GREMLIN Database
YNFB - UPF0482 protein YnfB
UniProt: P76170 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13840
Length: 113 (105)
Sequences: 104 (64)
Seq/√Len: 6.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
45_Q48_A4.0110.94
48_A72_W2.7240.72
46_H50_E2.4900.65
40_S43_S2.3070.59
45_Q49_M2.2970.58
62_Q66_K2.2370.56
45_Q72_W2.1920.54
64_V68_T2.1260.52
28_A106_R2.0730.50
84_K87_Q2.0330.49
26_V30_T1.9920.47
19_A24_T1.9840.47
64_V73_D1.9240.45
44_R49_M1.8190.41
87_Q106_R1.7920.40
44_R48_A1.7440.38
26_V34_V1.7090.37
62_Q68_T1.6900.37
53_Q78_A1.6900.37
29_E33_L1.6200.34
12_L22_L1.6060.34
63_K73_D1.5670.33
49_M72_W1.5590.32
53_Q57_T1.4180.28
39_D44_R1.4120.28
33_L36_E1.3970.27
86_E91_I1.3770.27
70_K80_D1.3020.25
72_W110_V1.2780.24
35_I41_A1.2540.23
63_K69_E1.2520.23
67_R107_T1.2470.23
100_L106_R1.2180.23
39_D49_M1.2170.23
58_R62_Q1.1860.22
71_E75_A1.1590.21
42_Q50_E1.1350.21
48_A110_V1.1140.20
26_V33_L1.1130.20
79_F83_D1.1030.20
83_D97_P1.1000.20
28_A101_R1.0830.19
25_T76_D1.0830.19
56_D59_N1.0790.19
43_S46_H1.0630.19
65_N70_K1.0480.19
71_E79_F1.0480.19
59_N91_I1.0450.18
53_Q99_T1.0410.18
26_V31_N1.0250.18
82_R91_I1.0230.18
44_R55_N1.0140.18
13_A23_S1.0000.18
44_R110_V0.9920.17
44_R72_W0.9900.17
57_T105_R0.9850.17
67_R72_W0.9810.17
81_N100_L0.9740.17
43_S55_N0.9700.17
31_N34_V0.9630.17
34_V81_N0.9600.17
59_N67_R0.9520.17
67_R99_T0.9420.16
16_L24_T0.9300.16
20_L34_V0.9150.16
66_K89_A0.9090.16
46_H77_A0.9050.16
47_A54_W0.9050.16
45_Q55_N0.9000.16
82_R101_R0.8950.15
52_E58_R0.8940.15
42_Q55_N0.8790.15
43_S86_E0.8750.15
24_T91_I0.8740.15
29_E32_K0.8730.15
53_Q65_N0.8680.15
27_H111_I0.8660.15
31_N51_K0.8610.15
29_E35_I0.8480.15
32_K36_E0.8450.15
35_I111_I0.8410.14
76_D83_D0.8380.14
19_A109_R0.8360.14
82_R86_E0.8340.14
25_T46_H0.8310.14
40_S46_H0.8170.14
53_Q68_T0.8150.14
39_D45_Q0.8110.14
53_Q76_D0.8100.14
26_V32_K0.8060.14
16_L27_H0.8030.14
83_D87_Q0.8020.14
86_E98_N0.8010.14
33_L50_E0.7920.14
29_E34_V0.7900.14
57_T78_A0.7620.13
9_I23_S0.7590.13
12_L17_P0.7540.13
27_H30_T0.7540.13
21_A27_H0.7470.13
80_D109_R0.7370.13
46_H100_L0.7360.13
75_A87_Q0.7290.13
72_W99_T0.7240.12
9_I40_S0.7200.12
34_V106_R0.7180.12
69_E73_D0.7160.12
38_G52_E0.7150.12
84_K106_R0.7060.12
51_K67_R0.7000.12
51_K83_D0.6950.12
13_A62_Q0.6950.12
11_L29_E0.6940.12
39_D58_R0.6940.12
46_H55_N0.6910.12
24_T111_I0.6780.12
27_H34_V0.6680.12
28_A84_K0.6640.12
46_H62_Q0.6420.11
56_D75_A0.6420.11
82_R99_T0.6370.11
9_I98_N0.6290.11
19_A112_T0.6270.11
18_C29_E0.6260.11
33_L44_R0.6260.11
14_I18_C0.6170.11
49_M62_Q0.6160.11
25_T30_T0.6130.11
19_A25_T0.6090.11
12_L23_S0.6040.11
98_N106_R0.5700.10
47_A74_K0.5690.10
43_S49_M0.5660.10
18_C111_I0.5650.10
71_E100_L0.5650.10
68_T78_A0.5610.10
28_A79_F0.5550.10
67_R71_E0.5520.10
9_I13_A0.5520.10
57_T76_D0.5510.10
26_V64_V0.5500.10
39_D57_T0.5480.10
14_I37_S0.5430.10
20_L24_T0.5390.10
37_S110_V0.5390.10
33_L41_A0.5380.10
67_R70_K0.5370.10
22_L41_A0.5370.10
15_L18_C0.5210.10
39_D56_D0.5200.10
11_L27_H0.5160.10
32_K45_Q0.5160.10
13_A22_L0.5120.09
40_S84_K0.5120.09
45_Q77_A0.5120.09
56_D107_T0.5100.09
65_N80_D0.5060.09
17_P26_V0.5000.09
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  
2vdaB 1 0.2478 27.6 0.943 Contact Map
1t95A 1 0.6814 12.3 0.951 Contact Map
2wbmA 1 0.6814 11.5 0.952 Contact Map
2kdoA 1 0.6814 11.4 0.952 Contact Map
3dw0A 1 0.2655 10.2 0.953 Contact Map
2qguA 1 0.5575 8.6 0.955 Contact Map
3rpwA 1 0.6903 7.2 0.956 Contact Map
3pjsK 4 0.6903 6.7 0.957 Contact Map
1ydmA 3 0.4867 5.8 0.958 Contact Map
4fczB 1 0.5752 5.3 0.959 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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