GREMLIN Database
DUF2279 - Predicted periplasmic lipoprotein (DUF2279)
PFAM: PF10043 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 91 (79)
Sequences: 6420 (4253)
Seq/√Len: 478.4
META: 0.953

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
73_W77_A2.8621.00
53_L80_T2.3471.00
40_S43_K2.2501.00
20_F81_A2.1571.00
26_L56_Q1.9251.00
23_S56_Q1.8661.00
57_T76_L1.8561.00
81_A84_G1.8501.00
21_Y25_F1.6621.00
20_F85_L1.6531.00
31_Y48_G1.6461.00
77_A81_A1.6411.00
41_R45_L1.5741.00
61_I65_F1.5231.00
76_L79_N1.3941.00
71_F76_L1.3821.00
25_F28_R1.3721.00
31_Y35_R1.3691.00
28_R32_E1.3551.00
46_L50_L1.3291.00
34_L47_Y1.3001.00
27_S83_A1.2811.00
54_A58_A1.2721.00
74_G77_A1.2571.00
47_Y50_L1.2411.00
53_L57_T1.2311.00
35_R41_R1.2211.00
77_A80_T1.2171.00
50_L54_A1.2081.00
31_Y41_R1.1841.00
58_A62_L1.1801.00
48_G52_G1.1731.00
25_F29_L1.1311.00
43_K47_Y1.1281.00
18_G22_T1.1131.00
49_A53_L1.1031.00
30_G51_L1.0931.00
61_I71_F1.0681.00
61_I64_G1.0581.00
66_S69_W1.0511.00
27_S52_G1.0331.00
30_G34_L1.0271.00
17_L20_F1.0211.00
20_F78_A1.0091.00
49_A83_A1.0031.00
53_L83_A0.9981.00
29_L32_E0.9981.00
30_G33_L0.9931.00
53_L76_L0.9711.00
23_S79_N0.9671.00
46_L49_A0.9601.00
34_L39_V0.9601.00
17_L21_Y0.9511.00
26_L30_G0.9481.00
33_L37_A0.9441.00
62_L66_S0.9201.00
31_Y44_A0.9071.00
23_S83_A0.8931.00
39_V43_K0.8901.00
51_L54_A0.8901.00
50_L53_L0.8861.00
18_G59_I0.8691.00
78_A81_A0.8531.00
57_T71_F0.8491.00
34_L51_L0.8421.00
29_L33_L0.8311.00
55_F58_A0.8271.00
28_R86_A0.8271.00
27_S48_G0.8251.00
42_K45_L0.8181.00
35_R44_A0.8141.00
33_L36_W0.8061.00
32_E36_W0.8051.00
49_A87_V0.8031.00
23_S63_D0.7991.00
76_L80_T0.7871.00
64_G70_G0.7731.00
45_L49_A0.7711.00
23_S52_G0.7561.00
31_Y86_A0.7541.00
27_S49_A0.7531.00
31_Y45_L0.7511.00
46_L87_V0.7461.00
18_G69_W0.7461.00
52_G83_A0.7401.00
57_T61_I0.7291.00
80_T84_G0.7241.00
44_A48_G0.7211.00
26_L55_F0.6991.00
45_L87_V0.6961.00
42_K46_L0.6941.00
9_T12_L0.6941.00
74_G78_A0.6771.00
73_W76_L0.6741.00
81_A85_L0.6691.00
9_T74_G0.6661.00
24_Y86_A0.6571.00
32_E35_R0.6521.00
13_G74_G0.6481.00
22_T25_F0.6351.00
59_I69_W0.6180.99
40_S44_A0.6170.99
57_T79_N0.6070.99
56_Q79_N0.5880.99
39_V44_A0.5780.99
39_V47_Y0.5750.99
28_R31_Y0.5700.99
22_T26_L0.5600.99
38_G44_A0.5580.99
30_G52_G0.5410.99
22_T56_Q0.5390.99
34_L37_A0.5290.98
59_I63_D0.5280.98
15_D19_H0.5090.98
43_K46_L0.5050.98
64_G71_F0.5010.98
80_T83_A0.5000.98
47_Y51_L0.5000.98
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  
2pn2A 2 0.7143 2.3 0.923 Contact Map
2ls4A 1 0.2308 1.8 0.927 Contact Map
3j6dA 3 0.022 1.7 0.929 Contact Map
2kluA 1 0.2637 1.6 0.93 Contact Map
3alxA 4 0.2967 1.5 0.931 Contact Map
1vlaA 3 0.6923 1.5 0.931 Contact Map
4qtnA 3 0.6154 1.5 0.931 Contact Map
3c6fA 4 0.4615 1.4 0.932 Contact Map
4g1iA 1 0.0879 1.4 0.932 Contact Map
4mh4A 2 0.6923 1.3 0.933 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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