GREMLIN Database
YHDJ - DNA adenine methyltransferase YhdJ
UniProt: P28638 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11498
Length: 294 (241)
Sequences: 5201 (4277)
Seq/√Len: 275.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
223_A241_G3.8291.00
226_F252_G3.0851.00
37_I72_C3.0831.00
205_K234_A2.9601.00
201_E231_V2.8421.00
35_D79_Q2.8401.00
84_I98_C2.7941.00
109_V127_Y2.7281.00
229_G241_G2.6531.00
213_N216_D2.6531.00
223_A229_G2.6111.00
25_E242_I2.4421.00
35_D77_K2.4261.00
83_Y211_S2.4241.00
254_R258_V2.3051.00
233_I239_F2.2751.00
127_Y178_N2.2741.00
71_E74_R2.2651.00
107_R129_P2.2301.00
212_S216_D2.1951.00
111_S181_D2.1771.00
76_L80_G2.1671.00
27_K71_E2.1601.00
18_I25_E2.1131.00
214_P236_G2.1121.00
86_N94_I2.0751.00
19_H249_I2.0651.00
99_R133_M2.0481.00
20_G25_E2.0261.00
31_A74_R2.0161.00
15_K239_F2.0161.00
217_I238_K1.9971.00
229_G239_F1.9501.00
32_E78_K1.8961.00
165_N168_Q1.8811.00
223_A252_G1.8491.00
35_D216_D1.7901.00
108_I180_W1.7861.00
205_K209_L1.7841.00
38_F85_M1.7671.00
230_A234_A1.6751.00
17_I252_G1.6701.00
104_I107_R1.6621.00
34_V217_I1.6621.00
37_I76_L1.6491.00
59_D63_D1.6351.00
201_E230_A1.6281.00
254_R257_D1.6251.00
141_T213_N1.5911.00
212_S237_R1.5691.00
34_V240_I1.5621.00
166_P169_P1.5601.00
82_M98_C1.5541.00
113_D117_V1.5501.00
123_Y210_A1.5431.00
66_F100_K1.4981.00
201_E234_A1.4501.00
17_I249_I1.4441.00
19_H246_S1.4431.00
81_S132_M1.4421.00
111_S126_M1.4261.00
93_F96_L1.4251.00
204_L227_T1.4171.00
105_K134_V1.4041.00
217_I240_I1.4011.00
253_L257_D1.3961.00
167_P170_Y1.3891.00
109_V179_V1.3821.00
205_K235_S1.3661.00
165_N170_Y1.3331.00
72_C221_P1.3311.00
130_I207_I1.3221.00
92_P95_D1.3151.00
112_Y128_E1.3101.00
104_I133_M1.3081.00
110_W200_P1.3061.00
83_Y132_M1.2951.00
25_E28_K1.2891.00
241_G252_G1.2491.00
18_I242_I1.2361.00
43_Y85_M1.2331.00
145_D148_L1.2311.00
17_I223_A1.2241.00
229_G256_L1.2181.00
108_I132_M1.2091.00
106_S123_Y1.2011.00
180_W207_I1.1941.00
126_M177_G1.1921.00
180_W206_R1.1881.00
250_K253_L1.1801.00
57_K60_L1.1771.00
110_W130_I1.1761.00
166_P170_Y1.1571.00
95_D104_I1.1571.00
91_M107_R1.1561.00
78_K136_D1.1561.00
95_D99_R1.1551.00
92_P99_R1.1501.00
209_L235_S1.1441.00
202_A205_K1.1371.00
249_I253_L1.1271.00
204_L207_I1.1241.00
91_M131_L1.1161.00
43_Y128_E1.1091.00
154_G164_K1.1081.00
40_D199_K1.1031.00
32_E77_K1.1001.00
127_Y179_V1.0911.00
65_L68_V1.0861.00
184_R187_Y1.0861.00
71_E75_V1.0801.00
226_F241_G1.0751.00
39_A221_P1.0731.00
220_D228_T1.0511.00
91_M95_D1.0501.00
