GREMLIN Database
RL13 - 50S ribosomal protein L13
UniProt: P0AA10 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10874
Length: 142 (140)
Sequences: 2710 (1400)
Seq/√Len: 118.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
14_D138_Q3.1601.00
70_T90_E2.8571.00
32_L56_V2.5811.00
96_R99_R2.5601.00
64_V89_F2.5541.00
25_L64_V2.5511.00
75_Y86_Q2.4711.00
53_Y123_K2.2371.00
73_V86_Q2.2171.00
21_T61_K2.1931.00
7_K10_T2.1581.00
75_Y84_I2.0741.00
69_R89_F1.9511.00
69_R93_I1.9401.00
99_R102_E1.8621.00
29_A104_A1.8141.00
41_K52_D1.7621.00
125_Y131_N1.6931.00
18_V32_L1.6871.00
67_N71_D1.6611.00
22_G63_A1.6341.00
11_V48_V1.6341.00
35_R140_L1.6171.00
87_A92_M1.6151.00
31_E34_R1.6141.00
91_E95_R1.6041.00
125_Y132_H1.6021.00
30_T34_R1.5961.00
117_A120_R1.5411.00
35_R54_I1.5371.00
88_T91_E1.5121.00
101_I105_V1.4841.00
60_D126_A1.4801.00
35_R40_H1.4741.00
87_A95_R1.4601.00
73_V88_T1.4601.00
37_R44_Y1.4601.00
89_F100_V1.4321.00
59_A124_V1.4281.00
32_L105_V1.4121.00
13_R121_K1.4121.00
89_F93_I1.4001.00
57_L128_N1.3991.00
93_I100_V1.3961.00
76_H87_A1.3921.00
106_K119_F1.3841.00
102_E119_F1.3801.00
23_K31_E1.3631.00
74_Y89_F1.3531.00
17_V57_L1.3421.00
60_D127_G1.3411.00
49_D121_K1.3291.00
67_N70_T1.3191.00
87_A91_E1.3051.00
69_R100_V1.2961.00
23_K141_D1.2801.00
5_T47_H1.2771.00
20_A28_L1.2630.99
6_A45_T1.2620.99
21_T24_T1.2060.99
109_L118_M1.2000.99
21_T128_N1.1930.99
43_E50_T1.1390.99
17_V55_I1.1370.99
97_P126_A1.1320.99
99_R103_I1.1140.99
25_L62_V1.1060.99
59_A97_P1.1050.99
16_Y140_L1.1020.99
103_I106_K1.0840.98
109_L115_G1.0820.98
69_R90_E1.0810.98
109_L119_F1.0540.98
103_I107_G1.0370.98
119_F124_V1.0360.98
31_E140_L1.0350.98
78_T85_K1.0210.98
98_E126_A1.0070.97
24_T63_A1.0060.97
50_T121_K0.9850.97
76_H103_I0.9800.97
101_I124_V0.9620.97
40_H52_D0.9590.96
28_L32_L0.9360.96
36_L122_L0.9350.96
4_F43_E0.9240.96
62_V101_I0.9230.96
123_K131_N0.9180.95
13_R49_D0.9180.95
105_V122_L0.9170.95
6_A50_T0.9160.95
7_K48_V0.9100.95
73_V84_I0.8990.95
102_E124_V0.8990.95
28_L101_I0.8890.95
18_V28_L0.8860.95
91_E94_A0.8640.94
98_E102_E0.8590.94
34_R40_H0.8560.93
92_M96_R0.8530.93
78_T83_G0.8480.93
76_H85_K0.8450.93
117_A121_K0.8400.93
25_L89_F0.8400.93
16_Y54_I0.8380.93
32_L54_I0.8150.92
53_Y121_K0.8100.91
92_M103_I0.8030.91
102_E120_R0.7980.91
115_G118_M0.7940.91
37_R107_G0.7920.90
59_A101_I0.7770.90
