GREMLIN Database
DUF3320 - Protein of unknown function (DUF3320)
PFAM: PF11784 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 50 (47)
Sequences: 5300 (3862)
Seq/√Len: 563.3
META: 0.909

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
30_E34_R2.2091.00
32_A44_A2.1941.00
16_I31_L2.0531.00
15_L39_W1.9991.00
28_E32_A1.9561.00
15_L38_A1.8081.00
23_E34_R1.7791.00
20_V24_G1.7171.00
17_A21_E1.6471.00
18_E22_V1.5831.00
36_A44_A1.5101.00
16_I35_V1.3921.00
3_F41_L1.3771.00
33_R36_A1.3771.00
26_I31_L1.3411.00
8_Y39_W1.3121.00
26_I30_E1.2631.00
15_L35_V1.2511.00
45_G48_I1.2381.00
2_E7_A1.2341.00
3_F12_L1.1001.00
13_A17_A1.0941.00
41_L48_I1.0391.00
2_E5_E1.0191.00
12_L35_V1.0151.00
29_D49_R1.0001.00
18_E21_E0.9871.00
23_E30_E0.9611.00
36_A41_L0.9611.00
11_E14_E0.9401.00
19_V23_E0.9231.00
36_A42_Q0.9101.00
19_V34_R0.8881.00
14_E17_A0.8831.00
19_V30_E0.8801.00
9_R13_A0.8751.00
18_E38_A0.8501.00
14_E18_E0.8411.00
32_A36_A0.8291.00
10_A14_E0.8061.00
19_V35_V0.8001.00
41_L44_A0.7801.00
44_A49_R0.7801.00
20_V26_I0.7701.00
29_D32_A0.7531.00
27_H30_E0.7161.00
42_Q45_G0.7081.00
30_E33_R0.7061.00
11_E17_A0.6841.00
7_A11_E0.6821.00
2_E8_Y0.6601.00
10_A13_A0.6581.00
29_D33_R0.6461.00
33_R47_R0.6421.00
35_V39_W0.6351.00
4_H8_Y0.6311.00
19_V38_A0.6111.00
10_A17_A0.6001.00
8_Y11_E0.5951.00
11_E18_E0.5801.00
19_V31_L0.5781.00
5_E8_Y0.5680.99
32_A49_R0.5400.99
7_A39_W0.5340.99
3_F48_I0.5270.99
9_R27_H0.5260.99
11_E15_L0.5210.99
22_V40_G0.5130.99
16_I20_V0.5120.99
12_L39_W0.5000.99
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  
4nmnA 3 0.94 12.9 0.809 Contact Map
1b79A 3 0.98 11.9 0.811 Contact Map
3bgwA 3 0.94 10.2 0.817 Contact Map
2ahqA 1 0.98 10 0.818 Contact Map
1knvA 4 0.44 9.4 0.82 Contact Map
2q6tA 1 0.98 9.2 0.82 Contact Map
2lznA 1 0.98 8.6 0.823 Contact Map
2r5uA 5 0.98 8.6 0.823 Contact Map
4f0zA 1 0.98 7.9 0.826 Contact Map
3gxvA 4 0.98 7.9 0.826 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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