GREMLIN Database
RLMJ - Ribosomal RNA large subunit methyltransferase J
UniProt: P37634 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12234
Length: 280 (271)
Sequences: 1035 (688)
Seq/√Len: 41.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
30_K36_F4.3191.00
25_I193_A4.2821.00
193_A240_M3.9661.00
89_N94_L3.0691.00
38_Y104_A2.9861.00
211_L241_I2.9671.00
24_L252_Q2.9181.00
142_A146_Q2.9151.00
27_E80_A2.7261.00
145_F172_D2.7031.00
75_P259_W2.6821.00
13_H238_S2.6781.00
222_I253_M2.5981.00
45_A123_D2.5871.00
35_P111_Q2.4861.00
2_L199_V2.4161.00
13_H226_V2.3491.00
29_L191_I2.3011.00
21_V253_M2.2981.00
16_V81_Y2.2701.00
183_G192_Y2.1831.00
43_A116_L2.1801.00
180_I194_L2.1691.00
109_R112_D2.1580.99
159_G187_F2.1530.99
7_S54_H2.1360.99
20_T78_L2.1150.99
3_S199_V2.1040.99
266_P270_G2.0000.99
29_L160_L1.9930.99
61_Y66_A1.9720.99
8_F57_R1.9370.99
117_T147_Q1.9260.99
26_I104_A1.9170.99
28_S248_K1.8940.99
69_W94_L1.8930.99
198_V236_T1.8900.99
5_R123_D1.8890.99
176_V194_L1.8780.99
124_Y139_V1.8650.98
180_I192_Y1.7990.98
25_I249_L1.7270.97
124_Y141_K1.6970.97
154_P187_F1.6840.97
113_S156_S1.6550.97
7_S52_S1.6490.97
38_Y116_L1.6380.96
225_A237_A1.6320.96
149_K186_R1.6260.96
154_P190_G1.6240.96
20_T256_V1.6160.96
123_D126_L1.5950.96
120_H123_D1.5790.96
41_T144_G1.5690.95
149_K182_E1.5630.95
36_F108_L1.5610.95
249_L253_M1.5560.95
37_L115_Q1.5280.95
47_R130_E1.5280.95
258_P262_S1.5210.95
152_L187_F1.5090.94
250_E254_N1.4990.94
261_H270_G1.4970.94
28_S31_E1.4810.94
25_I160_L1.4780.94
89_N92_G1.4710.94
22_Q25_I1.4640.93
161_I187_F1.4610.93
208_I221_Q1.4370.93
259_W263_K1.4290.93
227_L266_P1.4150.92
102_L131_F1.3960.92
37_L156_S1.3960.92
267_A270_G1.3930.92
148_L183_G1.3920.92
23_S103_I1.3740.91
196_Y239_G1.3480.90
169_M175_A1.3450.90
30_K108_L1.3420.90
154_P159_G1.3200.89
23_S84_V1.3190.89
184_Y216_I1.3050.89
21_V240_M1.3040.89
261_H265_V1.3000.89
69_W89_N1.2920.88
23_S107_L1.2910.88
226_V266_P1.2910.88
157_R189_T1.2800.88
160_L193_A1.2730.87
5_R40_D1.2580.87
140_E151_K1.2520.87
184_Y214_T1.2340.86
242_V253_M1.2190.85
2_L235_M1.2160.85
167_Y173_Y1.2120.85
65_I86_K1.1940.84
110_E136_R1.1780.83
251_Q254_N1.1600.82
71_Q263_K1.1600.82
32_K158_R1.1590.82
82_I86_K1.1590.82
3_S166_P1.1520.82
223_E273_T1.1510.82
199_V204_I1.1410.81
79_E83_N1.1380.81
84_V87_H1.1380.81
187_F190_G1.1310.80
58_T63_E1.1310.80
211_L219_I1.1220.80
26_I30_K1.1220.80
59_G62_L1.1200.80
248_K251_Q1.1110.79
2_L166_P1.0980.78
173_Y176_V1.0980.78
166_P169_M1.0940.78
38_Y114_L1.0930.78
42_H144_G1.0850.78
166_P171_T1.0730.77
148_L161_I1.0650.76
45_A126_L1.0640.76
23_S80_A1.0630.76
149_K179_G1.0390.74
124_Y128_R1.0370.74
13_H17_L1.0290.74
216_I219_I1.0210.73
102_L130_E1.0200.73
180_I211_L1.0140.73
222_I257_L1.0110.72
31_E248_K1.0100.72
63_E266_P1.0050.72
87_H106_L1.0010.72
26_I36_F0.9920.71
36_F191_I0.9890.71
24_L77_E0.9850.70
17_L222_I0.9830.70
145_F166_P0.9780.70