132_H135_Q0.7740.89
32_L101_I0.7700.89
27_R30_T0.7550.88
20_A56_V0.7540.88
111_K115_G0.7510.88
28_L62_V0.7370.87
111_K118_M0.7340.87
60_D97_P0.7340.87
13_R53_Y0.7290.86
90_E94_A0.7200.86
113_P116_R0.7190.86
5_T8_P0.7190.86
118_M121_K0.7050.85
19_D58_N0.7020.84
40_H140_L0.6930.84
7_K11_V0.6850.83
64_V69_R0.6800.82
54_I140_L0.6780.82
72_K104_A0.6770.82
6_A48_V0.6750.82
65_T68_K0.6710.82
16_Y40_H0.6670.81
59_A98_E0.6620.81
112_G116_R0.6610.81
4_F48_V0.6610.81
8_P11_V0.6590.80
107_G111_K0.6580.80
3_T6_A0.6570.80
26_G108_M0.6520.80
4_F10_T0.6500.80
59_A126_A0.6460.79
115_G119_F0.6440.79
16_Y35_R0.6370.78
61_K127_G0.6370.78
92_M99_R0.6360.78
80_H96_R0.6260.77
18_V56_V0.6180.76
13_R41_K0.6130.75
112_G115_G0.6120.75
80_H83_G0.6110.75
98_E123_K0.6050.74
25_L101_I0.6050.74
77_H84_I0.6050.74
41_K51_G0.5980.74
44_Y47_H0.5970.74
6_A11_V0.5940.73
34_R109_L0.5920.73
56_V105_V0.5920.73
60_D128_N0.5890.73
57_L60_D0.5850.72
33_A37_R0.5840.72
2_K89_F0.5820.72
66_G72_K0.5800.71
89_F92_M0.5800.71
87_A94_A0.5770.71
24_T65_T0.5770.71
2_K5_T0.5740.71
37_R118_M0.5730.70
9_E43_E0.5710.70
51_G54_I0.5650.69
64_V100_V0.5590.69
129_E133_A0.5590.69
96_R103_I0.5570.68
119_F123_K0.5530.68
16_Y138_Q0.5500.67
25_L100_V0.5500.67
16_Y23_K0.5490.67
71_D88_T0.5480.67
32_L35_R0.5470.67
23_K28_L0.5470.67
17_V128_N0.5460.67
136_Q139_V0.5440.67
96_R102_E0.5420.66
2_K74_Y0.5410.66
31_E141_D0.5410.66
112_G118_M0.5380.66
31_E35_R0.5370.66
18_V140_L0.5360.65
41_K53_Y0.5320.65
71_D89_F0.5250.64
98_E101_I0.5240.64
56_V122_L0.5200.63
72_K100_V0.5190.63
64_V72_K0.5160.62
106_K111_K0.5160.62
93_I96_R0.5140.62
17_V21_T0.5120.62
102_E106_K0.5110.62
13_R36_L0.5090.61
77_H82_G0.5070.61
109_L112_G0.5060.61
53_Y131_N0.5060.61
55_I137_P0.5040.61
29_A101_I0.5030.61
41_K49_D0.5020.60
4_F121_K0.5010.60
93_I98_E0.5000.60
114_L117_A0.5000.60
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  
4tp9J 1 0.0141 100 0.075 Contact Map
3j3wJ 1 1 100 0.079 Contact Map
3f1fN 1 0.9648 100 0.079 Contact Map
4rb6N 1 0.9859 100 0.08 Contact Map
2zjrG 1 0.9789 100 0.081 Contact Map
3bboL 1 0.8803 100 0.085 Contact Map
3j7yK 1 0.993 100 0.116 Contact Map
1vw4H 1 0.9718 100 0.13 Contact Map
3zf7O 1 0.831 100 0.316 Contact Map
1j3aA 1 0.7254 100 0.344 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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