GREMLIN Database
RSMA - Probable ribosomal RNA small subunit methyltransferase A
UniProt: Q9HQH1 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 282 (248)
Sequences: 4635 (2949)
Seq/√Len: 187.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
253_T257_S3.5611.00
62_L94_L3.1341.00
253_T262_T2.8651.00
259_S262_T2.8631.00
46_H69_T2.7261.00
67_R95_D2.5871.00
144_A189_A2.5621.00
262_T265_A2.5071.00
249_D252_G2.4731.00
78_A98_A2.3831.00
28_D179_A2.3531.00
105_D108_A2.2561.00
69_T97_V2.2411.00
34_R173_E2.2081.00
118_Y188_S2.1651.00
170_S192_R2.1571.00
168_D194_T2.1461.00
145_E171_I2.1201.00
168_D196_R2.0751.00
61_L113_V2.0741.00
215_L263_F2.0541.00
170_S194_T2.0451.00
160_S164_Q2.0441.00
177_A187_E2.0311.00
141_L174_T2.0241.00
148_A169_V1.9701.00
60_R63_S1.9561.00
24_H183_Q1.9211.00
37_T64_V1.9061.00
222_T252_G1.9051.00
75_E98_A1.9031.00
176_P179_A1.8781.00
45_G111_C1.8781.00
167_A193_V1.8761.00
258_L262_T1.7711.00
33_D60_R1.7601.00
174_T189_A1.7591.00
211_F267_A1.7501.00
65_A68_V1.7201.00
171_I174_T1.7161.00
172_V192_R1.7141.00
52_A70_A1.7041.00
203_A268_N1.6981.00
42_F45_G1.6551.00
71_V104_V1.6341.00
111_C134_P1.6121.00
161_V212_V1.6001.00
147_M163_T1.5971.00
59_D84_E1.5881.00
126_F162_A1.5721.00
134_P192_R1.5671.00
82_R98_A1.5421.00
171_I189_A1.5381.00
101_A106_L1.5301.00
125_T139_Y1.5201.00
27_I181_D1.5131.00
59_D85_F1.5111.00
71_V101_A1.5091.00
222_T225_N1.4991.00
138_M175_V1.4891.00
61_L68_V1.4761.00
161_V260_P1.4721.00
163_T169_V1.4681.00
249_D253_T1.4491.00
101_A124_V1.4231.00
141_L145_E1.4091.00
32_L60_R1.4081.00
38_Y172_V1.4061.00
265_A268_N1.3941.00
17_P181_D1.3911.00
136_V192_R1.3811.00
127_R131_A1.3611.00
18_N76_S1.3561.00
240_D244_A1.3511.00
112_A128_L1.3161.00
248_D253_T1.3131.00
78_A82_R1.3061.00
177_A185_R1.2911.00
207_F267_A1.2891.00
152_G257_S1.2861.00
70_A96_V1.2811.00
121_A139_Y1.2791.00
147_M191_V1.2661.00
17_P54_T1.2611.00
241_A245_A1.2591.00
21_F73_R1.2581.00
208_F212_V1.2541.00
141_L187_E1.2521.00
215_L255_P1.2481.00
175_V190_V1.2411.00
145_E155_E1.2211.00
97_V104_V1.2191.00
134_P194_T1.1881.00
116_L137_L1.1851.00
245_A269_V1.1841.00
46_H67_R1.1841.00
174_T187_E1.1821.00
41_G47_V1.1701.00
129_L167_A1.1481.00
139_Y144_A1.1421.00
165_H208_F1.1411.00
44_R66_D1.1401.00
178_A183_Q1.1341.00
31_V179_A1.1291.00
164_Q169_V1.1291.00
200_Y264_A1.1271.00
217_T226_A1.1271.00
207_F270_A1.1251.00
248_D251_L1.1171.00
202_V268_N1.1141.00
167_A195_P1.1121.00
99_G104_V1.1021.00
220_R256_G1.0921.00
154_S256_G1.0901.00
69_T95_D1.0871.00
36_P113_V1.0821.00
136_V190_V1.0751.00
100_D103_A1.0731.00
70_A94_L1.0701.00
41_G45_G1.0691.00
246_V269_V1.0681.00
39_A47_V1.0641.00
147_M169_V1.0641.00
30_R179_A1.0631.00
