GREMLIN Database
RL1 - 50S ribosomal protein L1
UniProt: P13575 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 212 (200)
Sequences: 2995 (1392)
Seq/√Len: 98.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
170_S173_D4.0191.00
164_V178_I3.6411.00
70_V74_D3.3521.00
68_T71_R3.2671.00
52_S176_S3.2551.00
52_S173_D3.1531.00
23_R168_D3.1131.00
106_V146_M3.0161.00
35_L154_S2.9801.00
138_D141_D2.7981.00
70_V73_D2.7471.00
11_A171_A2.7221.00
11_A16_D2.5781.00
30_V185_L2.4031.00
14_L203_T2.3031.00
184_R188_N2.2251.00
200_Y208_A2.2211.00
63_F105_F2.2201.00
7_E175_A2.1281.00
25_T163_R1.9971.00
162_T181_I1.9661.00
20_R24_E1.9531.00
26_V167_E1.9461.00
73_D80_L1.9451.00
165_G174_I1.9231.00
96_K117_G1.9101.00
79_V99_A1.8981.00
61_V79_V1.8831.00
83_D114_D1.8561.00
94_A99_A1.8501.00
15_E170_S1.8141.00
86_S114_D1.8121.00
28_L178_I1.7881.00
140_V144_N1.7401.00
82_E111_M1.7091.00
34_D193_P1.7021.00
37_L154_S1.6641.00
172_E176_S1.6331.00
145_R149_T1.6321.00
141_D145_R1.6181.00
22_F205_M1.6011.00
6_I178_I1.5901.00
64_A69_A1.5651.00
30_V182_M1.5501.00
87_D97_D1.5061.00
18_P24_E1.5051.00
94_A97_D1.4531.00
61_V105_F1.4481.00
28_L181_I1.4151.00
81_D84_D1.4081.00
29_A202_K1.3850.99
69_A80_L1.3680.99
67_E70_V1.3630.99
10_V174_I1.3560.99
26_V203_T1.3440.99
10_V175_A1.3200.99
65_D110_P1.3160.99
203_T206_G1.3140.99
17_A206_G1.2900.99
10_V201_V1.2820.99
152_I188_N1.2820.99
65_D114_D1.2750.99
65_D82_E1.2620.99
61_V99_A1.2580.99
10_V171_A1.2570.99
30_V199_V1.2490.99
87_D96_K1.2430.99
186_H196_V1.2410.99
78_D147_K1.2350.99
14_L167_E1.2330.99
5_D8_E1.2170.99
61_V85_L1.2160.99
175_A179_D1.2130.99
71_R140_V1.1990.98
29_A161_H1.1920.98
199_V211_V1.1720.98
62_V106_V1.1710.98
59_Q101_E1.1660.98
189_L193_P1.1530.98
18_P167_E1.1410.98
83_D87_D1.1380.98
68_T137_D1.1370.98
14_L18_P1.1360.98
14_L209_V1.1320.98
102_T105_F1.1310.98
95_A98_L1.1250.98
9_A211_V1.1240.98
25_T166_A1.1210.98
184_R187_A1.1150.97
179_D183_R1.0780.97
159_T198_S1.0710.97
136_D142_T1.0560.96
173_D176_S1.0500.96
14_L17_A1.0430.96
160_F185_L1.0340.96
7_E11_A1.0310.96
95_A102_T1.0250.96
27_D163_R1.0130.96
141_D144_N1.0100.95
15_E171_A1.0060.95
198_S210_E1.0060.95
69_A73_D0.9780.95
63_F107_A0.9670.94
43_R154_S0.9550.94
31_N197_D0.9480.94
152_I184_R0.9310.93
139_V143_V0.9280.93
67_E137_D0.9270.93
46_E152_I0.9200.93
37_L158_R0.9160.92
74_D140_V0.9130.92
26_V174_I0.9040.92
57_E78_D0.8990.92
63_F85_L0.8970.92
63_F115_I0.8940.92
79_V85_L0.8920.91
17_A209_V0.8900.91
172_E175_A0.8870.91
7_E172_E0.8720.91
114_D117_G0.8570.90
68_T110_P0.8500.89
24_E167_E0.8490.89
49_V145_R0.8490.89
115_I119_L0.8470.89
79_V100_D0.8420.89
104_F146_M0.8420.89
100_D105_F0.8390.89
115_I120_G0.8370.89
69_A82_E0.8350.89
86_S115_I0.8330.88
48_V184_R0.8330.88
61_V100_D0.8300.88
35_L40_P0.8300.88
171_A175_A0.8300.88
154_S158_R0.8280.88
164_V201_V0.8270.88
189_L195_N0.8260.88
119_L122_V0.8230.88
27_D202_K0.8220.88
67_E71_R0.8190.88
28_L162_T0.8160.87
79_V94_A0.8110.87
63_F86_S0.8110.87
66_G69_A0.8060.87
104_F155_R0.8060.87
37_L43_R0.8010.86
140_V143_V0.7950.86
6_I175_A0.7950.86
30_V196_V0.7900.86
182_M199_V0.7890.86
35_L44_V0.7860.85
8_E11_A0.7850.85
178_I201_V0.7780.85
155_R159_T0.7660.84
13_A209_V0.7620.84
182_M196_V0.7610.83
72_A75_V0.7590.83
105_F115_I0.7570.83
