GREMLIN Database
DUF4089 - Protein of unknown function (DUF4089)
PFAM: PF13318 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 50 (49)
Sequences: 4157 (2535)
Seq/√Len: 362.2
META: 0.928

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
3_D18_R4.2071.00
14_D17_W2.9021.00
17_W20_A2.5061.00
2_V22_R2.3091.00
41_P44_A2.2331.00
31_L34_L2.0781.00
27_R30_R2.0241.00
27_R31_L1.7371.00
33_A37_E1.6931.00
24_N27_R1.5501.00
23_A27_R1.5131.00
28_T31_L1.4861.00
13_I21_V1.4531.00
26_E30_R1.4491.00
6_A13_I1.3901.00
33_A36_L1.2721.00
29_A33_A1.2501.00
2_V25_L1.1701.00
20_A23_A1.1671.00
4_A7_A1.1411.00
24_N28_T1.1241.00
23_A26_E1.0911.00
2_V13_I0.9611.00
5_A9_L0.9271.00
47_A50_F0.9181.00
3_D15_P0.9181.00
7_A10_G0.9071.00
9_L12_P0.8461.00
6_A9_L0.8461.00
26_E33_A0.8431.00
13_I17_W0.8261.00
6_A11_L0.8161.00
17_W28_T0.8111.00
25_L29_A0.8111.00
22_R26_E0.8001.00
15_P18_R0.7891.00
24_N31_L0.7711.00
29_A32_A0.7571.00
31_L36_L0.7541.00
34_L38_F0.7401.00
36_L39_P0.7020.99
28_T35_V0.6970.99
30_R33_A0.6900.99
7_A12_P0.6820.99
11_L17_W0.6750.99
18_R22_R0.6750.99
32_A35_V0.6690.99
17_W24_N0.6670.99
8_A29_A0.6570.99
30_R34_L0.6430.99
34_L39_P0.6360.99
20_A24_N0.6170.98
7_A25_L0.6070.98
23_A30_R0.5980.98
4_A15_P0.5920.98
9_L17_W0.5910.98
10_G36_L0.5890.98
3_D7_A0.5780.98
14_D19_P0.5740.98
6_A21_V0.5700.97
4_A46_P0.5660.97
3_D6_A0.5650.97
46_P49_V0.5570.97
5_A8_A0.5530.97
38_F43_E0.5500.97
5_A25_L0.5450.97
35_V38_F0.5430.97
19_P23_A0.5390.96
44_A50_F0.5290.96
37_E40_L0.5210.96
22_R25_L0.5180.96
14_D21_V0.5130.95
4_A8_A0.5090.95
32_A39_P0.5000.95
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  
3al0C 1 0.98 59.1 0.734 Contact Map
4wj3C 1 0.98 51.1 0.746 Contact Map
3ip4C 1 1 50.2 0.747 Contact Map
3h0lC 1 0.98 49.5 0.748 Contact Map
4n0hF 1 0.86 48 0.751 Contact Map
3kfuG 1 0.98 45.6 0.754 Contact Map
3e35A 3 0.74 14.9 0.807 Contact Map
2z6vA 1 0.98 9.4 0.823 Contact Map
2zq5A 1 0.84 9 0.825 Contact Map
3ayxA 2 1 6.8 0.835 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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