GREMLIN Database
YACO - Putative TrmH family tRNA/rRNA methyltransferase YacO
UniProt: Q06753 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 249 (232)
Sequences: 8404 (5769)
Seq/√Len: 378.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
197_I229_A4.1141.00
175_G212_C3.5501.00
101_I194_A3.2501.00
206_R210_E2.9261.00
231_V234_G2.8841.00
25_Y76_A2.8181.00
176_T236_L2.8011.00
114_I233_A2.7331.00
239_E242_R2.5921.00
175_G204_M2.5291.00
197_I233_A2.4961.00
26_K53_Q2.3971.00
164_E211_K2.1921.00
14_V73_A2.0981.00
177_D209_K2.0721.00
100_L114_I2.0701.00
167_K213_D2.0321.00
174_V216_I2.0201.00
103_D205_G1.9941.00
125_G152_P1.9311.00
23_K76_A1.9161.00
115_M126_I1.8961.00
60_L72_V1.8151.00
119_D222_G1.7761.00
5_H25_Y1.7721.00
121_V238_Y1.7711.00
100_L237_M1.7371.00
98_F123_A1.7371.00
97_P192_P1.7361.00
99_F125_G1.7251.00
233_A237_M1.7181.00
119_D151_I1.7121.00
174_V193_L1.7111.00
144_S148_I1.6611.00
172_W214_F1.6151.00
32_N57_R1.5711.00
141_A148_I1.5541.00
123_A237_M1.5341.00
147_A224_V1.5331.00
120_A220_M1.5161.00
184_F236_L1.4941.00
196_V204_M1.4861.00
174_V214_F1.4801.00
171_I194_A1.4771.00
31_E54_Y1.4661.00
195_L240_V1.4651.00
171_I192_P1.4641.00
195_L236_L1.4561.00
118_A123_A1.4511.00
26_K74_Q1.4501.00
57_R61_D1.4501.00
121_V184_F1.4491.00
100_L118_A1.4151.00
119_D147_A1.4021.00
187_M216_I1.3951.00
95_E124_H1.3951.00
113_S230_S1.3811.00
8_V17_T1.3641.00
163_L173_V1.3391.00
27_L73_A1.3351.00
106_E201_G1.3251.00
178_A217_K1.3151.00
100_L123_A1.3141.00
183_D186_N1.3041.00
165_E169_R1.3011.00
199_S202_K1.2931.00
130_K157_T1.2911.00
158_N161_R1.2871.00
105_L229_A1.2871.00
99_F171_I1.2851.00
182_E214_F1.2811.00
117_T234_G1.2761.00
119_D150_H1.2751.00
209_K215_L1.2721.00
97_P124_H1.2681.00
172_W213_D1.2661.00
177_D215_L1.2621.00
55_V59_K1.2491.00
196_V208_V1.2481.00
55_V60_L1.2421.00
15_I19_K1.2381.00
166_M194_A1.2351.00
164_E168_E1.2351.00
175_G215_L1.2311.00
121_V235_L1.2301.00
119_D224_V1.2061.00
31_E56_P1.2001.00
104_E131_R1.1971.00
101_I163_L1.1891.00
197_I232_A1.1711.00
160_A211_K1.1681.00
221_A241_Y1.1681.00
24_L73_A1.1661.00
180_A217_K1.1471.00
15_I40_Q1.1411.00
121_V241_Y1.1351.00
115_M153_V1.1341.00
127_V162_T1.1311.00
183_D217_K1.1291.00
59_K62_Q1.1221.00
101_I159_L1.1211.00
185_R242_R1.1171.00
99_F127_V1.1151.00
173_V194_A1.1101.00
100_L197_I1.1031.00
27_L45_A1.1021.00
189_G240_V1.1011.00
98_F124_H1.0991.00
82_E85_D1.0991.00
98_F240_V1.0891.00
156_V162_T1.0881.00
118_A126_I1.0881.00
24_L75_V1.0801.00
19_K44_L1.0731.00
111_L128_I1.0691.00
