GREMLIN Database
RL23 - 50S ribosomal protein L23
UniProt: P42924 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 95 (89)
Sequences: 2440 (1326)
Seq/√Len: 140.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
39_V56_I3.4151.00
10_R29_E3.1581.00
32_V58_N2.5821.00
61_G75_R2.5421.00
57_M80_I2.4341.00
52_D84_T2.4221.00
59_Y76_R2.4051.00
29_E76_R2.1151.00
50_K88_K2.1041.00
56_I77_R2.0621.00
25_K80_I1.8991.00
63_S72_M1.8901.00
50_K84_T1.8781.00
84_T87_S1.8431.00
9_K31_D1.7331.00
17_S27_T1.6791.00
52_D82_K1.6411.00
59_Y78_K1.6241.00
63_S70_T1.6101.00
12_V29_E1.5721.00
66_V69_Y1.5611.00
55_N82_K1.4881.00
4_P45_S1.4821.00
35_N38_E1.4071.00
37_T41_D1.3931.00
32_V75_R1.3621.00
5_R46_I1.3601.00
41_D45_S1.3511.00
8_L46_I1.3431.00
38_E41_D1.2951.00
30_V39_V1.2621.00
9_K29_E1.2401.00
61_G72_M1.2211.00
24_K88_K1.2051.00
26_Y90_I1.1681.00
72_M75_R1.1570.99
58_N75_R1.1380.99
24_K89_E1.1120.99
12_V27_T1.1050.99
44_E50_K1.0730.99
83_L88_K1.0650.99
37_T40_K1.0570.99
27_T80_I1.0550.99
65_R70_T1.0530.99
24_K87_S1.0520.99
14_T18_A1.0230.99
29_E74_S0.9860.98
25_K82_K0.9840.98
8_L43_V0.9650.98
84_T88_K0.9650.98
13_I18_A0.9580.98
20_L27_T0.9530.98
48_G88_K0.9390.98
25_K55_N0.9310.98
51_V54_V0.8580.96
18_A21_M0.8520.96
57_M78_K0.8510.96
43_V51_V0.8490.96
52_D85_A0.8370.95
4_P7_V0.8280.95
29_E78_K0.8240.95
60_K76_R0.8150.95
48_G87_S0.8080.94
32_V74_S0.8030.94
66_V71_G0.7950.94
45_S48_G0.7840.93
43_V81_V0.7840.93
28_F90_I0.7820.93
52_D55_N0.7590.92
16_R19_D0.7580.92
25_K53_K0.7490.92
29_E32_V0.7430.92
20_L25_K0.7400.91
38_E42_A0.7390.91
18_A93_F0.7280.91
35_N54_V0.7250.91
19_D22_T0.7240.90
6_D9_K0.7120.90
60_K75_R0.7050.89
44_E51_V0.7000.89
42_A79_A0.6790.87
43_V54_V0.6740.87
26_Y89_E0.6720.87
21_M93_F0.6680.87
63_S66_V0.6620.86
43_V46_I0.6550.85
11_P49_V0.6540.85
52_D83_L0.6520.85
64_K71_G0.6480.85
60_K74_S0.6450.85
19_D91_E0.6440.85
62_K73_T0.6440.85
85_A88_K0.6410.84
21_M92_I0.6390.84
40_K44_E0.6240.83
17_S65_R0.6170.82
90_I93_F0.6170.82
61_G73_T0.6140.82
4_P41_D0.6100.81
24_K52_D0.6090.81
20_L23_E0.6060.81
19_D23_E0.6030.80
17_S46_I0.6000.80
20_L80_I0.5980.80
5_R9_K0.5860.79
5_R41_D0.5850.78
35_N41_D0.5760.77
36_K65_R0.5710.77
67_G71_G0.5660.76
12_V17_S0.5660.76
34_A42_A0.5650.76
59_Y73_T0.5620.76
43_V90_I0.5600.75
15_E91_E0.5480.74
88_K91_E0.5450.73
69_Y91_E0.5430.73
33_R77_R0.5400.73
52_D88_K0.5380.72
7_V43_V0.5360.72
38_E45_S0.5320.72
54_V81_V0.5310.72
26_Y93_F0.5290.71
56_I79_A0.5260.71
7_V42_A0.5230.70
57_M60_K0.5220.70
44_E54_V0.5210.70
89_E92_I0.5200.70
18_A27_T0.5200.70
60_K63_S0.5190.70
66_V70_T0.5110.69
64_K73_T0.5090.68
11_P67_G0.5040.68
13_I16_R0.5010.67
24_K84_T0.5000.67
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  
2zjrQ 1 0.9684 100 0.128 Contact Map
3j3wT 1 0.9895 100 0.133 Contact Map
4btdX 1 0.9579 100 0.151 Contact Map
4tp9T 1 0.9368 100 0.174 Contact Map
3j39X 1 0.8526 99.9 0.292 Contact Map
4a17R 1 0.8632 99.9 0.299 Contact Map
1vx7Y 1 0.8526 99.9 0.304 Contact Map
4ujrK 1 0.8632 99.9 0.309 Contact Map
2go54 1 0.8211 99.9 0.309 Contact Map
3zf7X 1 0.8632 99.9 0.313 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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