GREMLIN Database
RL31 - 50S ribosomal protein L31e
UniProt: Q9HMN0 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 92 (78)
Sequences: 146 (100)
Seq/√Len: 11.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
34_I59_V4.7311.00
58_A61_S2.9660.95
11_V37_H2.8380.93
23_S65_N2.8100.93
42_F75_A2.7430.92
49_V73_V2.5740.89
38_L75_A2.5100.88
11_V50_R1.9820.72
55_I70_K1.9520.70
31_M34_I1.7820.63
13_V34_I1.7070.60
78_F86_V1.6800.58
19_T63_G1.4740.48
51_L55_I1.3710.43
33_I36_Q1.3650.43
32_N36_Q1.3510.42
50_R77_S1.2940.40
5_E79_A1.2680.38
26_R62_E1.2580.38
34_I49_V1.2460.37
28_G64_N1.2410.37
22_P81_D1.2300.37
17_D27_A1.2240.36
39_A48_A1.2040.36
53_P63_G1.2010.35
29_E33_I1.1630.34
19_T66_N1.1600.34
8_D74_H1.1580.34
82_G86_V1.1390.33
21_V29_E1.1150.32
14_P57_D1.1010.31
42_F71_L1.1000.31
9_R37_H1.0700.30
8_D57_D1.0690.30
12_T83_E1.0480.29
12_T72_R1.0420.29
13_V31_M1.0330.28
13_V53_P1.0110.27
7_D37_H0.9920.27
38_L55_I0.9860.27
21_V27_A0.9720.26
23_S66_N0.9650.26
55_I71_L0.9580.25
38_L50_R0.9530.25
40_K55_I0.9380.25
24_H66_N0.9250.24
13_V33_I0.9250.24
76_G83_E0.9150.24
23_S62_E0.9140.24
6_F74_H0.9080.24
65_N73_V0.8920.23
75_A78_F0.8860.23
22_P32_N0.8780.23
29_E41_Q0.8690.22
10_F54_S0.8560.22
16_R49_V0.8360.21
67_P74_H0.8340.21
38_L72_R0.8280.21
11_V41_Q0.8230.21
25_E43_A0.8230.21
12_T29_E0.8190.21
72_R78_F0.8100.20
53_P57_D0.8070.20
38_L87_E0.8050.20
47_D51_L0.8040.20
43_A62_E0.7960.20
19_T69_R0.7870.20
13_V66_N0.7840.20
13_V73_V0.7820.19
25_E28_G0.7420.18
7_D36_Q0.7390.18
21_V33_I0.7330.18
25_E39_A0.7180.18
14_P78_F0.7080.17
27_A87_E0.6940.17
24_H65_N0.6930.17
43_A68_P0.6740.16
34_I83_E0.6540.16
15_L86_V0.6510.16
31_M59_V0.6480.16
8_D19_T0.6460.16
12_T76_G0.6460.16
50_R82_G0.6420.16
20_K29_E0.6380.15
34_I50_R0.6330.15
6_F42_F0.6320.15
7_D51_L0.6320.15
22_P35_R0.6230.15
74_H87_E0.6230.15
12_T18_V0.6220.15
56_N66_N0.6130.15
14_P75_A0.6050.15
30_A73_V0.5980.14
75_A86_V0.5970.14
47_D70_K0.5930.14
27_A64_N0.5790.14
63_G69_R0.5600.14
55_I87_E0.5480.13
62_E66_N0.5460.13
24_H72_R0.5440.13
7_D55_I0.5400.13
20_K48_A0.5380.13
8_D14_P0.5380.13
7_D17_D0.5370.13
18_V21_V0.5340.13
49_V56_N0.5340.13
8_D17_D0.5330.13
46_E81_D0.5320.13
9_R79_A0.5270.13
22_P71_L0.5270.13
58_A77_S0.5250.13
21_V42_F0.5220.13
7_D65_N0.5180.13
38_L54_S0.5170.13
57_D61_S0.5150.13
83_E87_E0.5080.12
8_D75_A0.5000.12
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  
1vq8X 1 0.8913 100 0.264 Contact Map
3j21a 1 0.913 99.9 0.341 Contact Map
4a17W 1 0.9674 99.9 0.402 Contact Map
4ujrQ 1 0.9565 99.9 0.427 Contact Map
1vx77 1 0.9022 99.9 0.429 Contact Map
3j61d 1 0.9783 99.9 0.43 Contact Map
3zf7h 1 0.9783 99.9 0.438 Contact Map
4w20d 1 0.9457 99.9 0.441 Contact Map
2hw2A 1 0.5543 8.9 0.935 Contact Map
4r80A 1 0.5 4.7 0.943 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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