GREMLIN Database
RL23 - 50S ribosomal protein L23P
UniProt: Q06842 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 84 (80)
Sequences: 566 (293)
Seq/√Len: 32.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
42_E48_T4.0771.00
33_A36_E3.6161.00
16_D20_F2.9281.00
40_V44_E2.5321.00
24_L77_V2.4961.00
64_A76_D1.9860.98
39_D43_S1.9810.98
23_K60_A1.8360.96
34_K37_I1.7900.96
10_V83_V1.7280.95
39_D50_V1.7120.94
53_N56_I1.6360.93
18_M24_L1.6270.93
12_E41_V1.5960.92
41_V66_V1.5810.92
9_L14_A1.5020.89
13_K65_T1.4550.88
5_I44_E1.4490.88
10_V72_D1.4420.87
6_D61_E1.4190.87
8_P26_F1.3830.85
17_E73_D1.3080.82
28_V74_A1.2950.81
9_L43_S1.2850.80
22_N53_N1.2620.79
12_E22_N1.2430.78
7_Y61_E1.2290.77
19_D83_V1.2280.77
28_V49_V1.1830.75
61_E67_K1.1760.74
67_K82_G1.1750.74
6_D10_V1.1330.71
18_M67_K1.1230.71
28_V76_D1.0920.68
45_Y77_V1.0740.67
15_M83_V1.0730.67
5_I41_V1.0700.67
20_F24_L1.0330.64
75_Q79_S1.0230.63
47_V68_L1.0200.63
19_D82_G1.0080.62
36_E39_D1.0030.62
14_A29_D0.9870.60
67_K71_E0.9830.60
13_K83_V0.9680.59
49_V65_T0.9590.58
19_D32_A0.9570.58
11_T80_R0.9550.58
46_D61_E0.9280.56
8_P32_A0.9270.56
40_V58_P0.9230.55
17_E38_R0.9160.55
26_F74_A0.9140.55
47_V56_I0.8870.52
73_D79_S0.8820.52
10_V75_Q0.8610.50
16_D75_Q0.8530.50
42_E73_D0.8300.48
8_P78_A0.8300.48
49_V69_S0.8090.46
37_I54_T0.8000.45
16_D83_V0.7980.45
21_Q33_A0.7850.44
75_Q83_V0.7790.43
54_T76_D0.7790.43
46_D51_D0.7790.43
39_D52_V0.7740.43
42_E69_S0.7620.42
10_V14_A0.7620.42
22_N62_K0.7620.42
48_T69_S0.7480.41
52_V64_A0.7350.40
30_I57_T0.7260.39
41_V80_R0.7260.39
22_N45_Y0.7090.38
12_E24_L0.6880.36
46_D71_E0.6810.36
26_F78_A0.6740.35
17_E70_A0.6730.35
39_D61_E0.6660.35
39_D48_T0.6600.34
26_F46_D0.6570.34
26_F40_V0.6560.34
22_N47_V0.6540.34
27_I30_I0.6500.33
39_D69_S0.6460.33
25_Q53_N0.6420.33
79_S83_V0.6310.32
46_D50_V0.6220.31
62_K78_A0.6200.31
32_A54_T0.6180.31
15_M46_D0.6160.31
51_D77_V0.6150.31
13_K27_I0.6080.30
49_V61_E0.6060.30
19_D55_Q0.6030.30
75_Q78_A0.6000.30
35_P49_V0.5970.30
38_R52_V0.5930.29
12_E47_V0.5830.29
17_E71_E0.5760.28
17_E72_D0.5690.28
8_P45_Y0.5560.27
58_P78_A0.5540.27
6_D67_K0.5440.26
4_I61_E0.5360.26
26_F32_A0.5340.25
4_I35_P0.5290.25
52_V76_D0.5270.25
35_P48_T0.5170.24
31_D36_E0.5160.24
60_A77_V0.5150.24
9_L80_R0.5140.24
34_K58_P0.5140.24
28_V71_E0.5130.24
17_E79_S0.5090.24
6_D31_D0.5090.24
27_I63_K0.5080.24
34_K64_A0.5050.24
18_M78_A0.5000.23
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  
3zf7X 1 1 100 0.178 Contact Map
3j39X 1 1 100 0.178 Contact Map
4ujrK 1 1 100 0.185 Contact Map
4a17R 1 1 100 0.186 Contact Map
4w20X 1 1 100 0.189 Contact Map
3bboV 1 1 100 0.192 Contact Map
2go54 1 0.9643 100 0.192 Contact Map
1vx7Y 1 0.9762 100 0.199 Contact Map
3j21T 1 1 100 0.207 Contact Map
1vq8S 1 0.0119 100 0.21 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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