GREMLIN Database
RL27 - 50S ribosomal protein L27
UniProt: P05657 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 94 (83)
Sequences: 2025 (715)
Seq/√Len: 78.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
29_L49_R3.4771.00
61_R65_D3.3391.00
33_R39_V3.2121.00
33_R43_S2.8591.00
60_G70_K2.8051.00
40_T43_S2.7321.00
59_V67_L2.2081.00
31_A46_Y2.0641.00
54_Y84_R2.0331.00
33_R37_Q1.9571.00
78_E88_S1.9411.00
76_K90_Y1.9161.00
78_E90_Y1.7821.00
60_G68_F1.7261.00
38_F74_T1.6841.00
62_G66_T1.6601.00
79_R85_K1.6081.00
25_E28_R1.5951.00
46_Y53_I1.5891.00
53_I87_V1.5430.99
41_G72_D1.4970.99
53_I85_K1.4950.99
31_A77_F1.3090.98
35_D76_K1.2980.98
40_T72_D1.2460.97
80_F86_K1.2420.97
33_R75_V1.2340.97
31_A34_A1.2330.97
47_R64_D1.2090.97
49_R65_D1.1790.96
78_E86_K1.1680.96
55_P67_L1.1120.95
61_R67_L1.1100.95
51_T61_R1.1020.95
71_I91_P1.0900.94
38_F72_D1.0770.94
47_R66_T1.0740.94
33_R40_T1.0440.93
58_N71_I1.0340.93
15_V18_T1.0310.93
41_G70_K1.0160.92
39_V43_S0.9970.91
33_R45_L0.9830.91
51_T65_D0.9780.90
45_L67_L0.9450.89
12_K20_N0.9020.86
69_A89_V0.9010.86
43_S72_D0.8890.86
27_K65_D0.8730.85
54_Y61_R0.8460.83
59_V89_V0.8450.83
39_V45_L0.8380.82
67_L87_V0.8340.82
9_F35_D0.8340.82
57_E90_Y0.8200.81
52_K85_K0.8020.79
9_F13_K0.7940.79
27_K49_R0.7790.77
55_P61_R0.7750.77
81_G84_R0.7680.76
79_R86_K0.7380.73
79_R83_D0.7370.73
80_F88_S0.7370.73
79_R84_R0.7340.73
33_R38_F0.7310.73
82_R86_K0.7280.72
57_E70_K0.7250.72
74_T91_P0.7190.71
18_T21_G0.7180.71
9_F34_A0.7140.71
13_K16_G0.7140.71
76_K88_S0.7120.71
20_N24_S0.7070.70
62_G68_F0.7070.70
35_D85_K0.6940.69
34_A37_Q0.6930.69
9_F19_K0.6900.68
12_K46_Y0.6830.67
51_T54_Y0.6810.67
53_I77_F0.6770.67
80_F83_D0.6770.67
86_K90_Y0.6690.66
29_L65_D0.6480.63
31_A35_D0.6340.62
15_V19_K0.6320.61
31_A53_I0.6250.61
54_Y79_R0.6170.60
52_K65_D0.6150.59
55_P62_G0.6150.59
13_K17_S0.6130.59
37_Q43_S0.6100.59
83_D86_K0.6020.58
46_Y87_V0.6020.58
75_V87_V0.5860.56
51_T55_P0.5810.55
57_E88_S0.5790.55
50_G64_D0.5760.55
71_I90_Y0.5710.54
19_K23_D0.5710.54
60_G66_T0.5610.53
45_L75_V0.5600.52
14_G86_K0.5580.52
55_P65_D0.5540.52
17_S20_N0.5530.52
81_G85_K0.5520.51
47_R62_G0.5510.51
38_F91_P0.5500.51
19_K26_A0.5420.50
46_Y77_F0.5330.49
12_K54_Y0.5310.49
11_S14_G0.5260.48
14_G19_K0.5250.48
10_A13_K0.5200.47
23_D53_I0.5180.47
17_S21_G0.5160.47
78_E85_K0.5160.47
23_D26_A0.5130.46
45_L59_V0.5080.46
45_L77_F0.5080.46
11_S15_V0.5060.46
14_G20_N0.5060.46
55_P59_V0.5010.45
34_A46_Y0.5010.45
55_P58_N0.5000.45
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  
3bboX 1 0.9043 100 0.064 Contact Map
4rb60 1 0.883 100 0.095 Contact Map
3j7yW 1 0.7872 100 0.109 Contact Map
4kixW 1 0.8298 100 0.113 Contact Map
1vw4R 1 0.8298 100 0.114 Contact Map
1pnuU 1 0.9043 100 0.118 Contact Map
4tp9W 1 0.7979 100 0.227 Contact Map
2ba0A 1 0.5319 87.9 0.882 Contact Map
4ifdG 1 0.6277 85.3 0.886 Contact Map
2nn6I 1 0.5851 81.5 0.892 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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