GREMLIN Database
RL13 - 50S ribosomal protein L13
UniProt: Q9HQJ3 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 145 (136)
Sequences: 430 (292)
Seq/√Len: 25.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
30_A101_V4.8811.00
14_A44_A4.2681.00
79_F83_I4.1261.00
79_F132_L3.7301.00
14_A38_V3.6411.00
78_I136_S3.2861.00
41_A103_V3.0271.00
19_M82_A2.9931.00
26_V79_F2.9161.00
38_V79_F2.7290.99
134_E138_E2.6540.99
30_A87_L2.5640.99
83_I101_V2.5630.99
31_L97_A2.4450.99
46_I135_V2.2730.98
57_Y82_A2.1660.97
10_V36_V1.9810.95
104_Y111_E1.8290.92
58_R62_N1.7390.90
29_R32_A1.7160.89
15_R43_Q1.5900.85
64_G67_R1.5780.85
35_R100_S1.5660.84
19_M57_Y1.4700.80
37_A111_E1.3640.75
53_V130_V1.3580.74
46_I53_V1.3260.73
118_G122_D1.3180.72
44_A57_Y1.2910.71
87_L98_L1.2880.70
38_V137_E1.2540.68
10_V13_D1.2370.67
27_A97_A1.2320.67
38_V90_K1.2260.66
52_D56_T1.2070.65
21_R40_N1.1940.64
119_T123_R1.1820.64
109_M132_L1.1730.63
29_R36_V1.1640.62
130_V135_V1.1470.61
135_V139_L1.1470.61
27_A31_L1.1380.61
22_V79_F1.1370.61
28_E31_L1.1360.60
40_N43_Q1.1320.60
80_K87_L1.0890.57
61_A70_Y1.0890.57
50_E134_E1.0700.56
84_R106_G1.0640.55
24_S43_Q1.0580.55
8_A12_V1.0560.55
85_G106_G1.0470.54
45_V119_T1.0150.52
104_Y110_D1.0110.52
72_P107_N1.0080.51
39_V111_E1.0080.51
50_E55_S1.0080.51
13_D134_E1.0030.51
13_D40_N1.0010.51
49_T53_V0.9750.49
60_R65_S0.9740.49
11_V107_N0.9640.48
64_G68_G0.9590.48
60_R71_Y0.9490.47
19_M46_I0.9380.46
68_G71_Y0.9370.46
87_L129_F0.9170.45
71_Y141_A0.9130.44
13_D73_K0.8980.43
61_A65_S0.8840.42
12_V36_V0.8730.42
46_I80_K0.8710.41
107_N115_V0.8680.41
47_T141_A0.8660.41
56_T98_L0.8630.41
136_S141_A0.8510.40
81_R84_R0.8470.40
137_E143_V0.8450.40
136_S140_G0.8420.39
42_E85_G0.8340.39
42_E106_G0.8200.38
39_V107_N0.8200.38
43_Q131_T0.8170.38
44_A130_V0.8160.38
33_G140_G0.8090.37
44_A66_D0.8080.37
14_A87_L0.8060.37
64_G71_Y0.8010.37
92_D95_R0.8000.37
25_N29_R0.8000.37
9_D61_A0.7960.36
134_E137_E0.7810.35
78_I82_A0.7810.35
35_R102_R0.7780.35
59_T64_G0.7780.35
21_R106_G0.7750.35
61_A128_R0.7730.35
53_V56_T0.7700.35
72_P80_K0.7680.34
47_T51_D0.7570.34
21_R81_R0.7570.34
36_V134_E0.7530.33
87_L126_T0.7530.33
98_L139_L0.7510.33
34_D49_T0.7470.33
102_R110_D0.7410.33
89_Y98_L0.7390.33
62_N70_Y0.7380.32
18_I47_T0.7380.32
49_T52_D0.7360.32
61_A64_G0.7310.32
84_R89_Y0.7310.32
118_G123_R0.7250.32
56_T133_S0.7220.31
14_A22_V0.7210.31
95_R99_D0.7180.31
30_A137_E0.7180.31
10_V32_A0.7180.31
75_P141_A0.7170.31
51_D55_S0.7100.31
17_C37_A0.7080.31
67_R98_L0.7050.30
11_V39_V0.6980.30
29_R34_D0.6970.30
27_A100_S0.6950.30
19_M79_F0.6930.30
15_R132_L0.6910.30
35_R135_V0.6910.30
66_D87_L0.6860.29
8_A34_D0.6850.29
45_V53_V0.6830.29
99_D132_L0.6820.29
18_I51_D0.6760.29
74_R141_A0.6750.29
24_S99_D0.6750.29
35_R96_E0.6730.28
43_Q87_L0.6720.28
44_A83_I0.6720.28
29_R35_R0.6690.28
11_V78_I0.6690.28
130_V137_E0.6670.28
50_E137_E0.6620.28
87_L135_V0.6580.28
30_A83_I0.6500.27
93_D97_A0.6430.27
64_G78_I0.6410.27
61_A67_R0.6390.27
95_R101_V0.6350.26
70_Y87_L0.6350.26
74_R105_V0.6340.26
18_I80_K0.6330.26
47_T123_R0.6330.26
18_I55_S0.6300.26
104_Y124_L0.6300.26
85_G88_P0.6280.26
54_F138_E0.6240.26
55_S82_A0.6220.26
106_G140_G0.6190.25
25_N28_E0.6190.25
94_G97_A0.6140.25
123_R129_F0.6090.25
8_A58_R0.6090.25
50_E135_V0.6090.25
81_R90_K0.6020.24
22_V132_L0.6010.24
34_D110_D0.6010.24
17_C22_V0.6010.24
10_V29_R0.5990.24
39_V110_D0.5980.24
68_G81_R0.5960.24
27_A81_R0.5940.24
43_Q142_N0.5820.23
75_P136_S0.5800.23
70_Y99_D0.5800.23
11_V29_R0.5780.23
93_D116_L0.5700.23
82_A113_G0.5590.22
57_Y131_T0.5580.22
120_S135_V0.5560.22
46_I107_N0.5540.22
17_C47_T0.5500.22
65_S70_Y0.5420.21
46_I130_V0.5410.21
59_T62_N0.5380.21
87_L132_L0.5380.21
107_N114_D0.5370.21
103_V142_N0.5350.21
25_N109_M0.5350.21
71_Y127_I0.5340.21
47_T124_L0.5330.21
17_C141_A0.5320.21
15_R40_N0.5280.21
11_V116_L0.5270.21
37_A102_R0.5210.20
30_A103_V0.5180.20
133_S139_L0.5140.20
95_R102_R0.5090.20
18_I123_R0.5080.20
133_S142_N0.5080.20
12_V26_V0.5070.20
45_V51_D0.5070.20
36_V115_V0.5020.20
55_S135_V0.5000.19
89_Y127_I0.5000.19
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  
1vq8J 1 0.9793 100 0.28 Contact Map
4cuwO 1 0.9655 100 0.301 Contact Map
4ujrB 1 0.9655 100 0.304 Contact Map
3j39O 1 0.9931 100 0.306 Contact Map
4w20O 1 0.9655 100 0.312 Contact Map
3j61O 1 1 100 0.312 Contact Map
4a17I 1 0.9724 100 0.317 Contact Map
1vx7K 1 0.9724 100 0.319 Contact Map
3zf7O 1 0.9586 100 0.335 Contact Map
1j3aA 1 0.8483 100 0.345 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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