GREMLIN Database
Virulence_fact - Virulence factor
PFAM: PF13769 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 81 (79)
Sequences: 6600 (3382)
Seq/√Len: 380.5
META: 0.929

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
64_V67_E2.4911.00
8_A31_I2.3821.00
37_G40_A2.2821.00
21_R62_D2.0501.00
19_A58_E2.0331.00
25_E29_E2.0251.00
67_E71_E2.0201.00
58_E62_D2.0191.00
24_P69_E1.9841.00
62_D66_A1.8721.00
56_D59_E1.8071.00
22_Q28_Q1.6321.00
51_E64_V1.5671.00
73_D76_R1.4661.00
53_R60_V1.4441.00
53_R67_E1.4401.00
11_I47_R1.4331.00
48_G51_E1.4311.00
66_A70_A1.3941.00
54_G60_V1.3901.00
59_E63_A1.3851.00
14_D17_R1.3751.00
38_S42_L1.3751.00
21_R58_E1.3291.00
74_D78_K1.2991.00
13_K18_E1.2761.00
25_E28_Q1.2651.00
72_Y80_L1.2621.00
26_R69_E1.2361.00
21_R61_A1.2261.00
4_R44_E1.2161.00
42_L45_W1.2151.00
11_I20_K1.2061.00
22_Q25_E1.2051.00
72_Y76_R1.1781.00
8_A45_W1.1491.00
71_E76_R1.1261.00
21_R65_A1.1091.00
10_V65_A1.1001.00
12_A61_A1.0691.00
55_G60_V1.0621.00
2_Y46_R1.0411.00
53_R63_A1.0321.00
2_Y48_G1.0211.00
40_A43_A1.0191.00
9_Q22_Q1.0151.00
29_E33_R0.9931.00
6_I34_A0.9881.00
12_A60_V0.9651.00
35_A41_Y0.9601.00
13_K16_R0.9361.00
63_A67_E0.9291.00
32_D35_A0.9161.00
12_A19_A0.8971.00
33_R36_M0.8901.00
51_E60_V0.8861.00
26_R30_A0.8861.00
24_P65_A0.8841.00
57_L60_V0.8761.00
60_V63_A0.8701.00
30_A34_A0.8571.00
76_R79_A0.8481.00
66_A69_E0.8381.00
75_E79_A0.8361.00
5_D34_A0.8221.00
61_A65_A0.8151.00
65_A69_E0.7941.00
37_G44_E0.7911.00
11_I18_E0.7841.00
33_R78_K0.7821.00
75_E78_K0.7811.00
8_A22_Q0.7691.00
55_G59_E0.7641.00
13_K50_P0.7451.00
2_Y5_D0.7401.00
31_I45_W0.7361.00
32_D36_M0.7351.00
60_V64_V0.7231.00
19_A61_A0.7141.00
19_A57_L0.7131.00
17_R58_E0.7081.00
32_D41_Y0.6900.99
14_D18_E0.6790.99
53_R64_V0.6730.99
36_M41_Y0.6650.99
8_A41_Y0.6610.99
13_K19_A0.6610.99
23_L68_L0.6550.99
73_D77_L0.6500.99
8_A28_Q0.6480.99
9_Q18_E0.6420.99
13_K57_L0.6380.99
30_A33_R0.6370.99
9_Q42_L0.6320.99
76_R80_L0.6280.99
10_V64_V0.6250.99
13_K20_K0.6150.99
6_I9_Q0.6060.99
31_I35_A0.6010.98
28_Q45_W0.5960.98
3_W35_A0.5850.98
24_P77_L0.5810.98
23_L65_A0.5790.98
20_K47_R0.5660.98
5_D46_R0.5650.98
64_V71_E0.5650.98
62_D65_A0.5590.98
14_D57_L0.5520.97
25_E39_D0.5390.97
10_V68_L0.5330.97
29_E74_D0.5240.96
17_R21_R0.5190.96
53_R56_D0.5060.96
11_I30_A0.5030.95
28_Q32_D0.5010.95
27_F69_E0.5010.95
6_I80_L0.5000.95
59_E62_D0.5000.95
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  
4faiA 1 0.4938 8.8 0.911 Contact Map
3hguA 2 0.3333 7.4 0.914 Contact Map
2i49A 1 0.8395 5.3 0.92 Contact Map
4artA 2 0.1728 5.1 0.92 Contact Map
4extA 1 0.679 4.9 0.921 Contact Map
4l7mA 1 0.5432 4.5 0.922 Contact Map
4hcwA 1 0.5556 4 0.925 Contact Map
2g29A 1 1 3.9 0.925 Contact Map
2bl8A 1 0.5926 3.8 0.925 Contact Map
4b46A 1 0.4198 3.6 0.926 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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