21_V249_L0.9770.70
82_I85_V0.9750.70
51_G56_E0.9720.69
21_V193_A0.9710.69
3_S173_Y0.9620.68
219_I243_I0.9520.68
17_L238_S0.9510.68
204_I208_I0.9500.68
5_R45_A0.9440.67
138_R142_A0.9430.67
199_V236_T0.9410.67
32_K247_W0.9390.67
2_L120_H0.9360.66
2_L34_K0.9320.66
30_K35_P0.9260.65
34_K65_I0.9260.65
74_L259_W0.9210.65
63_E67_R0.9190.65
131_F137_A0.9170.65
229_D236_T0.9150.65
5_R122_S0.9100.64
219_I240_M0.9090.64
77_E252_Q0.9080.64
225_A236_T0.9060.64
220_L250_E0.9020.63
32_K153_P0.8980.63
70_Q85_V0.8960.63
17_L257_L0.8950.63
115_Q140_E0.8910.62
47_R102_L0.8800.62
105_R134_D0.8790.61
2_L119_L0.8790.61
143_D175_A0.8780.61
178_S182_E0.8780.61
78_L259_W0.8770.61
163_I180_I0.8760.61
167_Y238_S0.8740.61
145_F175_A0.8740.61
184_Y243_I0.8690.61
7_S123_D0.8630.60
182_E186_R0.8630.60
219_I241_I0.8610.60
75_P255_N0.8610.60
261_H272_A0.8540.59
163_I179_G0.8470.59
142_A151_K0.8430.58
211_L243_I0.8420.58
167_Y176_V0.8420.58
35_P181_A0.8340.57
47_R88_F0.8320.57
102_L106_L0.8290.57
173_Y207_M0.8270.57
40_D104_A0.8240.56
173_Y235_M0.8200.56
157_R188_A0.8190.56
152_L183_G0.8170.56
119_L123_D0.8130.55
140_E146_Q0.8020.54
32_K154_P0.7940.54
134_D137_A0.7900.53
154_P158_R0.7870.53
56_E61_Y0.7860.53
53_E57_R0.7850.53
5_R8_F0.7840.53
153_P158_R0.7830.53
228_P232_R0.7830.53
159_G188_A0.7740.52
181_A184_Y0.7730.52
2_L234_G0.7700.51
199_V207_M0.7690.51
173_Y199_V0.7650.51
84_V103_I0.7640.51
166_P199_V0.7620.51
181_A214_T0.7580.50
2_L169_M0.7570.50
193_A242_V0.7560.50
245_P249_L0.7560.50
41_T163_I0.7550.50
50_L55_A0.7530.50
3_S120_H0.7520.50
17_L21_V0.7520.50
179_G183_G0.7520.50
224_L261_H0.7480.49
145_F194_L0.7420.49
121_P166_P0.7410.49
221_Q241_I0.7360.48
58_T61_Y0.7360.48
32_K244_N0.7350.48
3_S122_S0.7330.48
196_Y223_E0.7330.48
251_Q255_N0.7300.48
220_L245_P0.7300.48
207_M235_M0.7290.48
2_L58_T0.7280.47
145_F179_G0.7270.47
22_Q193_A0.7250.47
45_A54_H0.7220.47
192_Y243_I0.7210.47
89_N93_Q0.7210.47
38_Y147_Q0.7190.47
63_E265_V0.7180.47
105_R131_F0.7180.47
73_D259_W0.7170.46
53_E129_S0.7110.46
49_Q55_A0.7110.46
248_K252_Q0.7090.46
249_L258_P0.7050.45
47_R133_K0.7010.45
215_G218_K0.7000.45
49_Q95_R0.7000.45
92_G95_R0.6990.45
84_V107_L0.6960.44
74_L78_L0.6950.44
53_E56_E0.6950.44
71_Q82_I0.6910.44
73_D256_V0.6900.44
13_H204_I0.6890.44
214_T218_K0.6850.43
83_N87_H0.6840.43
28_S247_W0.6830.43
42_H112_D0.6810.43
66_A69_W0.6770.43
214_T219_I0.6750.43
33_D132_Q0.6730.42
31_E62_L0.6700.42
40_D179_G0.6670.42
102_L105_R0.6660.42
23_S81_Y0.6640.42
156_S190_G0.6630.41
167_Y218_K0.6620.41
84_V106_L0.6600.41
113_S138_R0.6590.41
125_P128_R0.6590.41
3_S170_K0.6550.41
2_L204_I0.6550.41
147_Q183_G0.6530.41
34_K156_S0.6530.41
103_I107_L0.6510.40
148_L152_L0.6490.40
2_L173_Y0.6480.40
56_E62_L0.6470.40
13_H189_T0.6460.40
105_R136_R0.6450.40
199_V235_M0.6450.40
167_Y199_V0.6450.40
74_L79_E0.6410.39
119_L244_N0.6410.39
7_S102_L0.6390.39
77_E256_V0.6390.39