48_L71_V1.0561.00
249_D257_S1.0531.00
198_P201_V1.0481.00
21_F76_S1.0481.00
148_A171_I1.0481.00
121_A143_F1.0451.00
242_V270_A1.0401.00
173_E190_V1.0361.00
29_D60_R1.0341.00
71_V109_F1.0271.00
215_L226_A1.0271.00
196_R199_D1.0251.00
39_A114_S1.0221.00
215_L223_T1.0171.00
33_D37_T1.0081.00
30_R33_D1.0050.99
132_G205_E0.9990.99
114_S137_L0.9960.99
167_A196_R0.9880.99
58_T68_V0.9870.99
41_G65_A0.9800.99
62_L93_D0.9760.99
78_A96_V0.9660.99
224_R240_D0.9610.99
46_H66_D0.9610.99
39_A113_V0.9570.99
22_D119_G0.9540.99
150_D153_T0.9500.99
166_Y209_L0.9490.99
54_T80_F0.9320.99
54_T77_Y0.9270.99
261_A265_A0.9230.99
99_G103_A0.9190.99
247_D265_A0.9130.99
38_Y173_E0.9120.99
244_A251_L0.9090.99
111_C133_K0.9040.99
165_H205_E0.9030.99
36_P41_G0.9010.99
202_V264_A0.8990.99
204_D207_F0.8990.99
141_L189_A0.8940.99
102_L120_V0.8940.99
29_D59_D0.8870.99
226_A255_P0.8840.99
165_H260_P0.8770.99
264_A268_N0.8710.99
241_A244_A0.8700.99
204_D268_N0.8690.99
79_S82_R0.8680.98
52_A81_L0.8630.98
32_L56_A0.8630.98
211_F215_L0.8580.98
50_I112_A0.8580.98
83_E86_A0.8550.98
39_A136_V0.8440.98
70_A81_L0.8380.98
214_A255_P0.8380.98
18_N21_F0.8310.98
158_R213_K0.8300.98
149_A153_T0.8220.98
201_V204_D0.8220.98
32_L36_P0.8200.98
125_T147_M0.8190.98
30_R34_R0.8170.98
205_E209_L0.8090.98
135_M195_P0.8080.98
85_F94_L0.8070.98
240_D251_L0.8050.98
81_L96_V0.8020.97
177_A183_Q0.7970.97
48_L110_T0.7960.97
243_V251_L0.7950.97
207_F211_F0.7950.97
120_V124_V0.7900.97
35_I138_M0.7860.97
208_F267_A0.7830.97
47_V65_A0.7810.97
156_Y160_S0.7790.97
265_A269_V0.7780.97
111_C136_V0.7730.97
156_Y263_F0.7700.97
141_L171_I0.7680.97
101_A116_L0.7680.97
158_R162_A0.7640.97
29_D33_D0.7620.97
130_P209_L0.7620.97
207_F210_S0.7570.96
35_I190_V0.7560.96
206_A210_S0.7560.96
157_G256_G0.7550.96
17_P25_F0.7510.96
205_E208_F0.7480.96
148_A189_A0.7460.96
32_L138_M0.7430.96
161_V263_F0.7410.96
196_R200_Y0.7360.96
39_A111_C0.7310.96
15_G76_S0.7250.95
34_R178_A0.7220.95
41_G111_C0.7070.95
87_D91_A0.7060.95
125_T163_T0.6990.94
210_S230_T0.6970.94
162_A209_L0.6940.94
223_T227_I0.6940.94
101_A120_V0.6920.94
68_V114_S0.6920.94
248_D262_T0.6850.94
243_V247_D0.6830.94
56_A60_R0.6820.94
126_F130_P0.6820.94
43_D66_D0.6810.94
231_A234_S0.6810.94
243_V248_D0.6780.94
101_A127_R0.6780.94
62_L91_A0.6770.94
116_L124_V0.6760.93
211_F230_T0.6740.93
165_H209_L0.6720.93
224_R228_R0.6660.93
99_G108_A0.6640.93
60_R64_V0.6620.93
79_S83_E0.6600.93
244_A247_D0.6600.93
118_Y138_M0.6590.93
166_Y205_E0.6580.93
126_F158_R0.6570.92
80_F83_E0.6570.92
72_E78_A0.6540.92
199_D202_V0.6520.92
210_S214_A0.6510.92
122_S135_M0.6510.92
31_V173_E0.6440.92
116_L121_A0.6430.92
15_G80_F0.6400.91
31_V175_V0.6400.91
107_P131_A0.6390.91
