GREMLIN Database
PSD2 - Protein of unknown function (DUF1585)
PFAM: PF07624 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 74 (74)
Sequences: 74178 (44860)
Seq/√Len: 5214.8
META: 0.993

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
66_L70_K2.5831.00
53_D67_G2.3131.00
6_D10_E2.0671.00
18_R21_Q1.9481.00
55_A59_Y1.8921.00
49_A53_D1.8521.00
57_D63_S1.8371.00
3_T17_A1.8031.00
24_R51_V1.6801.00
23_V59_Y1.6371.00
25_T29_K1.6331.00
63_S66_L1.5591.00
20_D55_A1.5061.00
46_A49_A1.4831.00
32_T38_G1.4581.00
27_T51_V1.4581.00
7_G10_E1.4091.00
63_S67_G1.3881.00
53_D70_K1.3541.00
60_R63_S1.3191.00
32_T39_L1.3021.00
54_A64_L1.2891.00
5_F10_E1.2601.00
19_P23_V1.2591.00
62_S66_L1.2501.00
5_F14_A1.2401.00
5_F11_L1.2341.00
13_Q16_L1.2301.00
29_K32_T1.2301.00
51_V55_A1.2291.00
67_G70_K1.2251.00
16_L19_P1.2161.00
37_R43_D1.2161.00
9_A13_Q1.2011.00
28_E39_L1.1111.00
8_P12_R1.1001.00
3_T18_R1.0921.00
24_R48_R1.0891.00
53_D56_A1.0881.00
52_R56_A1.0851.00
46_A73_P1.0781.00
45_P49_A1.0711.00
53_D57_D1.0611.00
31_L39_L1.0461.00
57_D60_R1.0071.00
57_D67_G0.9991.00
27_T64_L0.9871.00
49_A52_R0.9841.00
9_A12_R0.9641.00
26_L61_F0.9491.00
39_L47_V0.9451.00
31_L47_V0.9221.00
31_L68_I0.9171.00
44_M48_R0.8981.00
10_E13_Q0.8951.00
28_E32_T0.8831.00
14_A17_A0.8831.00
46_A72_D0.8801.00
52_R55_A0.8791.00
31_L73_P0.8681.00
23_V51_V0.8611.00
24_R28_E0.8541.00
26_L64_L0.8401.00
13_Q17_A0.8391.00
10_E14_A0.8251.00
15_L22_F0.8191.00
28_E44_M0.7961.00
31_L35_L0.7881.00
51_V54_A0.7831.00
66_L69_V0.7551.00
20_D52_R0.7501.00
48_R52_R0.7481.00
21_Q24_R0.7331.00
27_T50_I0.7281.00
30_L68_I0.7241.00
54_A59_Y0.7201.00
20_D24_R0.7081.00
12_R16_L0.7081.00
48_R51_V0.7031.00
3_T14_A0.7011.00
21_Q25_T0.6871.00
54_A67_G0.6791.00
42_Y46_A0.6761.00
47_V51_V0.6741.00
11_L15_L0.6581.00
56_A59_Y0.6561.00
31_L46_A0.6461.00
20_D23_V0.6441.00
53_D63_S0.6411.00
27_T31_L0.6361.00
50_I67_G0.6201.00
54_A60_R0.6111.00
25_T28_E0.5991.00
30_L65_V0.5941.00
14_A18_R0.5891.00
23_V54_A0.5841.00
30_L34_A0.5821.00
69_V72_D0.5771.00
6_D9_A0.5671.00
27_T47_V0.5611.00
61_F65_V0.5591.00
30_L61_F0.5571.00
8_P11_L0.5571.00
35_L68_I0.5541.00
35_L39_L0.5521.00
45_P48_R0.5461.00
22_F25_T0.5301.00
25_T32_T0.5231.00
17_A20_D0.5171.00
32_T61_F0.5041.00
37_R40_E0.5001.00
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  
3pruC 1 0.8919 53.4 0.792 Contact Map
3osjA 1 0.8919 48.4 0.798 Contact Map
4rcnA 6 0.9865 33.6 0.816 Contact Map
2ky4A 1 0.8919 32.7 0.817 Contact Map
3nphB 1 0.8108 30.7 0.819 Contact Map
3gf3A 4 0.9865 25.1 0.827 Contact Map
3u9rB 5 0.9865 21.5 0.832 Contact Map
3ohwB 1 0.7432 20.7 0.834 Contact Map
1vrgA 4 0.9865 19.5 0.835 Contact Map
1pixA 4 0.9865 16.2 0.841 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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