GREMLIN Database
RL1 - 50S ribosomal protein L1
UniProt: P96038 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 218 (204)
Sequences: 3055 (1414)
Seq/√Len: 99.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
176_Q179_D3.8471.00
170_I184_A3.4921.00
75_E79_K3.3961.00
73_Q76_Y3.3531.00
57_K182_E3.2821.00
57_K179_D3.1531.00
28_V174_S3.1071.00
112_L152_F2.9741.00
40_V160_T2.9601.00
144_D147_E2.8371.00
17_L21_N2.8131.00
75_E78_K2.7381.00
17_L177_I2.6151.00
35_V191_I2.4051.00
92_Q96_G2.3421.00
19_P207_T2.2031.00
95_Q123_R2.1701.00
13_L181_A2.1561.00
204_Y212_V2.1441.00
68_V111_F2.1011.00
93_K105_A2.0681.00
168_V187_V1.9921.00
25_R29_Q1.9671.00
30_S169_F1.9531.00
20_E176_Q1.9381.00
88_K120_L1.9311.00
31_V173_E1.9181.00
66_L84_T1.8891.00
84_T105_A1.8851.00
91_L120_L1.8721.00
33_I184_A1.7831.00
171_G180_L1.7321.00
78_K85_I1.7221.00
12_S184_A1.7161.00
146_S150_L1.6931.00
42_M160_T1.6711.00
39_E195_G1.6531.00
27_F209_M1.6511.00
151_R155_S1.6381.00
23_P29_Q1.5981.00
147_E151_R1.5951.00
178_A182_E1.5741.00
35_V188_L1.5251.00
68_V90_E1.4461.00
87_T117_S1.4411.00
69_P74_L1.4401.00
66_L111_F1.4361.00
72_Q75_E1.4271.00
33_I187_V1.4081.00
16_A180_L1.3971.00
16_A205_V1.3700.99
86_L90_E1.3550.99
34_I206_K1.3490.99
66_L90_E1.3480.99
31_V207_T1.3450.99
11_A14_K1.3390.99
92_Q95_Q1.3350.99
66_L105_A1.3330.99
190_V193_S1.3320.99
74_L85_I1.3290.99
35_V203_I1.3170.99
4_V18_S1.3120.99
5_D8_N1.3110.99
11_A216_E1.3080.99
19_P173_E1.2800.99
8_N14_K1.2750.99
207_T210_G1.2710.99
70_T120_L1.2370.99
19_P213_V1.2360.99
64_K107_Q1.2320.99
16_A177_I1.2270.99
70_T116_D1.2230.99
22_N210_G1.2070.99
83_N153_K1.2010.98
181_A185_L1.1630.98
192_E200_V1.1600.98
76_Y146_S1.1550.98
150_L154_R1.1540.98
19_P23_P1.1530.98
4_V10_E1.1300.98
108_N111_F1.1300.98
96_G104_I1.1190.98
73_Q143_A1.1100.97
67_V112_L1.1090.97
74_L87_T1.1080.97
203_I215_V1.1060.97
34_I167_Q1.1010.97
165_Q202_N1.0760.97
179_D182_E1.0730.97
23_P173_E1.0720.97
30_S172_T1.0640.97
13_L17_L1.0640.97
79_K146_S1.0630.97
16_A181_A1.0630.97
185_L189_N1.0580.97
202_N214_K1.0520.96
20_E177_I1.0490.96
87_T90_E1.0440.96
84_T93_K1.0350.96
94_L108_N1.0310.96
166_T191_I1.0290.96
158_V190_V1.0280.96
147_E150_L1.0250.96
70_T87_T1.0050.95
32_E169_F1.0030.95
36_T201_R0.9880.95
84_T106_R0.9830.95
15_L215_V0.9800.95
19_P22_N0.9580.94
31_V180_L0.9510.94
145_I149_I0.9490.94
42_M164_P0.9380.93
48_K160_T0.9330.93
106_R111_F0.9250.93
62_T83_N0.9240.93
4_V7_S0.9160.93
96_G105_A0.9090.92
74_L78_K0.9030.92
68_V113_I0.9010.92
84_T90_E0.9000.92
177_I181_A0.8990.92
10_E18_S0.8910.92
121_V126_G0.8910.92
88_K92_Q0.8870.91
110_W152_F0.8820.91
29_Q173_E0.8790.91
84_T107_Q0.8770.91
22_N213_V0.8710.91
110_W161_K0.8690.91
91_L121_V0.8560.90
53_V190_V0.8540.90
120_L123_R0.8520.90
93_K96_G0.8420.89
68_V121_V0.8420.89
72_Q76_Y0.8370.89
178_A181_A0.8370.89
32_E206_K0.8290.88
146_S149_I0.8240.88
188_L200_V0.8230.88
14_K17_L0.8220.88
51_E158_V0.8220.88
72_Q143_A0.8180.88
121_V125_L0.8180.88
91_L125_L0.8170.88
68_V91_L0.8060.87
158_V187_V0.8010.87
71_I74_L0.8000.87
35_V200_V0.7970.86
24_K173_E0.7960.86
188_L203_I0.7950.86
54_V151_R0.7930.86
13_L178_A0.7880.86
184_A205_V0.7860.86
40_V45_G0.7770.85
160_T164_P0.7760.85
40_V49_L0.7730.85
33_I168_V0.7730.85
9_L216_E0.7700.84
94_L105_A0.7680.84
181_A184_A0.7650.84
73_Q116_D0.7630.84
