GREMLIN Database
RL3 - 50S ribosomal protein L3
UniProt: P42920 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 209 (204)
Sequences: 3139 (1627)
Seq/√Len: 113.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
163_R166_G4.9541.00
28_I188_I3.5891.00
7_G28_I3.5891.00
111_T168_Q3.5331.00
92_E95_Q3.4781.00
120_Q164_M3.3941.00
114_S169_I3.1231.00
123_I130_R2.8981.00
57_R60_L2.7191.00
130_R133_M2.5291.00
50_Q68_H2.3141.00
41_A47_E2.2801.00
117_K164_M2.2441.00
149_V152_N2.2421.00
66_K70_A2.2241.00
28_I192_V2.1931.00
36_L80_V2.1901.00
180_D183_R2.1891.00
113_V168_Q2.1281.00
17_A21_D2.1081.00
104_A178_K2.0841.00
139_Y142_R2.0641.00
87_E90_A2.0091.00
37_Q68_H1.9551.00
8_R29_E1.9111.00
146_M154_V1.8781.00
27_V187_L1.8751.00
186_L202_V1.8121.00
175_E189_K1.7991.00
119_F161_P1.7951.00
153_R156_K1.7801.00
131_G139_Y1.7741.00
128_Q159_L1.7691.00
14_Q22_L1.7671.00
108_V202_V1.7171.00
111_T203_K1.7091.00
110_V202_V1.6901.00
192_V200_I1.6821.00
122_A143_P1.6771.00
107_I175_E1.6401.00
5_I30_A1.6311.00
168_Q201_T1.5871.00
65_E69_V1.5191.00
55_D75_A1.4831.00
79_F199_L1.4471.00
131_G142_R1.4441.00
103_S106_E1.3881.00
195_A198_S1.3861.00
38_K93_V1.3781.00
91_Y95_Q1.3741.00
126_H159_L1.3631.00
36_L52_G1.3321.00
81_K201_T1.3101.00
131_G137_S1.2820.99
125_R162_G1.2790.99
146_M158_K1.2690.99
100_E181_A1.2590.99
138_R142_R1.2560.99
55_D77_K1.2550.99
62_N65_E1.2430.99
65_E68_H1.2400.99
117_K120_Q1.2390.99
112_G198_S1.2360.99
25_V177_V1.2320.99
146_M160_L1.2320.99
173_N205_A1.2250.99
5_I97_V1.2210.99
39_K44_D1.2190.99
120_Q124_K1.2180.99
56_K61_S1.1950.99
61_S65_E1.1920.99
13_T27_V1.1880.99
31_A53_F1.1840.99
106_E204_S1.1540.99
36_L69_V1.1460.99
122_A161_P1.1450.99
58_E66_K1.1450.99
129_S132_P1.1410.99
56_K78_R1.1390.99
127_G164_M1.1230.99
115_K195_A1.1220.99
51_L83_L1.1190.98
174_L188_I1.1180.98
126_H161_P1.1000.98
6_L79_F1.0900.98
137_S140_H1.0880.98
111_T201_T1.0830.98
4_G83_L1.0780.98
36_L74_T1.0740.98
29_E184_N1.0640.98
143_P160_L1.0630.98
51_L97_V1.0550.98
172_Q206_V1.0440.98
15_V187_L1.0420.98
122_A139_Y1.0390.98
171_V174_L1.0340.97
172_Q203_K1.0330.97
37_Q44_D1.0330.97
143_P146_M1.0270.97
38_K92_E1.0260.97
163_R167_E1.0250.97
115_K196_K1.0160.97
112_G193_P1.0120.97
56_K60_L1.0110.97
133_M140_H0.9970.97
61_S69_V0.9950.97
56_K65_E0.9880.97
8_R54_D0.9870.97
124_K164_M0.9830.97
109_D172_Q0.9750.96
69_V80_V0.9740.96
174_L191_N0.9730.96
117_K124_K0.9680.96
122_A130_R0.9640.96
37_Q50_Q0.9630.96
171_V191_N0.9620.96
143_P161_P0.9590.96
74_T77_K0.9590.96
32_P184_N0.9590.96
32_P96_E0.9490.96
17_A23_I0.9460.96
34_V77_K0.9430.96
52_G77_K0.9360.95
6_L201_T0.9190.95
131_G138_R0.9160.95
128_Q143_P0.9090.95
3_K204_S0.9090.95
113_V166_G0.9060.95
17_A175_E0.8840.94
49_I91_Y0.8780.94
87_E91_Y0.8750.94
6_L199_L0.8700.93
36_L93_V0.8690.93
88_M91_Y0.8650.93
66_K76_P0.8610.93
85_G90_A0.8560.93
97_V101_I0.8500.93
142_R161_P0.8420.92
104_A179_V0.8390.92
132_P139_Y0.8290.92
30_A99_V0.8250.91
63_K66_K0.8130.91
62_N66_K0.8100.91
127_G169_I0.8030.90
122_A142_R0.8020.90
69_V74_T0.7990.90
177_V187_L0.7940.90
13_T25_V0.7880.89
111_T170_T0.7860.89
134_S150_D0.7830.89
123_I128_Q0.7810.89
120_Q163_R0.7800.89
42_E47_E0.7740.89
23_I177_V0.7720.88
108_V176_I0.7710.88
6_L81_K0.7700.88
138_R143_P0.7670.88
70_A73_E0.7660.88
8_R199_L0.7650.88
128_Q146_M0.7610.88
122_A128_Q0.7480.87
