GREMLIN Database
RL1 - 50S ribosomal protein L1
UniProt: Q06797 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 232 (223)
Sequences: 3148 (1446)
Seq/√Len: 96.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
181_E184_K3.8011.00
175_I189_F3.5501.00
67_N187_E3.2501.00
85_K89_A3.2461.00
67_N184_K3.1211.00
83_K86_E3.1131.00
39_D179_S3.0571.00
115_V156_I3.0161.00
14_L32_K3.0051.00
50_V165_V2.8791.00
10_E13_K2.8691.00
148_E151_K2.7341.00
28_A32_K2.7121.00
85_K88_E2.6481.00
28_A182_D2.5741.00
46_F196_I2.3111.00
4_K8_Y2.2641.00
30_V216_S2.1841.00
195_T199_A2.1481.00
24_S186_V2.1231.00
103_K108_W2.1051.00
213_A221_G2.0871.00
78_F114_I2.0471.00
173_V192_M1.9601.00
5_G8_Y1.9291.00
105_Q126_K1.8961.00
31_K181_E1.8891.00
41_T174_P1.8771.00
42_V178_V1.8631.00
36_A40_A1.8581.00
7_K35_T1.8381.00
76_L94_F1.8371.00
9_V13_K1.8091.00
102_N106_Q1.8081.00
98_T123_E1.7951.00
88_E95_V1.7951.00
94_F108_W1.7771.00
49_G204_A1.7661.00
101_I123_E1.7471.00
44_V189_F1.7241.00
4_K9_V1.6871.00
52_P165_V1.6831.00
176_G185_L1.6811.00
23_V189_F1.6411.00
150_E154_G1.6161.00
97_D120_M1.5881.00
38_F218_M1.5761.00
46_F193_Y1.5711.00
151_K155_E1.5501.00
155_E160_K1.5361.00
183_E187_E1.5271.00
79_A84_A1.5261.00
34_N40_A1.5241.00
76_L114_I1.4801.00
44_V192_M1.4141.00
19_K25_E1.3680.99
27_V214_V1.3650.99
27_V185_L1.3620.99
45_A215_T1.3570.99
82_E85_K1.3450.99
163_Y199_A1.3410.99
42_V216_S1.3360.99
84_A95_V1.3360.99
22_D25_E1.3220.99
8_Y12_A1.3220.99
14_L33_T1.2930.99
30_V222_V1.2700.99
30_V178_V1.2630.99
103_K106_Q1.2550.99
46_F212_V1.2530.99
76_L100_Y1.2300.99
186_V190_T1.2240.99
27_V182_D1.2240.99
76_L108_W1.2000.98
86_E150_E1.1930.98
216_S219_G1.1920.98
30_V34_N1.1910.98
197_L209_V1.1850.98
74_R110_D1.1820.98
80_K123_E1.1820.98
16_D19_K1.1800.98
80_K119_D1.1780.98
77_V115_V1.1730.98
15_V29_L1.1620.98
22_D225_D1.1580.98
93_D157_K1.1540.98
170_N211_N1.1350.98
96_G99_D1.1330.98
45_A172_H1.1250.97
5_G9_V1.1220.97
10_E14_L1.1180.97
102_N105_Q1.1130.97
34_N178_V1.1090.97
33_T219_G1.1020.97
27_V186_V1.0960.97
7_K10_E1.0900.97
212_V224_V1.0880.97
195_T198_K1.0870.97
98_T102_N1.0830.97
80_K97_D1.0820.97
15_V21_Y1.0750.97
111_F114_I1.0700.97
200_K204_A1.0670.97
7_K11_A1.0660.97
151_K154_G1.0610.96
83_K147_F1.0600.96
31_K182_D1.0510.96
26_A224_V1.0500.96
96_G100_Y1.0370.96
78_F100_Y1.0350.96
190_T194_D1.0350.96
154_G158_A1.0320.96
184_K187_E1.0300.96