248_D257_S0.6340.91
218_Q226_A0.6300.91
112_A137_L0.6290.91
16_R76_S0.6270.91
176_P187_E0.6240.90
255_P263_F0.6230.90
34_R37_T0.6210.90
38_Y192_R0.6200.90
54_T84_E0.6170.90
199_D264_A0.6160.90
147_M160_S0.6140.90
175_V186_V0.6130.90
121_A126_F0.6130.90
220_R254_R0.6130.90
258_L263_F0.6120.90
45_G133_K0.6120.90
177_A186_V0.6120.90
106_L124_V0.6100.89
165_H202_V0.6100.89
158_R209_L0.6090.89
106_L127_R0.6060.89
148_A191_V0.6060.89
48_L106_L0.6050.89
214_A230_T0.6020.89
145_E174_T0.6010.89
204_D208_F0.5940.88
73_R98_A0.5920.88
36_P64_V0.5900.88
17_P77_Y0.5900.88
15_G54_T0.5890.88
76_S79_S0.5880.88
61_L65_A0.5870.88
121_A125_T0.5870.88
17_P20_D0.5860.87
139_Y163_T0.5860.87
165_H264_A0.5860.87
266_L269_V0.5850.87
24_H185_R0.5850.87
14_A17_P0.5850.87
71_V226_A0.5840.87
52_A62_L0.5800.87
135_M193_V0.5780.87
123_E127_R0.5760.87
104_V108_A0.5750.86
138_M190_V0.5740.86
36_P61_L0.5720.86
31_V176_P0.5700.86
139_Y147_M0.5690.86
122_S126_F0.5680.86
50_I128_L0.5680.86
223_T258_L0.5680.86
173_E189_A0.5670.86
211_F266_L0.5660.86
138_M188_S0.5660.86
50_I137_L0.5650.86
75_E78_A0.5600.85
47_V68_V0.5600.85
132_G195_P0.5580.85
211_F263_F0.5570.85
146_R149_A0.5540.84
32_L57_L0.5540.84
169_V191_V0.5520.84
32_L113_V0.5520.84
164_Q260_P0.5500.84
242_V266_L0.5490.84
40_D134_P0.5450.83
158_R212_V0.5450.83
139_Y158_R0.5410.83
222_T226_A0.5390.83
130_P206_A0.5380.83
44_R65_A0.5380.83
85_F91_A0.5350.82
35_I143_F0.5350.82
56_A114_S0.5340.82
36_P60_R0.5320.82
252_G257_S0.5300.82
122_S158_R0.5300.82
217_T255_P0.5290.82
246_V266_L0.5280.82
215_L227_I0.5280.82
234_S244_A0.5260.81
156_Y260_P0.5250.81
47_V111_C0.5240.81
128_L135_M0.5230.81
135_M139_Y0.5220.81
177_A189_A0.5210.81
228_R240_D0.5210.81
47_V64_V0.5200.81
165_H196_R0.5200.81
230_T233_I0.5200.81
175_V179_A0.5180.80
168_D197_D0.5160.80
41_G66_D0.5130.80
242_V269_V0.5120.80
34_R38_Y0.5120.80
137_L195_P0.5110.79
163_T193_V0.5100.79
106_L131_A0.5090.79
150_D164_Q0.5090.79
119_G185_R0.5070.79
208_F260_P0.5070.79
26_L31_V0.5070.79
83_E87_D0.5050.79
112_A124_V0.5040.78
35_I118_Y0.5030.78
222_T257_S0.5020.78
133_K194_T0.5020.78
188_S256_G0.5010.78
208_F211_F0.5010.78
33_D64_V0.5000.78
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  
4gc5A 2 0.9823 100 0.256 Contact Map
1i4wA 1 0.9255 100 0.263 Contact Map
4jxjA 1 0.844 100 0.293 Contact Map
3futA 1 0.9184 100 0.311 Contact Map
3gruA 1 0.8901 100 0.318 Contact Map
3tqsA 1 0.8404 100 0.326 Contact Map
3uzuA 1 0.8723 100 0.333 Contact Map
1qyrA 1 0.8546 100 0.337 Contact Map
3ftdA 1 0.8262 100 0.363 Contact Map
1zq9A 2 0.8972 100 0.387 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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