175_A178_I0.7570.83
28_L182_M0.7560.83
4_N13_A0.7550.83
72_A76_A0.7450.82
150_V162_T0.7360.81
82_E114_D0.7350.81
15_E18_P0.7350.81
17_A24_E0.7320.81
3_D6_I0.7270.81
19_Q167_E0.7270.81
202_K208_A0.7220.80
108_E137_D0.7200.80
86_S119_L0.7140.79
20_R167_E0.7120.79
133_L139_V0.7120.79
64_A107_A0.7120.79
152_I181_I0.7040.78
154_S160_F0.6990.78
19_Q24_E0.6960.78
5_D10_V0.6940.77
6_I179_D0.6930.77
21_N179_D0.6740.75
180_V184_R0.6730.75
13_A17_A0.6720.75
44_V193_P0.6700.75
185_L196_V0.6560.73
27_D166_A0.6550.73
79_V101_E0.6550.73
40_P113_Q0.6540.73
183_R187_A0.6530.73
94_A98_L0.6520.73
17_A203_T0.6480.72
71_R74_D0.6420.72
105_F119_L0.6400.72
32_L37_L0.6340.71
6_I164_V0.6320.71
30_V181_I0.6280.70
75_V80_L0.6270.70
29_A162_T0.6250.70
40_P43_R0.6210.69
24_E206_G0.6200.69
112_M132_P0.6170.69
21_N156_D0.6150.69
10_V178_I0.6110.68
20_R205_M0.6080.68
48_V180_V0.6070.68
28_L164_V0.6030.67
30_V44_V0.6030.67
134_Q151_Q0.6020.67
71_R137_D0.6000.67
121_Q152_I0.5990.67
36_D55_G0.5990.67
66_G80_L0.5970.66
39_D43_R0.5970.66
6_I201_V0.5940.66
14_L211_V0.5930.66
14_L206_G0.5910.65
8_E13_A0.5900.65
9_A179_D0.5860.65
54_T169_M0.5840.65
11_A170_S0.5830.64
46_E188_N0.5810.64
127_G148_N0.5800.64
113_Q116_A0.5800.64
198_S206_G0.5780.64
85_L115_I0.5770.64
47_G134_Q0.5770.64
35_L43_R0.5760.64
66_G72_A0.5760.64
95_A99_A0.5760.64
64_A108_E0.5730.63
75_V140_V0.5730.63
44_V184_R0.5720.63
10_V15_E0.5720.63
59_Q126_R0.5700.63
200_Y210_E0.5670.62
171_A201_V0.5660.62
15_E173_D0.5640.62
100_D126_R0.5620.62
13_A16_D0.5600.61
29_A157_R0.5580.61
203_T208_A0.5570.61
82_E108_E0.5570.61
120_G158_R0.5570.61
112_M116_A0.5560.61
14_L26_V0.5560.61
144_N173_D0.5560.61
172_E179_D0.5560.61
47_G184_R0.5550.61
62_V69_A0.5520.60
28_L199_V0.5520.60
107_A110_P0.5510.60
10_V164_V0.5510.60
178_I182_M0.5500.60
24_E205_M0.5500.60
48_V162_T0.5490.60
128_K155_R0.5490.60
76_A80_L0.5490.60
37_L41_S0.5480.60
115_I137_D0.5480.60
30_V159_T0.5460.59
105_F114_D0.5450.59
52_S170_S0.5450.59
77_D80_L0.5430.59
65_D111_M0.5430.59
107_A111_M0.5410.59
7_E171_A0.5400.59
121_Q125_P0.5400.59
32_L35_L0.5390.58
124_G127_G0.5380.58
96_K122_V0.5370.58
24_E203_T0.5360.58
41_S192_G0.5350.58
22_F25_T0.5330.58
37_L160_F0.5320.57
95_A105_F0.5320.57
136_D139_V0.5290.57
199_V202_K0.5280.57
72_A77_D0.5270.57
75_V78_D0.5270.57
113_Q117_G0.5270.57
186_H210_E0.5260.57
52_S172_E0.5260.57
142_T146_M0.5210.56
40_P154_S0.5170.55
26_V164_V0.5160.55
131_T134_Q0.5150.55
3_D210_E0.5140.55
34_D189_L0.5120.55
182_M211_V0.5120.55
64_A68_T0.5120.55
81_D133_L0.5120.55
68_T139_V0.5110.55
58_T85_L0.5110.55
29_A134_Q0.5100.54
82_E117_G0.5090.54
32_L36_D0.5080.54
47_G151_Q0.5060.54
39_D192_G0.5060.54
146_M149_T0.5050.54
120_G127_G0.5030.53
40_P153_R0.5000.53
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  
3bboD 1 0.9575 100 0.152 Contact Map
4lq4A 1 0.9906 100 0.154 Contact Map
4reoA 1 0.9623 100 0.163 Contact Map
3j21A 1 0.9953 100 0.168 Contact Map
3qoyA 1 0.9575 100 0.169 Contact Map
4cxdu 1 0.9811 100 0.178 Contact Map
3j8g5 1 0.9575 100 0.181 Contact Map
1mzpA 1 0.9906 100 0.185 Contact Map
3j3w5 1 0.467 100 0.185 Contact Map
4cuwt 1 0.9906 100 0.195 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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