154_V160_L0.7460.87
28_I200_I0.7460.87
110_V188_I0.7410.86
179_V186_L0.7370.86
29_E32_P0.7360.86
122_A126_H0.7310.86
110_V174_L0.7300.85
61_S66_K0.7280.85
148_P152_N0.7210.85
30_A33_N0.7190.85
178_K183_R0.7150.84
101_I204_S0.7100.84
58_E70_A0.7060.84
170_T203_K0.7020.83
68_H72_A0.7010.83
114_S171_V0.6970.83
178_K187_L0.6950.83
85_G88_M0.6950.83
114_S167_E0.6940.82
86_V90_A0.6900.82
138_R149_V0.6860.82
108_V188_I0.6850.82
158_K161_P0.6840.82
69_V76_P0.6820.81
65_E80_V0.6810.81
15_V177_V0.6800.81
126_H167_E0.6740.81
30_A53_F0.6700.80
112_G200_I0.6690.80
147_G151_P0.6680.80
151_P155_F0.6660.80
180_D185_L0.6650.80
46_Y82_E0.6620.79
99_V181_A0.6580.79
36_L50_Q0.6570.79
104_A175_E0.6570.79
38_K49_I0.6530.78
30_A186_L0.6500.78
120_Q127_G0.6480.78
167_E171_V0.6480.78
129_S133_M0.6470.78
34_V52_G0.6460.78
109_D205_A0.6460.78
43_N71_K0.6400.77
132_P137_S0.6400.77
152_N158_K0.6400.77
142_R150_D0.6370.77
15_V25_V0.6370.77
122_A146_M0.6340.76
69_V77_K0.6340.76
114_S164_M0.6330.76
58_E75_A0.6310.76
26_T192_V0.6300.76
105_G175_E0.6290.76
117_K137_S0.6280.76
3_K101_I0.6270.76
78_R199_L0.6250.75
62_N67_G0.6240.75
176_I179_V0.6220.75
4_G205_A0.6220.75
172_Q205_A0.6220.75
123_I133_M0.6200.75
34_V96_E0.6200.75
8_R197_K0.6190.75
44_D50_Q0.6180.75
119_F122_A0.6140.74
25_V187_L0.6110.74
13_T24_P0.6110.74
12_M24_P0.6050.73
164_M167_E0.6050.73
44_D48_A0.6040.73
4_G11_G0.5970.72
139_Y143_P0.5940.72
56_K79_F0.5940.72
10_I29_E0.5910.71
154_V157_G0.5900.71
129_S150_D0.5890.71
35_V38_K0.5860.71
54_D199_L0.5860.71
114_S117_K0.5840.70
88_M92_E0.5820.70
126_H164_M0.5820.70
61_S64_P0.5810.70
107_I173_N0.5800.70
149_V158_K0.5790.70
137_S142_R0.5790.70
132_P138_R0.5770.70
16_F22_L0.5750.69
13_T187_L0.5750.69
150_D153_R0.5740.69
146_M204_S0.5700.69
148_P155_F0.5670.68
5_I32_P0.5670.68
123_I140_H0.5660.68
177_V189_K0.5630.68
61_S74_T0.5620.68
6_L51_L0.5610.67
72_A93_V0.5600.67
186_L200_I0.5580.67
123_I129_S0.5560.67
39_K82_E0.5560.67
138_R161_P0.5510.66
48_A82_E0.5490.66
146_M149_V0.5480.66
114_S142_R0.5470.65
180_D186_L0.5440.65
144_G160_L0.5410.65
102_F106_E0.5410.65
137_S152_N0.5390.64
19_N187_L0.5380.64
14_Q24_P0.5350.64
52_G81_K0.5310.63
102_F105_G0.5310.63
98_K101_I0.5280.63
148_P151_P0.5260.62
3_K14_Q0.5260.62
10_I173_N0.5250.62
33_N51_L0.5240.62
138_R150_D0.5220.62
130_R134_S0.5180.61
10_I185_L0.5170.61
123_I138_R0.5170.61
47_E88_M0.5170.61
67_G70_A0.5160.61
40_T48_A0.5150.61
3_K34_V0.5150.61
190_G194_G0.5140.61
34_V75_A0.5120.60
173_N196_K0.5120.60
120_Q123_I0.5120.60
187_L197_K0.5110.60
81_K168_Q0.5100.60
149_V155_F0.5100.60
99_V179_V0.5100.60
33_N99_V0.5090.60
43_N47_E0.5080.60
98_K181_A0.5070.60
99_V186_L0.5060.60
111_T206_V0.5050.59
20_G52_G0.5050.59
130_R138_R0.5030.59
135_H140_H0.5030.59
166_G195_A0.5010.59
56_K69_V0.5000.59
188_I192_V0.5000.59
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  
3j3wD 1 0.9856 100 0.018 Contact Map
1vw3C 1 1 100 0.028 Contact Map
3bboF 1 0.7273 100 0.028 Contact Map
4ce4E 1 0.9809 100 0.03 Contact Map
4tp9D 1 0.9904 100 0.031 Contact Map
3j7yE 1 0.9904 100 0.033 Contact Map
4rb6E 1 0.9665 100 0.054 Contact Map
2zjrB 1 0.9713 100 0.055 Contact Map
1vq8B 1 1 100 0.107 Contact Map
1vx7E 1 0.9904 100 0.129 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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