GREMLIN Database
YXJB - Putative 23S rRNA (guanine-N(1)-)-methyltransferase YxjB
UniProt: P42313 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 282 (261)
Sequences: 1537 (1191)
Seq/√Len: 73.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
65_R244_W6.2691.00
160_D179_K4.5291.00
196_E272_T4.4451.00
97_L159_F4.1501.00
173_E176_R4.0451.00
101_C124_G3.6301.00
152_A177_L3.5751.00
99_S174_F3.0371.00
238_D241_A2.9211.00
185_I277_I2.8481.00
76_L275_V2.8241.00
185_I279_I2.8001.00
27_L44_V2.7861.00
26_S35_T2.7641.00
79_A229_V2.6841.00
234_V270_D2.5721.00
154_F159_F2.4071.00
236_T270_D2.3601.00
99_S149_V2.3521.00
192_D232_R2.2871.00
72_F241_A2.2481.00
230_R274_D2.2191.00
75_P233_Y2.1531.00
178_L182_G2.1271.00
233_Y273_V2.0711.00
79_A83_L2.0661.00
41_H133_L2.0451.00
70_C241_A2.0061.00
110_L163_L1.9831.00
74_D78_D1.9811.00
162_V174_F1.9171.00
10_F145_A1.9161.00
192_D272_T1.8891.00
156_D173_E1.8551.00
84_I161_V1.8221.00
14_L48_T1.8121.00
97_L177_L1.7711.00
77_H109_A1.7681.00
159_F177_L1.7491.00
97_L154_F1.7251.00
60_F131_G1.7241.00
174_F178_L1.7101.00
135_A144_W1.6961.00
235_K273_V1.6621.00
174_F184_L1.6411.00
39_S43_Y1.5600.99
34_H37_D1.5440.99
101_C135_A1.5430.99
17_S32_R1.5390.99
152_A173_E1.5330.99
159_F162_V1.5180.99
261_S265_E1.5140.99
175_H223_A1.4980.99
86_H227_R1.4880.99
232_R274_D1.4860.99
28_I35_T1.4770.99
72_F237_L1.4750.99
156_D176_R1.4750.99
190_R276_D1.4580.99
107_L122_G1.4480.99
183_M279_I1.4480.99
198_R205_S1.4470.99
241_A244_W1.4280.99
239_Q242_I1.4260.99
69_E138_A1.3880.98
11_R155_H1.3720.98
79_A82_E1.3700.98
256_P260_V1.3680.98
166_F193_Y1.3610.98
66_L72_F1.3560.98
21_A38_L1.3500.98
262_L266_M1.3490.98
80_I185_I1.3470.98
153_P173_E1.3460.98
145_A154_F1.3380.98
150_A170_N1.3350.98
108_N139_F1.3330.98
87_P183_M1.3330.98
67_I71_G1.3250.98
12_C15_C1.3220.98
164_S174_F1.3060.98
225_H278_L1.3030.98
196_E271_I1.2920.97
155_H158_Q1.2890.97
94_F160_D1.2520.97
76_L187_V1.2460.97
190_R274_D1.2420.97
132_I135_A1.2010.96
38_L44_V1.1990.96
132_I146_V1.1940.96
17_S30_T1.1920.96
59_L128_S1.1830.96
59_L166_F1.1780.96
246_L260_V1.1470.95
188_V278_L1.1290.94
246_L255_A1.1170.94
95_T159_F1.1150.94
184_L219_F1.1130.94
77_H105_S1.0960.94
125_I147_A1.0910.93
9_M95_T1.0910.93
27_L38_L1.0840.93
168_P189_P1.0700.93
78_D82_E1.0640.93
106_H193_Y1.0580.92
73_F98_D1.0420.92
123_T154_F1.0360.91
66_L73_F1.0320.91
153_P176_R1.0210.91
123_T145_A1.0180.91
15_C29_C1.0160.91
111_C122_G1.0050.90
228_P278_L1.0020.90
101_C144_W1.0010.90
173_E177_L0.9820.89
20_D24_G0.9700.89
28_I33_G0.9590.88
73_F106_H0.9590.88
79_A231_L0.9590.88
20_D30_T0.9510.88
98_D101_C0.9480.87
232_R273_V0.9470.87
123_T159_F0.9380.87
59_L193_Y0.9370.87
79_A277_I0.9360.87
183_M226_S0.9360.87
95_T160_D0.9310.86
12_C29_C0.9190.86
67_I105_S0.9160.86
10_F143_M0.9150.85
190_R232_R0.9120.85
