GREMLIN Database
RLME - Ribosomal RNA large subunit methyltransferase E
UniProt: P0C0R7 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11507
Length: 209 (194)
Sequences: 2179 (1304)
Seq/√Len: 93.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
43_Q72_Q4.9471.00
29_K37_F4.5421.00
162_V203_V4.4491.00
69_V122_M3.0561.00
119_Q156_A2.9921.00
36_W68_Y2.8751.00
25_Q29_K2.8631.00
40_D68_Y2.6951.00
66_S93_V2.6291.00
183_T206_G2.5751.00
147_A161_F2.2341.00
42_I188_R2.1871.00
60_A81_A2.1401.00
103_E107_K2.1161.00
152_R181_L2.1031.00
56_V118_V2.0851.00
46_D188_R2.0801.00
66_S81_A2.0431.00
189_K193_S2.0211.00
94_D112_R1.9941.00
73_I79_I1.9751.00
98_G105_V1.9731.00
33_S64_G1.9551.00
16_E196_R1.9251.00
70_V93_V1.8491.00
60_A87_M1.8401.00
155_L182_F1.8211.00
86_P97_Q1.8001.00
42_I48_L1.7771.00
100_F150_M1.7611.00
25_Q28_K1.7141.00
155_L159_G1.7031.00
178_I204_A1.6521.00
184_K205_T1.6171.00
175_L179_R1.5781.00
66_S95_F1.5651.00
148_L178_I1.5521.00
44_Q72_Q1.5511.00
188_R203_V1.5161.00
160_S205_T1.4941.00
78_R94_D1.4671.00
129_M166_F1.4631.00
108_A111_E1.4260.99
48_L160_S1.4180.99
110_L153_D1.4070.99
15_Q19_S1.4060.99
22_Y191_D1.3980.99
174_Y178_I1.3940.99
107_K111_E1.3930.99
144_V163_V1.3680.99
81_A87_M1.3580.99
113_V118_V1.3550.99
186_K205_T1.3460.99
104_L108_A1.3310.99
132_T135_V1.3210.99
178_I202_I1.3140.99
85_L128_N1.3140.99
55_V73_I1.3020.99
152_R177_E1.2990.99
108_A112_R1.2980.99
25_Q37_F1.2910.99
17_H23_V1.2790.99
56_V109_L1.2610.99
78_R116_S1.2600.99
159_G182_F1.2590.99
58_L147_A1.2580.99
135_V138_P1.2280.98
31_L71_T1.2270.98
42_I203_V1.2160.98
172_D176_R1.2140.98
31_L37_F1.1970.98
125_M147_A1.1970.98
60_A66_S1.1960.98
167_Q200_V1.1910.98
43_Q49_F1.1740.98
74_G77_G1.1680.98
40_D44_Q1.1670.98
46_D205_T1.1440.97
32_R67_Q1.1390.97
137_I141_M1.1290.97
110_L154_V1.1170.97
145_E177_E1.1150.97
49_F72_Q1.1010.97
137_I168_G1.1010.97
81_A95_F1.0930.97
192_S201_Y1.0850.97
55_V69_V1.0820.96
98_G108_A1.0780.96
49_F53_M1.0780.96
178_I185_V1.0660.96
56_V150_M1.0500.96
54_T118_V1.0380.96
90_I93_V1.0330.95
46_D186_K1.0320.95
31_L40_D1.0230.95
59_G125_M1.0130.95
144_V165_V1.0130.95
101_R146_L1.0080.95
175_L187_V1.0070.95
170_G173_E1.0030.95
52_G120_V1.0020.95
36_W40_D0.9980.94
40_D71_T0.9410.93
137_I171_F0.9300.92
43_Q68_Y0.9160.92
24_Q27_Q0.9160.92
140_A198_R0.9090.91
176_R180_S0.8980.91
79_I93_V0.8970.91
32_R89_P0.8880.90
42_I162_V0.8870.90
150_M154_V0.8870.90
134_A138_P0.8850.90
24_Q28_K0.8770.90
48_L120_V0.8750.90
60_A95_F0.8720.89
40_D72_Q0.8640.89
18_F23_V0.8620.89
53_M119_Q0.8530.88
90_I95_F0.8510.88
79_I83_D0.8500.88
82_C105_V0.8480.88
100_F106_M0.8410.88
106_M153_D0.8370.87
162_V188_R0.8340.87
163_V174_Y0.8320.87
33_S201_Y0.8300.87
47_K50_K0.8300.87
143_L147_A0.8280.87
56_V121_V0.8240.87
126_A129_M0.8220.86
129_M140_A0.8210.86
171_F175_L0.8140.86
66_S87_M0.8120.86
171_F187_V0.8090.86
140_A201_Y0.8070.85
50_K53_M0.8050.85
80_I118_V0.8040.85
49_F122_M0.8000.85
40_D43_Q0.7990.85
19_S23_V0.7960.85
78_R114_G0.7930.84
193_S198_R0.7880.84
36_W64_G0.7860.84
158_G183_T0.7830.84
73_I77_G0.7790.83
18_F21_K0.7780.83
46_D203_V0.7700.83
49_F160_S0.7640.82
144_V174_Y0.7640.82
107_K110_L0.7600.82
21_K25_Q0.7570.82
