GREMLIN Database
RLMH - Ribosomal RNA large subunit methyltransferase H
UniProt: Q45601 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 159 (155)
Sequences: 2665 (1830)
Seq/√Len: 147.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
82_M129_K3.3661.00
19_G139_L2.4331.00
71_A104_T2.4161.00
89_A152_N2.2711.00
75_A113_L2.1891.00
6_V63_I2.1841.00
115_D119_K2.1321.00
15_Y19_G2.1111.00
150_R155_E2.0821.00
64_L120_R2.0311.00
133_P136_L2.0101.00
75_A121_A2.0101.00
91_T123_E1.9791.00
83_K123_E1.9611.00
60_G117_V1.9251.00
4_N34_D1.9051.00
64_L117_V1.9041.00
17_K21_E1.8911.00
61_D116_T1.8851.00
132_F140_I1.8601.00
68_S71_A1.8471.00
128_S132_F1.8361.00
93_D152_N1.7801.00
57_D114_S1.7691.00
60_G114_S1.7681.00
24_T33_I1.7641.00
73_V106_V1.7441.00
78_I126_S1.7331.00
84_T87_E1.6771.00
88_L148_A1.6691.00
91_T95_L1.6481.00
127_F137_M1.6351.00
57_D116_T1.6071.00
87_E129_K1.5831.00
77_A118_M1.5731.00
14_K18_Q1.5081.00
41_E62_R1.4681.00
51_D54_I1.4531.00
30_Y155_E1.4351.00
61_D65_S1.4281.00
67_I73_V1.4261.00
7_T138_R1.4221.00
16_L19_G1.4061.00
4_N102_K1.4051.00
4_N71_A1.3881.00
20_I142_V1.3661.00
72_H122_D1.3591.00
71_A102_K1.3541.00
58_K61_D1.3481.00
90_D93_D1.3301.00
93_D97_T1.3291.00
5_I141_L1.3161.00
73_V120_R1.2981.00
118_M124_K1.2981.00
31_A149_F1.2901.00
125_L130_M1.2901.00
72_H123_E1.2891.00
56_K118_M1.2881.00
63_I106_V1.2721.00
137_M140_I1.2571.00
2_N34_D1.2441.00
100_K122_D1.2391.00
54_I57_D1.2191.00
81_K87_E1.2021.00
8_I38_L1.2001.00
18_Q21_E1.1891.00
20_I24_T1.1551.00
74_I95_L1.1481.00
79_E118_M1.1471.00
20_I139_L1.1370.99
20_I35_I1.1360.99
52_M56_K1.1290.99
105_F141_L1.1170.99
75_A118_M1.1110.99
4_N36_I1.1060.99
21_E24_T1.0950.99
78_I86_E1.0870.99
16_L139_L1.0870.99
77_A124_K1.0830.99
72_H95_L1.0820.99
81_K123_E1.0780.99
75_A124_K1.0720.99
4_N104_T1.0510.99
54_I58_K1.0080.99
76_L141_L1.0020.99
116_T119_K0.9870.99
22_E26_R0.9860.99
115_D118_M0.9730.98
57_D61_D0.9610.98
83_K91_T0.9530.98
96_A152_N0.9530.98
60_G116_T0.9490.98
55_I111_L0.9460.98
5_I33_I0.9450.98
91_T94_K0.9410.98
11_L20_I0.9190.98
36_I66_K0.9160.98
37_E138_R0.9080.97
2_N32_K0.9080.97
8_I109_G0.9030.97
83_K88_L0.8990.97
30_Y150_R0.8880.97
94_K98_Y0.8790.97
110_S159_K0.8770.97
35_I138_R0.8690.97
76_L137_M0.8620.97
60_G64_L0.8610.97
70_D102_K0.8590.96
5_I145_I0.8560.96
73_V122_D0.8450.96
5_I107_I0.8440.96
69_P120_R0.8400.96
139_L142_V0.8390.96
150_R156_P0.8290.96
33_I142_V0.8220.95
14_K17_K0.8200.95
13_E19_G0.8110.95
70_D100_K0.8110.95
24_T28_S0.8090.95
85_S151_I0.8070.95
15_Y18_Q0.8030.95
27_L31_A0.7980.95
111_L159_K0.7970.95
87_E90_D0.7950.95