94_F100_Y1.0180.95
149_V153_I1.0060.95
41_T177_K0.9990.95
30_V33_T0.9960.95
43_E174_P0.9960.95
52_P169_G0.9910.95
104_I111_F0.9900.95
94_F103_K0.9880.95
89_A150_E0.9870.95
171_I196_I0.9790.94
146_T152_A0.9750.94
24_S28_A0.9500.93
84_A97_D0.9370.93
78_F124_V0.9290.93
94_F109_F0.9210.92
163_Y195_T0.9210.92
72_T93_D0.9210.92
82_E147_F0.9200.92
43_E215_T0.9150.92
47_R210_K0.9130.92
82_E86_E0.9110.92
182_D186_V0.9060.92
58_Q165_V0.9030.92
15_V18_S0.8910.91
20_A226_S0.8830.91
83_K119_D0.8760.90
113_V156_I0.8720.90
61_G163_Y0.8680.90
78_F116_A0.8680.90
211_N223_K0.8640.90
123_E126_K0.8590.89
21_Y29_L0.8520.89
5_G11_A0.8500.89
64_V155_E0.8450.89
25_E28_A0.8400.88
196_I209_V0.8390.88
31_K34_N0.8270.88
193_Y209_V0.8250.88
117_T147_F0.8200.87
63_V195_T0.8190.87
183_E186_V0.8160.87
40_A178_V0.8160.87
42_V185_L0.8110.87
78_F101_I0.8110.87
84_A88_E0.8090.86
113_V166_D0.8020.86
124_V128_G0.7940.85
165_V169_G0.7860.85
163_Y192_M0.7810.85
81_G84_A0.7800.84
175_I214_V0.7780.84
52_P58_Q0.7720.84
43_E177_K0.7660.83
20_A225_D0.7660.83
124_V127_I0.7660.83
33_T222_V0.7620.83
109_F114_I0.7610.83
200_K208_Y0.7580.83
44_V173_V0.7570.83
59_I204_A0.7560.83
114_I124_V0.7550.82
16_D21_Y0.7530.82
189_F214_V0.7500.82
24_S183_E0.7460.82
79_A117_T0.7460.82
150_E153_I0.7430.81
50_V59_I0.7360.81
50_V55_N0.7350.81
101_I124_V0.7340.81
94_F110_D0.7310.80
193_Y212_V0.7300.80
97_D123_E0.7290.80
127_I130_V0.7280.80
212_V226_S0.7270.80
186_V189_F0.7260.80
78_F104_I0.7250.80
29_L33_T0.7230.80
87_A91_G0.7220.80
7_K12_A0.7160.79
161_V173_V0.7080.78
46_F209_V0.7060.78
101_I127_I0.7040.78
23_V186_V0.6940.77
76_L109_F0.6930.77
7_K37_K0.6920.77
166_D170_N0.6910.77
35_T178_V0.6910.77
8_Y11_A0.6890.76
45_A173_V0.6880.76
165_V171_I0.6870.76
22_D27_V0.6820.76
72_T158_A0.6800.75
194_D198_K0.6770.75
23_V190_T0.6760.75
114_I127_I0.6760.75
44_V193_Y0.6750.75
11_A35_T0.6750.75
104_I108_W0.6750.75
87_A90_A0.6740.75
33_T40_A0.6740.75
29_L222_V0.6680.74
55_N122_G0.6660.74
79_A116_A0.6620.73
36_A218_M0.6620.73
86_E147_F0.6610.73
86_E89_A0.6580.73
54_K203_A0.6550.73
27_V189_F0.6500.72
215_T221_G0.6440.71
20_A23_V0.6320.70
156_I160_K0.6300.70
36_A178_V0.6260.69
33_T216_S0.6260.69
189_F193_Y0.6230.69
25_E29_L0.6210.69
104_I109_F0.6180.68
49_G200_K0.6160.68
51_D57_Q0.6150.68
4_K12_A0.6140.68
51_D70_G0.6140.68
63_V191_T0.6120.68
23_V214_V0.6100.67
15_V19_K0.6090.67
46_F192_M0.6070.67