126_A166_F0.7560.81
56_V154_V0.7540.81
52_G77_G0.7540.81
158_G195_A0.7520.81
109_L113_V0.7510.81
31_L36_W0.7510.81
120_V160_S0.7480.81
96_L122_M0.7450.81
84_L128_N0.7440.80
129_M198_R0.7340.80
167_Q171_F0.7340.80
89_P92_G0.7300.79
31_L67_Q0.7300.79
54_T116_S0.7270.79
17_H196_R0.7270.79
57_D66_S0.7200.78
70_V92_G0.7180.78
23_V27_Q0.7170.78
80_I109_L0.7140.78
171_F202_I0.7100.77
118_V154_V0.7080.77
160_S206_G0.7040.77
56_V113_V0.6980.76
146_L149_E0.6970.76
84_L87_M0.6950.76
70_V79_I0.6950.76
52_G55_V0.6940.76
181_L207_R0.6860.75
106_M150_M0.6770.74
149_E153_D0.6770.74
32_R87_M0.6760.74
81_A93_V0.6760.74
187_V200_V0.6730.73
126_A201_Y0.6700.73
102_D105_V0.6660.73
175_L202_I0.6650.72
41_E192_S0.6650.72
26_A29_K0.6640.72
165_V202_I0.6630.72
34_R38_K0.6630.72
16_E23_V0.6610.72
16_E19_S0.6610.72
77_G138_P0.6610.72
165_V187_V0.6590.72
98_G104_L0.6590.72
113_V117_K0.6550.71
106_M110_L0.6550.71
119_Q128_N0.6540.71
161_F165_V0.6530.71
127_P192_S0.6530.71
158_G206_G0.6500.71
43_Q48_L0.6500.71
148_L161_F0.6490.71
14_L23_V0.6460.70
185_V204_A0.6460.70
87_M95_F0.6440.70
46_D165_V0.6380.69
43_Q120_V0.6360.69
54_T80_I0.6350.69
30_G36_W0.6290.68
165_V171_F0.6240.68
135_V139_R0.6210.67
173_E176_R0.6200.67
55_V77_G0.6170.67
26_A37_F0.6150.67
134_A140_A0.6130.66
81_A84_L0.6130.66
122_M162_V0.6100.66
57_D60_A0.6080.66
191_D195_A0.6070.66
96_L108_A0.6020.65
98_G106_M0.6020.65
87_M90_I0.5990.65
177_E180_S0.5980.64
93_V96_L0.5970.64
142_Y145_E0.5960.64
165_V200_V0.5950.64
59_G65_W0.5950.64
65_W136_D0.5950.64
176_R179_R0.5910.63
168_G171_F0.5860.63
49_F76_K0.5860.63
82_C150_M0.5850.63
117_K122_M0.5850.63
134_A198_R0.5830.62
127_P140_A0.5770.62
33_S36_W0.5750.61
52_G69_V0.5740.61
68_Y101_R0.5730.61
195_A200_V0.5720.61
123_S147_A0.5710.61
59_G123_S0.5650.60
187_V202_I0.5640.60
36_W67_Q0.5620.60
61_A85_L0.5590.59
160_S203_V0.5580.59
148_L182_F0.5570.59
64_G67_Q0.5560.59
54_T78_R0.5560.59
121_V151_C0.5560.59
177_E181_L0.5540.59
16_E129_M0.5490.58
73_I81_A0.5490.58
141_M144_V0.5460.57
35_A193_S0.5440.57
172_D175_L0.5440.57
61_A95_F0.5430.57
112_R116_S0.5430.57
117_K154_V0.5430.57
16_E21_K0.5420.57
21_K24_Q0.5420.57
35_A98_G0.5410.57
17_H85_L0.5360.56
41_E45_S0.5310.55
46_D76_K0.5250.55
139_R204_A0.5240.54
64_G201_Y0.5240.54
98_G203_V0.5220.54
96_L172_D0.5220.54
15_Q18_F0.5210.54
53_M120_V0.5200.54
34_R37_F0.5170.53
69_V74_G0.5150.53
51_P91_V0.5140.53
33_S37_F0.5140.53
158_G207_R0.5140.53
117_K156_A0.5140.53
127_P166_F0.5120.53
192_S197_S0.5110.53
67_Q90_I0.5100.52
141_M145_E0.5100.52
33_S141_M0.5080.52
54_T156_A0.5070.52
38_K164_K0.5060.52
48_L51_P0.5040.52
80_I83_D0.5030.51
125_M143_L0.5030.51
80_I96_L0.5020.51
62_P65_W0.5000.51
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  
3r24A 1 0.8086 100 0.363 Contact Map
4v0qA 2 0.9043 100 0.399 Contact Map
2xyqA 1 0.8134 100 0.446 Contact Map
4n49A 1 0.9952 100 0.447 Contact Map
4k6mA 2 0.9139 100 0.464 Contact Map
2px2A 1 0.8947 100 0.473 Contact Map
4r8rA 1 0.933 100 0.502 Contact Map
3lkzA 1 0.8708 100 0.503 Contact Map
1ej0A 1 0.8612 100 0.556 Contact Map
2nyuA 1 0.8373 100 0.589 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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