GREMLIN Database
PSD3 - Protein of unknown function (DUF1587)
PFAM: PF07626 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 65 (64)
Sequences: 43359 (18136)
Seq/√Len: 2267.0
META: 0.991

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
9_A22_P2.5031.00
9_A23_A2.4821.00
9_A21_D2.1401.00
13_R19_D2.1281.00
21_D24_D1.9621.00
8_Y56_A1.8951.00
58_K62_L1.8291.00
44_V49_L1.7501.00
51_R54_S1.7461.00
12_I59_I1.6631.00
18_L62_L1.6401.00
25_L58_K1.5301.00
45_S48_L1.5081.00
32_G41_V1.4911.00
60_A64_V1.4871.00
53_L57_E1.4571.00
47_L50_E1.3881.00
33_Y38_I1.3681.00
44_V48_L1.3361.00
6_A10_N1.2991.00
10_N14_D1.2971.00
33_Y43_S1.2741.00
27_P51_R1.2731.00
16_L59_I1.2491.00
9_A24_D1.2211.00
10_N13_R1.1921.00
8_Y12_I1.1871.00
56_A60_A1.1731.00
2_R42_L1.1631.00
26_L55_A1.1591.00
48_L52_Y1.1571.00
57_E60_A1.1301.00
16_L63_A1.0721.00
6_A36_D1.0631.00
50_E54_S1.0421.00
50_E53_L1.0221.00
58_K61_R1.0081.00
30_D43_S0.9971.00
48_L51_R0.9871.00
28_A31_S0.9751.00
43_S47_L0.9691.00
27_P48_L0.9681.00
5_R28_A0.9441.00
46_P50_E0.9421.00
25_L55_A0.9211.00
8_Y52_Y0.9081.00
54_S58_K0.8951.00
5_R29_D0.8641.00
7_E37_N0.8611.00
9_A20_V0.8581.00
38_I41_V0.8571.00
47_L51_R0.8541.00
5_R26_L0.8381.00
32_G38_I0.8311.00
18_L21_D0.7841.00
57_E61_R0.7751.00
39_A42_L0.7691.00
49_L53_L0.7351.00
40_D43_S0.7331.00
9_A13_R0.7281.00
11_T14_D0.7181.00
5_R52_Y0.7091.00
25_L54_S0.7071.00
2_R29_D0.7071.00
22_P25_L0.7051.00
17_G20_V0.6951.00
43_S50_E0.6791.00
11_T15_L0.6721.00
21_D25_L0.6721.00
20_V25_L0.6621.00
25_L51_R0.6361.00
20_V62_L0.6351.00
3_L11_T0.6341.00
1_R4_N0.6311.00
36_D39_A0.6261.00
30_D33_Y0.6071.00
18_L53_L0.5981.00
37_N42_L0.5961.00
44_V52_Y0.5961.00
1_R7_E0.5891.00
55_A59_I0.5851.00
31_S43_S0.5831.00
38_I42_L0.5771.00
31_S36_D0.5681.00
28_A33_Y0.5611.00
13_R18_L0.5491.00
49_L52_Y0.5481.00
45_S49_L0.5381.00
54_S57_E0.5341.00
29_D42_L0.5341.00
47_L54_S0.5211.00
32_G40_D0.5171.00
31_S37_N0.5161.00
33_Y40_D0.5101.00
31_S34_G0.5081.00
4_N36_D0.5001.00
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  
2ijaA 1 0.5385 11.5 0.845 Contact Map
4nv8A 2 0.5538 10.6 0.847 Contact Map
3k9gA 2 0.6615 9.4 0.851 Contact Map
4guzA 2 0.5385 8.7 0.852 Contact Map
3lnbA 1 0.2923 7.8 0.855 Contact Map
3ayfA 2 0.8923 7.6 0.857 Contact Map
3d9wA 2 0.5538 7.4 0.857 Contact Map
2fgyA 2 0.8769 7.1 0.858 Contact Map
1e2tA 5 0.6 6.1 0.862 Contact Map
1w4tA 1 0.5385 5.3 0.867 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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