40_A216_S0.6040.67
50_V58_Q0.6030.66
67_N183_E0.5980.66
54_K58_Q0.5970.66
30_V214_V0.5930.65
37_K167_K0.5920.65
35_T40_A0.5910.65
62_A195_T0.5910.65
45_A142_T0.5900.65
191_T195_T0.5900.65
67_N181_E0.5890.65
55_N165_V0.5890.65
103_K109_F0.5870.64
182_D214_V0.5860.64
94_F104_I0.5850.64
81_G95_V0.5830.64
80_K120_M0.5820.64
121_M140_P0.5820.64
62_A142_T0.5810.64
69_T180_F0.5800.63
129_R163_Y0.5800.63
171_I192_M0.5770.63
116_A119_D0.5740.63
79_A83_K0.5730.62
20_A224_V0.5720.62
30_V219_G0.5720.62
122_G125_G0.5710.62
28_A181_E0.5650.61
87_A149_V0.5640.61
9_V12_A0.5630.61
33_T220_P0.5630.61
37_K190_T0.5630.61
46_F59_I0.5600.61
55_N58_Q0.5590.61
26_A220_P0.5560.60
116_A120_M0.5560.60
27_V31_K0.5540.60
213_A223_K0.5530.60
59_I195_T0.5510.59
44_V175_I0.5490.59
56_D203_A0.5480.59
97_D117_T0.5470.59
142_T162_E0.5450.59
134_K217_T0.5440.59
79_A95_V0.5440.59
91_G95_V0.5440.59
154_G184_K0.5440.59
32_K182_D0.5430.58
51_D68_G0.5430.58
7_K13_K0.5400.58
40_A218_M0.5380.58
23_V175_I0.5360.57
194_D209_V0.5350.57
44_V212_V0.5330.57
14_L216_S0.5310.57
14_L28_A0.5310.57
16_D223_K0.5310.57
213_A225_D0.5270.56
212_V215_T0.5270.56
141_K149_V0.5260.56
128_G169_G0.5250.56
134_K156_I0.5240.56
5_G10_E0.5240.56
107_G130_V0.5220.55
94_F111_F0.5220.55
47_R170_N0.5210.55
77_V84_A0.5190.55
126_K196_I0.5180.55
63_V173_V0.5180.55
34_N219_G0.5170.55
64_V156_I0.5170.55
104_I114_I0.5150.54
78_F211_N0.5150.54
45_A169_G0.5140.54
52_P171_I0.5140.54
45_A170_N0.5140.54
122_G126_K0.5130.54
184_K209_V0.5120.54
23_V27_V0.5120.54
113_V140_P0.5120.54
12_A15_V0.5120.54
73_Q156_I0.5110.54
100_Y124_V0.5100.54
61_G199_A0.5090.54
102_N126_K0.5080.53
23_V32_K0.5070.53
15_V222_V0.5040.53
95_V99_D0.5040.53
81_G87_A0.5040.53
31_K184_K0.5040.53
10_E33_T0.5040.53
105_Q127_I0.5030.53
104_I107_G0.5030.53
45_A168_A0.5010.52
7_K40_A0.5010.52
49_G206_G0.5000.52
5_G13_K0.5000.52
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  
4reoA 1 0.9483 100 0.126 Contact Map
3qoyA 1 1 100 0.126 Contact Map
3bboD 1 0.9784 100 0.128 Contact Map
3j3w5 1 0.5172 100 0.144 Contact Map
3j8g5 1 1 100 0.144 Contact Map
4lq4A 1 0.8664 100 0.252 Contact Map
3j21A 1 0.8879 100 0.253 Contact Map
4cxdu 1 0.8621 100 0.256 Contact Map
1mzpA 1 0.8836 100 0.263 Contact Map
4w27z 1 0.8836 100 0.287 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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