GREMLIN Database
RL31 - 50S ribosomal protein L31
UniProt: Q03223 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 66 (64)
Sequences: 1257 (575)
Seq/√Len: 71.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
11_K23_E5.0471.00
9_F25_G2.9711.00
14_V22_F2.7121.00
2_K6_H2.3451.00
13_T23_E2.2941.00
15_K21_E2.1651.00
20_N38_E2.0481.00
57_D61_K1.9611.00
18_C36_C1.7611.00
13_T21_E1.7561.00
10_K29_E1.7551.00
11_K25_G1.7061.00
13_T30_E1.6060.99
18_C39_C1.5820.99
49_F56_V1.4830.99
36_C39_C1.4530.99
14_V33_V1.4170.98
15_K32_R1.3570.98
46_R53_D1.3490.98
14_V24_T1.3410.98
57_D60_N1.2740.97
60_N63_Y1.1930.96
49_F53_D1.1490.95
10_K25_G1.1100.94
17_A35_I1.1020.93
43_Y50_A1.0800.93
48_K51_S1.0490.91
19_G39_C1.0340.91
19_G36_C1.0130.90
12_A29_E0.9840.89
55_R62_K0.9550.87
14_V31_V0.9510.87
12_A30_E0.9360.86
9_F48_K0.9350.86
15_K30_E0.9110.84
31_V34_E0.8760.82
46_R49_F0.8690.82
48_K52_A0.8630.81
3_A8_N0.8590.81
49_F52_A0.8540.80
51_S56_V0.8480.80
35_I50_A0.8360.79
4_G8_N0.8300.78
17_A32_R0.8250.78
58_R61_K0.8240.78
8_N29_E0.8090.77
54_G63_Y0.8080.77
35_I54_G0.8060.76
14_V21_E0.7820.74
35_I49_F0.7650.73
3_A28_K0.7570.72
12_A28_K0.7270.69
20_N36_C0.7240.68
35_I51_S0.7210.68
50_A57_D0.7140.67
17_A43_Y0.7140.67
55_R63_Y0.7040.66
35_I57_D0.6970.65
52_A60_N0.6780.63
26_S47_Q0.6730.63
14_V34_E0.6720.63
53_D60_N0.6600.61
16_C36_C0.6540.61
28_K34_E0.6460.60
20_N39_C0.6350.58
29_E33_V0.6270.57
4_G21_E0.6230.57
16_C39_C0.6220.57
20_N37_S0.6190.56
12_A26_S0.6150.56
24_T47_Q0.6040.55
47_Q62_K0.5990.54
27_V62_K0.5930.53
34_E51_S0.5920.53
8_N24_T0.5840.52
17_A33_V0.5780.51
38_E53_D0.5750.51
18_C38_E0.5650.50
17_A56_V0.5630.50
34_E62_K0.5610.49
41_P51_S0.5590.49
53_D57_D0.5570.49
41_P47_Q0.5480.48
34_E52_A0.5430.47
50_A60_N0.5410.47
3_A32_R0.5360.46
2_K23_E0.5310.46
54_G61_K0.5270.45
5_I10_K0.5260.45
17_A39_C0.5240.45
52_A57_D0.5230.45
37_S61_K0.5210.44
58_R62_K0.5150.44
53_D62_K0.5150.44
11_K31_V0.5030.42
52_A56_V0.5000.42
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  
3f1f4 1 0.4545 100 0.112 Contact Map
4rb64 1 1 100 0.122 Contact Map
1nkwY 1 1 100 0.127 Contact Map
1vs6Z 1 1 100 0.133 Contact Map
3bbo1 1 0.9848 100 0.169 Contact Map
1vw4V 1 0.6818 99.9 0.291 Contact Map
3cb4D 1 0.6212 29.9 0.905 Contact Map
1x0gA 4 0.4091 27 0.907 Contact Map
4qjty 1 0.8182 26.8 0.907 Contact Map
2apnA 1 0.3636 26.7 0.907 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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