125_G154_A1.0611.00
205_G208_V1.0561.00
22_R78_Y1.0391.00
128_I153_V1.0361.00
16_E150_H1.0241.00
117_T231_V1.0241.00
111_L133_A1.0201.00
196_V212_C1.0191.00
58_K61_D1.0151.00
160_A164_E1.0081.00
30_A57_R1.0051.00
98_F237_M1.0031.00
163_L208_V1.0001.00
14_V71_V0.9961.00
16_E19_K0.9821.00
193_L240_V0.9701.00
115_M140_V0.9641.00
127_V156_V0.9631.00
56_P59_K0.9631.00
164_E167_K0.9621.00
64_V72_V0.9611.00
182_E186_N0.9601.00
117_T237_M0.9591.00
159_L208_V0.9581.00
161_R164_E0.9521.00
109_H143_A0.9491.00
160_A207_L0.9461.00
102_L114_I0.9441.00
189_G193_L0.9341.00
119_D223_K0.9321.00
212_C215_L0.9291.00
30_A33_T0.9221.00
176_T197_I0.9171.00
184_F189_G0.9141.00
22_R149_E0.9081.00
102_L111_L0.9071.00
29_M54_Y0.9051.00
6_D75_V0.9021.00
102_L197_I0.8921.00
8_V13_A0.8811.00
122_G221_A0.8791.00
128_I132_R0.8771.00
117_T121_V0.8741.00
179_S215_L0.8721.00
96_Q191_M0.8701.00
150_H223_K0.8661.00
175_G209_K0.8621.00
216_I236_L0.8531.00
9_I66_G0.8511.00
179_S209_K0.8501.00
103_D208_V0.8451.00
101_I166_M0.8441.00
207_L210_E0.8431.00
165_E168_E0.8421.00
7_Y72_V0.8421.00
29_M71_V0.8401.00
44_L47_K0.8331.00
99_F166_M0.8301.00
20_S150_H0.8271.00
167_K211_K0.8271.00
8_V75_V0.8231.00
103_D204_M0.8231.00
5_H74_Q0.8221.00
157_T161_R0.8211.00
121_V185_R0.8201.00
109_H113_S0.8181.00
65_T138_T0.8171.00
104_E202_K0.8161.00
78_Y136_L0.8161.00
120_A224_V0.8151.00
166_M171_I0.8141.00
29_M52_I0.8101.00
87_Y169_R0.8091.00
12_N145_T0.8051.00
161_R165_E0.8031.00
5_H76_A0.7991.00
84_D165_E0.7981.00
26_K51_T0.7971.00
28_W63_M0.7901.00
15_I44_L0.7881.00
104_E129_P0.7881.00
7_Y74_Q0.7851.00
88_K169_R0.7821.00
172_W191_M0.7801.00
185_R239_E0.7791.00
40_Q44_L0.7781.00
115_M148_I0.7761.00
207_L211_K0.7741.00
101_I196_V0.7661.00
104_E199_S0.7641.00
133_A137_T0.7541.00
17_T75_V0.7521.00
83_L154_A0.7521.00
17_T149_E0.7461.00
55_V72_V0.7431.00
162_T166_M0.7411.00
160_A208_V0.7401.00
30_A60_L0.7391.00
104_E205_G0.7381.00
97_P171_I0.7361.00
141_A149_E0.7341.00
98_F193_L0.7311.00
163_L211_K0.7281.00
111_L140_V0.7261.00
197_I236_L0.7191.00
28_W55_V0.7191.00
185_R219_P0.7181.00
167_K173_V0.7171.00
172_W193_L0.7171.00
44_L48_Q0.7141.00
83_L86_L0.7141.00
176_T204_M0.7121.00
105_L111_L0.7101.00
206_R209_K0.7091.00
121_V237_M0.7091.00
96_Q124_H0.7061.00
179_S217_K0.7061.00
163_L194_A0.7020.99
126_I151_I0.7010.99
204_M212_C0.6980.99
25_Y51_T0.6930.99
86_L125_G0.6930.99
177_D180_A0.6930.99
61_D67_Q0.6920.99
36_G39_Q0.6910.99
173_V196_V0.6910.99
181_R214_F0.6810.99
182_E187_M0.6770.99
105_L114_I0.6750.99
102_L105_L0.6740.99