191_I242_V0.6340.39
39_L148_L0.6340.39
172_D179_G0.6330.39
65_I104_A0.6320.39
2_L122_S0.6320.39
110_E129_S0.6300.38
198_V208_I0.6280.38
144_G163_I0.6270.38
145_F238_S0.6230.38
228_P268_G0.6220.38
76_A259_W0.6220.38
54_H122_S0.6210.38
28_S36_F0.6130.37
146_Q149_K0.6110.37
52_S55_A0.6110.37
33_D112_D0.6100.37
129_S255_N0.6080.37
32_K152_L0.6070.36
201_R229_D0.6050.36
123_D166_P0.6050.36
145_F176_V0.6050.36
142_A150_A0.6050.36
57_R207_M0.6030.36
242_V249_L0.6030.36
57_R185_K0.6020.36
149_K235_M0.6010.36
90_R111_Q0.6010.36
13_H167_Y0.5940.35
140_E150_A0.5920.35
75_P78_L0.5910.35
157_R190_G0.5890.35
26_I107_L0.5880.35
51_G95_R0.5880.35
117_T151_K0.5880.35
154_P192_Y0.5870.35
255_N272_A0.5830.34
54_H58_T0.5830.34
117_T144_G0.5810.34
178_S181_A0.5810.34
27_E252_Q0.5790.34
70_Q92_G0.5780.34
22_Q240_M0.5770.34
38_Y43_A0.5750.34
171_T175_A0.5740.34
198_V237_A0.5720.33
252_Q256_V0.5690.33
35_P150_A0.5650.33
232_R236_T0.5650.33
65_I85_V0.5640.33
80_A83_N0.5640.33
29_L156_S0.5620.33
176_V208_I0.5620.33
139_V179_G0.5620.33
2_L207_M0.5610.33
234_G245_P0.5610.33
169_M172_D0.5600.32
117_T140_E0.5600.32
230_S235_M0.5600.32
104_A116_L0.5590.32
120_H170_K0.5590.32
46_G186_R0.5590.32
170_K234_G0.5570.32
233_R238_S0.5560.32
125_P254_N0.5560.32
181_A210_D0.5540.32
193_A253_M0.5520.32
2_L57_R0.5520.32
207_M247_W0.5500.32
56_E90_R0.5490.32
3_S169_M0.5490.32
3_S167_Y0.5480.32
227_L267_A0.5470.31
138_R179_G0.5450.31
117_T238_S0.5440.31
174_Q206_R0.5410.31
89_N95_R0.5410.31
86_K178_S0.5390.31
24_L255_N0.5380.31
71_Q83_N0.5360.31
225_A234_G0.5350.30
208_I212_E0.5350.30
198_V221_Q0.5340.30
184_Y215_G0.5340.30
217_R237_A0.5340.30
91_S95_R0.5340.30
125_P129_S0.5330.30
29_L98_P0.5330.30
208_I235_M0.5310.30
122_S166_P0.5300.30
22_Q160_L0.5300.30
172_D176_V0.5290.30
65_I228_P0.5260.30
3_S235_M0.5260.30
124_Y137_A0.5240.30
40_D46_G0.5230.30
128_R132_Q0.5230.30
25_I260_L0.5220.29
227_L237_A0.5220.29
38_Y193_A0.5220.29
228_P236_T0.5210.29
3_S236_T0.5190.29
31_E141_K0.5190.29
68_I74_L0.5180.29
120_H166_P0.5170.29
35_P272_A0.5160.29
152_L186_R0.5160.29
89_N96_Y0.5160.29
108_L143_D0.5160.29
117_T159_G0.5140.29
217_R243_I0.5120.29
76_A80_A0.5110.29
39_L45_A0.5100.29
8_F13_H0.5090.28
156_S237_A0.5080.28
144_G265_V0.5080.28
20_T38_Y0.5070.28
148_L192_Y0.5050.28
39_L152_L0.5040.28
117_T142_A0.5020.28
157_R237_A0.5010.28
21_V35_P0.5000.28
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  
2oo3A 1 0.9464 100 0.24 Contact Map
4bluA 2 0.9964 100 0.26 Contact Map
2ozvA 2 0.6857 96.6 0.939 Contact Map
1o9gA 1 0.6321 96 0.942 Contact Map
2fpoA 1 0.625 95.9 0.943 Contact Map
3lpmA 2 0.75 95.6 0.944 Contact Map
3tm4A 1 0.7929 95.5 0.944 Contact Map
3lduA 1 0.7821 95.3 0.945 Contact Map
3k0bA 1 0.7786 94.8 0.947 Contact Map
3ldgA 1 0.75 94.8 0.947 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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