67_I106_H0.9110.85
77_H110_L0.9090.85
213_T217_E0.9050.85
162_V178_L0.9040.85
45_N146_V0.9030.85
36_F39_S0.9030.85
237_L241_A0.9020.85
152_A176_R0.8960.84
84_I185_I0.8910.84
212_N215_A0.8900.84
18_S155_H0.8870.84
93_A160_D0.8860.84
165_I189_P0.8850.84
106_H166_F0.8820.83
10_F154_F0.8760.83
153_P177_L0.8760.83
95_T179_K0.8710.83
138_A142_L0.8710.83
271_I274_D0.8680.82
23_S82_E0.8670.82
83_L227_R0.8640.82
187_V277_I0.8600.82
80_I165_I0.8600.82
67_I166_F0.8600.82
258_D261_S0.8590.82
169_S186_K0.8590.82
82_E86_H0.8580.82
91_H94_F0.8550.81
257_K261_S0.8540.81
20_D23_S0.8480.81
194_L245_L0.8470.81
259_R262_L0.8460.81
257_K260_V0.8450.81
26_S44_V0.8420.80
49_K54_S0.8390.80
11_R18_S0.8390.80
67_I193_Y0.8390.80
247_K260_V0.8340.80
17_S23_S0.8300.79
245_L249_T0.8300.79
74_D105_S0.8290.79
231_L277_I0.8270.79
168_P248_M0.8260.79
198_R201_L0.8190.78
131_G237_L0.8190.78
240_Q243_H0.8170.78
26_S238_D0.8170.78
107_L142_L0.8140.78
41_H137_K0.8090.78
147_A152_A0.8080.78
228_P276_D0.8060.77
266_M269_A0.8010.77
14_L49_K0.7980.77
100_G167_S0.7980.77
80_I187_V0.7960.77
63_R166_F0.7870.76
47_L127_L0.7850.76
242_I268_S0.7830.75
166_F248_M0.7800.75
37_D43_Y0.7770.75
23_S28_I0.7760.75
167_S188_V0.7730.74
107_L163_L0.7650.74
100_G131_G0.7650.74
67_I128_S0.7640.74
39_S133_L0.7640.74
192_D196_E0.7620.73
192_D195_I0.7610.73
149_V164_S0.7590.73
210_Y213_T0.7560.73
83_L229_V0.7550.73
273_V278_L0.7540.73
21_A25_K0.7540.73
63_R250_P0.7490.72
17_S82_E0.7470.72
35_T38_L0.7460.72
80_I162_V0.7390.71
256_P259_R0.7380.71
49_K148_D0.7360.71
208_R214_A0.7340.71
29_C34_H0.7310.70
246_L252_A0.7280.70
26_S38_L0.7270.70
192_D274_D0.7240.69
11_R16_D0.7230.69
108_N138_A0.7210.69
98_D127_L0.7180.69
212_N219_F0.7180.69
189_P248_M0.7180.69
251_L275_V0.7130.68
235_K271_I0.7130.68
21_A44_V0.7080.68
15_C167_S0.7060.68
247_K252_A0.7060.68
124_G144_W0.7050.67
125_I145_A0.7050.67
47_L98_D0.7050.67
243_H264_K0.7030.67
258_D262_L0.7010.67
66_L167_S0.7000.67
15_C168_P0.6910.66
163_L187_V0.6880.66
260_V263_L0.6870.65
87_P227_R0.6860.65
14_L36_F0.6850.65
95_T121_I0.6850.65
76_L277_I0.6840.65
84_I132_I0.6830.65
149_V167_S0.6790.65
54_S59_L0.6780.64
100_G127_L0.6760.64
51_V151_R0.6700.63
82_E85_S0.6700.63
50_P55_Y0.6690.63
178_L184_L0.6660.63
94_F120_A0.6650.63
49_K55_Y0.6650.63
77_H81_A0.6600.62
98_D104_G0.6590.62
108_N112_G0.6580.62
84_I242_I0.6570.62
36_F136_S0.6550.62
25_K40_R0.6550.62
48_T52_K0.6550.62
109_A112_G0.6530.61
175_H181_D0.6510.61
195_I272_T0.6510.61
193_Y250_P0.6500.61
63_R193_Y0.6470.61
164_S169_S0.6460.61
198_R202_Y0.6430.60
164_S170_N0.6410.60
75_P231_L0.6400.60
136_S139_F0.6400.60
144_W251_L0.6390.60
164_S188_V0.6380.60
144_W150_A0.6380.60
151_R156_D0.6380.60
20_D82_E0.6370.60
273_V276_D0.6360.59
127_L146_V0.6360.59
66_L131_G0.6360.59
122_G139_F0.6320.59
98_D125_I0.6320.59
