75
41_T48_A0.7560.71
51_V55_V0.7540.71
3_I49_V0.7540.71
19_G23_L0.7430.70
45_G59_Y0.7080.66
14_I49_V0.7050.66
45_G48_A0.7020.65
11_L61_Y0.6980.65
42_T45_G0.6940.64
23_L27_Y0.6890.64
9_F59_Y0.6770.62
39_D43_Y0.6740.62
26_N35_L0.6390.58
15_V19_G0.6330.57
25_K42_T0.6310.57
11_L19_G0.6300.57
6_L55_V0.6220.56
44_A58_A0.6220.56
53_N56_L0.6200.56
52_V55_V0.6150.55
11_L60_I0.6120.55
28_L43_Y0.6100.55
31_G56_L0.6060.54
13_M17_P0.6040.54
15_V60_I0.6000.53
3_I61_Y0.5960.53
25_K44_A0.5950.53
10_S55_V0.5940.53
42_T49_V0.5940.53
30_E36_S0.5900.52
29_F47_L0.5860.52
37_S40_N0.5830.51
14_I64_F0.5820.51
26_N50_V0.5710.50
40_N54_V0.5560.48
54_V58_A0.5550.48
4_K8_F0.5520.48
17_P48_A0.5490.47
40_N53_N0.5430.46
10_S18_I0.5420.46
12_A64_F0.5350.45
23_L30_E0.5280.45
22_F53_N0.5240.44
22_F25_K0.5180.43
27_Y32_L0.5060.42
7_L28_L0.5000.41
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  
4httA 1 0.9531 1.8 0.891 Contact Map
4px7A 1 0.9531 1.7 0.891 Contact Map
1rz2A 1 0 1.7 0.892 Contact Map
4ev6A 3 0.875 1.5 0.894 Contact Map
1sdoA 2 0.3906 1.3 0.899 Contact Map
2k3cA 1 0.4844 1.2 0.901 Contact Map
3mk7C 2 0.4062 1.1 0.904 Contact Map
4i0uA 4 0.8594 1 0.906 Contact Map
2nwlA 3 0.9219 0.9 0.907 Contact Map
4b4aA 1 0.9844 0.9 0.908 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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