GREMLIN Database
DUF3008 - Protein of unknwon function (DUF3008)
PFAM: PF11450 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 57 (57)
Sequences: 3191 (1371)
Seq/√Len: 181.6
META: 0.932

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
7_Q50_R2.2711.00
9_A33_M2.2641.00
41_E44_D2.1431.00
14_L18_R1.9781.00
38_S41_E1.9571.00
14_L17_K1.9021.00
43_E47_S1.8451.00
5_A8_K1.7281.00
15_A21_T1.6751.00
11_G46_A1.5411.00
13_A42_L1.5191.00
5_A55_E1.5191.00
18_R39_E1.5061.00
8_K50_R1.5021.00
22_K25_E1.4051.00
12_A21_T1.4011.00
11_G15_A1.3941.00
14_L43_E1.3591.00
14_L42_L1.3291.00
5_A56_K1.3201.00
10_A33_M1.2881.00
21_T25_E1.2311.00
23_K34_A1.2291.00
48_T53_L1.2201.00
28_G32_S1.1991.00
41_E45_F1.1941.00
9_A13_A1.1821.00
33_M42_L1.1491.00
16_A23_K1.1381.00
10_A37_M1.0961.00
16_A21_T1.0771.00
4_K7_Q1.0751.00
27_K30_S1.0541.00
10_A42_L1.0531.00
16_A26_L1.0421.00
17_K39_E1.0080.99
16_A30_S1.0030.99
4_K55_E0.9950.99
37_M42_L0.9940.99
12_A30_S0.9710.99
8_K55_E0.9490.99
7_Q48_T0.9100.99
4_K53_L0.8910.99
7_Q11_G0.8820.99
53_L56_K0.8810.98
15_A20_E0.8810.98
26_L30_S0.8130.97
14_L39_E0.8030.97
40_K44_D0.7920.97
44_D47_S0.7840.97
21_T26_L0.7650.96
17_K42_L0.7640.96
4_K50_R0.7120.95
7_Q46_A0.7030.94
50_R53_L0.6960.94
16_A24_S0.6950.94
12_A16_A0.6940.94
23_K35_K0.6850.93
33_M37_M0.6600.92
49_K52_G0.6430.91
8_K12_A0.6420.91
16_A31_K0.6260.90
29_A33_M0.6250.90
26_L31_K0.6230.90
28_G31_K0.6170.89
53_L57_K0.6120.89
30_S34_A0.6050.88
13_A17_K0.5980.88
10_A14_L0.5980.88
26_L57_K0.5760.86
15_A19_G0.5750.86
3_S6_Q0.5710.85
13_A33_M0.5650.85
27_K34_A0.5630.84
25_E28_G0.5580.84
29_A32_S0.5530.83
16_A28_G0.5370.82
18_R43_E0.5330.81
32_S36_S0.5190.79
8_K11_G0.5190.79
49_K55_E0.5100.78
2_K57_K0.5050.78
11_G48_T0.5040.77
45_F48_T0.5040.77
9_A30_S0.5020.77
9_A29_A0.5000.77
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  
1bh9B 1 0.3684 14.2 0.858 Contact Map
4qq1A 1 0.8246 6.2 0.88 Contact Map
2ohwA 1 0.3333 6 0.88 Contact Map
4aybC 1 0.4035 5.5 0.882 Contact Map
2np9A 4 0.9825 3.3 0.895 Contact Map
2kfpA 1 0.3684 3.2 0.896 Contact Map
2ou5A 2 0.386 3.1 0.896 Contact Map
3uaqA 2 0.8246 2.9 0.897 Contact Map
3ewtE 1 0.2456 2.9 0.897 Contact Map
2ejqA 1 0.3509 2.9 0.898 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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