33_G37_D0.6310.59
43_Y46_F0.6300.59
82_E270_D0.6300.59
59_L148_D0.6290.59
242_I269_A0.6270.58
211_S214_A0.6270.58
76_L80_I0.6250.58
216_V219_F0.6230.58
63_R67_I0.6200.58
139_F144_W0.6200.58
46_F54_S0.6180.57
129_K146_V0.6170.57
246_L251_L0.6160.57
117_G120_A0.6160.57
157_R179_K0.6160.57
39_S66_L0.6120.57
213_T220_T0.6120.57
84_I110_L0.6090.56
262_L265_E0.6080.56
234_V262_L0.6070.56
235_K269_A0.6070.56
50_P127_L0.6060.56
150_A169_S0.6060.56
96_I161_V0.6040.56
18_S93_A0.6030.55
23_S120_A0.6030.55
77_H106_H0.6020.55
60_F130_D0.6010.55
150_A249_T0.6000.55
101_C202_Y0.5970.55
260_V264_K0.5950.54
157_R180_N0.5940.54
20_D270_D0.5920.54
261_S270_D0.5920.54
100_G164_S0.5900.54
43_Y129_K0.5870.53
93_A161_V0.5830.53
131_G167_S0.5810.53
63_R168_P0.5810.53
162_V184_L0.5800.53
187_V193_Y0.5790.52
34_H42_G0.5760.52
236_T268_S0.5750.52
55_Y60_F0.5750.52
195_I205_S0.5750.52
251_L271_I0.5720.52
25_K119_A0.5720.52
47_L202_Y0.5710.51
149_V171_Y0.5710.51
16_D32_R0.5710.51
45_N127_L0.5710.51
251_L255_A0.5710.51
236_T267_K0.5700.51
60_F164_S0.5660.51
240_Q267_K0.5610.50
166_F275_V0.5600.50
124_G139_F0.5580.50
25_K38_L0.5560.50
34_H63_R0.5540.49
190_R230_R0.5530.49
272_T275_V0.5520.49
204_D253_W0.5510.49
66_L107_L0.5500.49
66_L237_L0.5500.49
168_P173_E0.5500.49
36_F43_Y0.5500.49
119_A157_R0.5480.49
15_C189_P0.5460.48
148_D254_S0.5460.48
62_A131_G0.5460.48
105_S193_Y0.5440.48
103_E249_T0.5420.48
151_R162_V0.5400.48
226_S279_I0.5400.48
55_Y148_D0.5390.48
217_E220_T0.5380.47
83_L279_I0.5370.47
35_T44_V0.5370.47
198_R244_W0.5360.47
60_F166_F0.5360.47
61_E134_K0.5350.47
99_S164_S0.5340.47
154_F177_L0.5340.47
100_G189_P0.5340.47
50_P53_T0.5340.47
166_F250_P0.5340.47
24_G181_D0.5320.47
189_P250_P0.5310.47
66_L241_A0.5300.46
139_F142_L0.5300.46
34_H40_R0.5240.46
195_I199_Q0.5220.45
78_D179_K0.5210.45
179_K262_L0.5200.45
218_R221_A0.5180.45
160_D269_A0.5180.45
187_V275_V0.5160.45
47_L146_V0.5160.45
188_V216_V0.5120.44
129_K223_A0.5120.44
36_F231_L0.5120.44
132_I144_W0.5110.44
25_K28_I0.5100.44
144_W168_P0.5100.44
164_S167_S0.5080.44
82_E229_V0.5070.44
224_A267_K0.5070.44
111_C142_L0.5070.44
18_S21_A0.5070.44
122_G142_L0.5070.44
171_Y175_H0.5050.43
170_N186_K0.5050.43
73_F132_I0.5050.43
133_L211_S0.5030.43
200_F259_R0.5010.43
37_D40_R0.5010.43
239_Q267_K0.5000.43
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  
1p91A 2 0.9291 100 0.386 Contact Map
2yqzA 1 0.7624 100 0.577 Contact Map
3ccfA 1 0.7163 100 0.595 Contact Map
4hg2A 1 0.7092 99.9 0.61 Contact Map
2p35A 2 0.7305 99.9 0.613 Contact Map
1xxlA 1 0.7057 99.9 0.616 Contact Map
1vl5A 1 0.7021 99.9 0.62 Contact Map
3ujcA 1 0.8262 99.9 0.621 Contact Map
4pneA 2 0.7943 99.9 0.625 Contact Map
2o57A 2 0.8582 99.9 0.628 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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