114_A143_A0.7600.84
77_A81_E0.7580.83
170_I205_V0.7550.83
33_I188_L0.7520.83
62_T154_R0.7490.83
49_L195_G0.7480.83
42_M48_K0.7410.82
18_S21_N0.7360.82
125_L128_A0.7310.81
22_N29_Q0.7300.81
25_R209_M0.7290.81
111_F121_V0.7290.81
156_T168_V0.7270.81
189_N193_S0.7250.81
160_T166_T0.7160.80
186_A190_V0.7110.79
161_K165_Q0.7100.79
18_S213_V0.7070.79
32_E172_T0.7010.78
11_A16_A0.6990.78
206_K212_V0.6990.78
20_E23_P0.6960.78
69_P113_I0.6900.77
9_L12_S0.6900.77
68_V94_L0.6880.77
22_N207_T0.6840.77
191_I200_V0.6790.76
45_G119_A0.6770.76
18_S22_N0.6750.76
12_S181_A0.6740.76
139_L145_I0.6720.75
25_R173_E0.6670.75
94_L111_F0.6650.75
111_F125_L0.6540.73
66_L106_R0.6530.73
194_K199_K0.6510.73
12_S205_V0.6510.73
119_A122_G0.6460.73
6_R214_K0.6450.72
29_Q210_G0.6390.72
69_P114_A0.6350.71
184_A188_L0.6340.71
94_L104_I0.6330.71
34_I168_V0.6310.71
45_G48_K0.6290.71
19_P210_G0.6260.70
44_K48_K0.6230.70
52_I190_V0.6220.70
118_M138_P0.6220.70
87_T120_L0.6210.70
12_S185_L0.6210.70
52_I140_P0.6210.70
4_V8_N0.6200.69
127_P158_V0.6160.69
95_Q128_A0.6150.69
4_V9_L0.6140.69
16_A184_A0.6110.68
113_I117_S0.6100.68
40_V48_K0.6080.68
57_K178_A0.6070.68
53_V186_A0.6070.68
24_K29_Q0.6020.67
203_I206_K0.5960.66
76_Y143_A0.5950.66
204_Y216_E0.5900.66
26_N162_D0.5900.66
49_L190_V0.5870.65
45_G160_T0.5860.65
37_F42_M0.5850.65
12_S170_I0.5850.65
204_Y214_K0.5840.65
37_F40_V0.5830.65
15_L211_K0.5800.64
26_N185_L0.5770.64
16_A20_E0.5740.64
35_V187_V0.5720.63
81_E85_I0.5710.63
178_A185_L0.5710.63
33_I170_I0.5710.63
104_I108_N0.5640.62
166_T187_V0.5620.62
152_F155_S0.5600.62
77_A80_A0.5590.61
21_N177_I0.5590.61
41_D60_E0.5580.61
86_L94_L0.5580.61
106_R132_R0.5580.61
69_P85_I0.5570.61
14_K18_S0.5560.61
76_Y79_K0.5540.61
16_A19_P0.5540.61
22_N211_K0.5530.61
42_M166_T0.5520.61
71_I85_I0.5510.60
42_M46_D0.5510.60
177_I205_V0.5490.60
29_Q209_M0.5480.60
8_N12_S0.5470.60
189_N200_V0.5470.60
95_Q125_L0.5460.60
126_G164_P0.5440.59
84_T94_L0.5430.59
70_T117_S0.5390.59
5_D214_K0.5370.58
75_E151_R0.5370.58
29_Q207_T0.5360.58
67_V74_L0.5350.58
41_D46_D0.5320.58
57_K176_Q0.5310.58
37_F41_D0.5290.57
53_V168_V0.5290.57
207_T212_V0.5290.57
94_L106_R0.5270.57
34_I163_Q0.5260.57
65_V82_P0.5250.57
35_V49_L0.5240.57
54_V154_R0.5230.56
73_Q145_I0.5230.56
113_I116_D0.5220.56
68_V191_I0.5200.56
64_K132_R0.5200.56
121_V143_A0.5180.56
9_L215_V0.5170.56
119_A143_A0.5170.56
36_T165_Q0.5160.55
39_E42_M0.5130.55
58_P175_Q0.5130.55
27_F30_S0.5130.55
5_D10_E0.5130.55
66_L93_K0.5120.55
140_P157_L0.5120.55
132_R208_T0.5100.55
35_V165_Q0.5090.54
34_I140_P0.5090.54
186_A189_N0.5080.54
71_I77_A0.5080.54
202_N210_G0.5080.54
59_P175_Q0.5050.54
134_K161_K0.5050.54
150_L179_D0.5040.54
118_M122_G0.5040.54
15_L19_P0.5040.54
32_E35_V0.5010.53
111_F120_L0.5000.53
80_A146_S0.5000.53
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 0.9633 100 0.161 Contact Map
3qoyA 1 0.9587 100 0.166 Contact Map
3bboD 1 0.9587 100 0.168 Contact Map
3j3w5 1 0.4817 100 0.187 Contact Map
3j8g5 1 0.9587 100 0.189 Contact Map
4lq4A 1 0.9541 100 0.197 Contact Map
4cxdu 1 0.9495 100 0.197 Contact Map
1mzpA 1 0.9771 100 0.202 Contact Map
3j21A 1 0.9725 100 0.202 Contact Map
4w27z 1 0.9679 100 0.218 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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