41_E58_K0.7930.95
2_N102_K0.7910.94
92_I148_A0.7710.94
24_T35_I0.7690.94
78_I159_K0.7630.93
56_K111_L0.7620.93
106_V113_L0.7590.93
59_E109_G0.7580.93
146_Y150_R0.7530.93
52_M111_L0.7530.93
90_D94_K0.7520.93
53_K56_K0.7420.92
82_M126_S0.7330.92
27_L149_F0.7310.92
75_A106_V0.7200.91
86_E89_A0.7150.91
50_Q54_I0.7110.91
53_K57_D0.7110.91
4_N68_S0.7090.91
127_F130_M0.7000.90
74_I91_T0.6990.90
88_L130_M0.6980.90
6_V104_T0.6940.90
41_E55_I0.6920.89
74_I103_V0.6900.89
125_L141_L0.6840.89
76_L127_F0.6830.89
78_I110_S0.6810.89
92_I103_V0.6800.89
27_L145_I0.6790.89
117_V120_R0.6650.88
126_S129_K0.6630.87
136_L139_L0.6630.87
18_Q22_E0.6630.87
56_K109_G0.6600.87
86_E151_I0.6570.87
96_A153_R0.6570.87
81_K129_K0.6570.87
74_I125_L0.6570.87
79_E124_K0.6530.87
23_Y139_L0.6520.87
73_V104_T0.6500.86
11_L16_L0.6490.86
121_A124_K0.6490.86
92_I96_A0.6460.86
67_I71_A0.6370.85
43_A55_I0.6340.85
93_D96_A0.6330.85
83_K130_M0.6320.85
26_R146_Y0.6240.84
130_M140_I0.6220.84
85_S89_A0.6200.84
110_S137_M0.6190.84
83_K87_E0.6190.84
151_I158_H0.6160.83
3_I31_A0.6160.83
13_E16_L0.6140.83
21_E25_K0.6120.83
12_K135_Q0.6110.83
12_K40_D0.6100.83
43_A156_P0.6080.82
78_I124_K0.6020.82
68_S102_K0.6000.82
44_P110_S0.5980.81
16_L136_L0.5970.81
74_I123_E0.5970.81
136_L140_I0.5880.80
81_K91_T0.5860.80
148_A152_N0.5840.80
23_Y144_Q0.5840.80
106_V117_V0.5810.80
72_H98_Y0.5810.80
96_A149_F0.5810.80
31_A96_A0.5780.79
82_M128_S0.5700.78
35_I142_V0.5660.78
3_I149_F0.5640.78
83_K125_L0.5630.77
88_L125_L0.5600.77
68_S104_T0.5600.77
24_T142_V0.5570.77
133_P137_M0.5530.76
62_R65_S0.5530.76
8_I63_I0.5530.76
77_A121_A0.5510.76
72_H100_K0.5500.76
127_F140_I0.5500.76
9_G138_R0.5460.75
58_K62_R0.5460.75
25_K29_A0.5450.75
45_E51_D0.5450.75
38_L63_I0.5420.75
149_F153_R0.5390.74
7_T37_E0.5360.74
53_K115_D0.5300.73
89_A93_D0.5220.72
95_L100_K0.5190.72
141_L145_I0.5180.71
26_R138_R0.5120.71
73_V121_A0.5110.70
86_E90_D0.5080.70
11_L17_K0.5080.70
38_L62_R0.5080.70
74_I105_F0.5080.70
6_V106_V0.5060.70
55_I58_K0.5030.69
11_L138_R0.5020.69
97_T100_K0.5000.69
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  
1to0A 2 0.9623 100 -0.002 Contact Map
4fakA 2 1 100 0.007 Contact Map
1ns5A 2 0.9686 100 0.022 Contact Map
1o6dA 2 0.9057 100 0.048 Contact Map
3oiiA 2 0.8302 99.7 0.664 Contact Map
3o7bA 2 0.8428 93.3 0.897 Contact Map
1oy5A 2 0.9182 92.1 0.901 Contact Map
3ky7A 2 0.8742 92 0.902 Contact Map
3knuA 2 0.9119 91.8 0.902 Contact Map
3iefA 2 0.9245 91.6 0.903 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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