182_E217_K0.6730.99
39_Q43_E0.6730.99
117_T233_A0.6680.99
114_I229_A0.6670.99
174_V187_M0.6620.99
177_D217_K0.6610.99
28_W53_Q0.6600.99
43_E46_K0.6590.99
9_I142_K0.6590.99
37_Q40_Q0.6570.99
106_E199_S0.6570.99
25_Y74_Q0.6540.99
176_T195_L0.6500.99
181_R217_K0.6480.99
187_M214_F0.6480.99
109_H139_T0.6460.99
60_L69_Q0.6400.99
8_V24_L0.6390.99
218_L238_Y0.6380.99
118_A237_M0.6380.99
63_M72_V0.6360.99
33_T38_A0.6360.99
28_W74_Q0.6310.99
42_I46_K0.6300.99
101_I127_V0.6290.99
120_A225_T0.6260.99
181_R215_L0.6250.99
29_M34_V0.6240.99
124_H171_I0.6200.99
178_A225_T0.6160.99
113_S231_V0.6160.99
17_T21_D0.6150.99
109_H230_S0.6150.99
115_M147_A0.6110.99
185_R238_Y0.6100.99
127_V166_M0.6090.99
83_L127_V0.6040.98
83_L162_T0.6030.98
128_I135_G0.6020.98
19_K223_K0.6010.98
147_A150_H0.5980.98
170_G192_P0.5960.98
6_D22_R0.5940.98
83_L87_Y0.5930.98
60_L64_V0.5880.98
121_V218_L0.5870.98
175_G196_V0.5830.98
81_A152_P0.5830.98
134_V137_T0.5830.98
58_K62_Q0.5800.98
42_I45_A0.5790.98
34_V54_Y0.5770.98
45_A48_Q0.5770.98
86_L99_F0.5770.98
60_L68_H0.5760.98
89_A152_P0.5750.98
40_Q43_E0.5710.98
12_N15_I0.5710.98
185_R189_G0.5710.98
11_K15_I0.5710.98
185_R241_Y0.5690.98
150_H224_V0.5630.98
162_T165_E0.5620.98
61_D68_H0.5600.98
13_A141_A0.5590.97
41_V45_A0.5570.97
204_M208_V0.5540.97
131_R205_G0.5530.97
101_I129_P0.5510.97
30_A54_Y0.5500.97
99_F194_A0.5490.97
106_E202_K0.5490.97
9_I138_T0.5490.97
55_V63_M0.5450.97
64_V67_Q0.5440.97
129_P159_L0.5410.97
43_E47_K0.5390.97
84_D87_Y0.5360.97
235_L238_Y0.5350.97
121_V221_A0.5340.97
172_W190_N0.5340.97
69_Q107_D0.5300.97
11_K38_A0.5300.97
199_S225_T0.5260.96
14_V27_L0.5250.96
141_A144_S0.5250.96
230_S233_A0.5210.96
11_K37_Q0.5190.96
121_V220_M0.5180.96
129_P208_V0.5160.96
174_V189_G0.5150.96
123_A240_V0.5150.96
156_V161_R0.5140.96
6_D9_I0.5130.96
177_D204_M0.5110.96
9_I72_V0.5110.96
180_A215_L0.5100.96
185_R188_D0.5050.95
163_L167_K0.5040.95
188_D191_M0.5010.95
158_N207_L0.5010.95
135_G155_R0.5000.95
104_E208_V0.5000.95
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  
3nk6A 2 0.9478 100 0.164 Contact Map
1ipaA 1 0.9357 100 0.169 Contact Map
1gz0A 2 0.9679 100 0.177 Contact Map
1x7oA 2 0.9639 100 0.181 Contact Map
2i6dA 2 0.8996 100 0.21 Contact Map
4kgnA 2 0.6225 100 0.382 Contact Map
3l8uA 2 0.5823 100 0.393 Contact Map
1v2xA 2 0.6908 100 0.396 Contact Map
3n4jA 2 0.6185 100 0.397 Contact Map
1zjrA 2 0.6867 100 0.399 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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