GREMLIN Database
DUF2087 - Uncharacterized protein conserved in bacteria (DUF2087)
PFAM: PF09860 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 69 (69)
Sequences: 11016 (6863)
Seq/√Len: 826.2
META: 0.897

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
28_R66_E3.8051.00
22_R41_F2.6151.00
23_F34_V2.2101.00
39_K45_Y2.1101.00
28_R68_W2.0631.00
13_L55_E1.8771.00
61_T65_G1.8491.00
18_Y22_R1.7751.00
30_T33_E1.7741.00
18_Y21_Q1.7151.00
59_D68_W1.7101.00
47_T51_Y1.6311.00
9_R55_E1.6231.00
35_N45_Y1.5981.00
9_R13_L1.5921.00
2_L15_V1.5001.00
61_T66_E1.4821.00
24_E29_Y1.4741.00
20_A57_L1.4641.00
19_L41_F1.4321.00
18_Y41_F1.4201.00
31_E35_N1.4051.00
24_E27_R1.3991.00
12_R51_Y1.3881.00
36_E39_K1.2991.00
22_R37_I1.2681.00
53_V59_D1.2491.00
42_H48_L1.2021.00
51_Y55_E1.1991.00
13_L17_R1.1981.00
36_E40_R1.1971.00
53_V58_L1.1911.00
51_Y54_D1.1751.00
34_V58_L1.1681.00
33_E36_E1.0541.00
32_K36_E1.0141.00
23_F29_Y0.9981.00
22_R40_R0.9911.00
23_F37_I0.9401.00
7_A11_K0.9191.00
27_R33_E0.9141.00
8_K11_K0.9031.00
5_I12_R0.9021.00
14_V17_R0.9011.00
5_I47_T0.9001.00
4_S7_A0.8911.00
10_K14_V0.8651.00
23_F58_L0.8591.00
19_L48_L0.8531.00
50_R60_R0.8491.00
39_K43_D0.8471.00
16_L51_Y0.8461.00
17_R20_A0.8081.00
27_R37_I0.7911.00
17_R57_L0.7891.00
25_P69_R0.7801.00
35_N46_A0.7711.00
13_L57_L0.7661.00
62_R65_G0.7311.00
16_L57_L0.7201.00
38_L48_L0.7151.00
5_I48_L0.7101.00
37_I40_R0.7031.00
5_I16_L0.6961.00
9_R12_R0.6941.00
17_R21_Q0.6921.00
63_D66_E0.6891.00
19_L22_R0.6821.00
31_E49_R0.6741.00
12_R55_E0.6731.00
6_P11_K0.6561.00
12_R19_L0.6531.00
9_R51_Y0.6521.00
50_R53_V0.6491.00
52_L57_L0.6421.00
29_Y34_V0.6231.00
28_R61_T0.6221.00
5_I51_Y0.6211.00
46_A50_R0.6101.00
56_G59_D0.6091.00
4_S11_K0.6011.00
12_R47_T0.6001.00
16_L55_E0.5961.00
52_L58_L0.5941.00
11_K15_V0.5811.00
19_L38_L0.5741.00
48_L52_L0.5711.00
20_A69_R0.5641.00
53_V56_G0.5631.00
20_A52_L0.5611.00
11_K14_V0.5541.00
29_Y37_I0.5491.00
33_E37_I0.5391.00
45_Y54_D0.5331.00
53_V60_R0.5271.00
35_N49_R0.5201.00
4_S8_K0.5131.00
7_A12_R0.5081.00
16_L20_A0.5081.00
31_E60_R0.5071.00
39_K46_A0.5031.00
5_I42_H0.5031.00
2_L19_L0.5031.00
2_L5_I0.5001.00
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  
2lnbA 1 0.9275 63.8 0.808 Contact Map
2jt1A 1 0.913 52 0.821 Contact Map
3f8mA 2 0.8406 49.8 0.824 Contact Map
3eetA 2 0.8841 48.5 0.825 Contact Map
2ra5A 2 0.087 45.1 0.829 Contact Map
1sfuA 1 0.942 42.9 0.831 Contact Map
2o03A 2 0.942 41.4 0.833 Contact Map
4mtdA 2 0.9565 39.6 0.835 Contact Map
3bwgA 2 0.942 38.5 0.835 Contact Map
3edpA 2 0.8696 36.8 0.837 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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