66_F70_A1.0451.00
56_W60_L1.0441.00
30_P33_S1.0381.00
130_I203_L1.0381.00
76_L102_F1.0371.00
165_N169_P1.0341.00
73_H135_K1.0251.00
108_I123_Y1.0151.00
63_D67_E1.0151.00
26_L75_V1.0091.00
36_L212_S1.0031.00
31_A71_E0.9901.00
93_F99_R0.9801.00
36_L207_I0.9801.00
92_P96_L0.9661.00
219_L242_I0.9601.00
249_I252_G0.9591.00
84_I94_I0.9581.00
75_V219_L0.9571.00
243_E249_I0.9531.00
38_F204_L0.9471.00
108_I130_I0.9441.00
60_L63_D0.9391.00
247_E250_K0.9291.00
98_C133_M0.9101.00
190_D202_A0.9091.00
34_V219_L0.9041.00
117_V120_K0.9021.00
218_V228_T0.8941.00
16_T30_P0.8931.00
73_H102_F0.8921.00
14_A238_K0.8841.00
186_R189_M0.8741.00
112_Y126_M0.8741.00
195_H248_Y0.8641.00
245_N248_Y0.8621.00
223_A239_F0.8601.00
114_S117_V0.8581.00
36_L208_I0.8581.00
65_L97_Q0.8571.00
168_Q172_H0.8481.00
20_G242_I0.8481.00
230_A259_A0.8331.00
232_A236_G0.8311.00
106_S178_N0.8281.00
223_A243_E0.8270.99
26_L219_L0.8200.99
116_G124_G0.8100.99
70_A101_L0.8070.99
115_S120_K0.8050.99
143_N213_N0.8030.99
117_V124_G0.8010.99
113_D124_G0.7930.99
115_S118_Q0.7920.99
24_A27_K0.7900.99
112_Y117_V0.7900.99
88_T107_R0.7900.99
65_L94_I0.7900.99
183_P186_R0.7890.99
65_L69_I0.7890.99
109_V129_P0.7860.99
16_T19_H0.7850.99
187_Y190_D0.7820.99
108_I207_I0.7810.99
200_P203_L0.7790.99
232_A239_F0.7770.99
58_E90_N0.7760.99
115_S124_G0.7760.99
171_N174_K0.7750.99
250_K254_R0.7750.99
44_N90_N0.7730.99
29_I75_V0.7730.99
69_I82_M0.7720.99
31_A75_V0.7690.99
182_F185_V0.7660.99
83_Y207_I0.7660.99
51_G54_E0.7640.99
32_E135_K0.7610.99
132_M211_S0.7570.99
145_D149_V0.7540.99
35_D213_N0.7540.99
110_W128_E0.7520.99
182_F187_Y0.7440.99
24_A31_A0.7440.99
117_V126_M0.7420.99
81_S211_S0.7370.99
86_N91_M0.7370.99
246_S250_K0.7360.99
83_Y130_I0.7350.99
107_R127_Y0.7350.99
199_K204_L0.7230.99
134_V140_Y0.7230.99
114_S118_Q0.7190.99
103_T137_A0.7180.99
33_S74_R0.7180.99
116_G126_M0.7170.99
122_H140_Y0.7130.99
36_L83_Y0.7130.99
111_S179_V0.7110.98
227_T231_V0.7080.98
110_W203_L0.7040.98
144_G147_I0.7030.98
79_Q136_D0.7010.98
234_A259_A0.7010.98
13_E16_T0.6990.98
167_P172_H0.6930.98
44_N58_E0.6860.98
61_F65_L0.6850.98
134_V137_A0.6820.98
168_Q171_N0.6810.98
182_F206_R0.6790.98
191_E198_Q0.6750.98
148_L173_Q0.6740.98
113_D116_G0.6710.98
26_L72_C0.6700.98
167_P171_N0.6680.98
252_G256_L0.6680.98
144_G148_L0.6670.98
212_S218_V0.6660.98
118_Q124_G0.6660.98
22_A68_V0.6640.98
112_Y125_S0.6640.98
108_I206_R0.6630.98
15_K238_K0.6620.98
143_N146_A0.6610.98
34_V75_V0.6600.98
223_A249_I0.6600.98
66_F97_Q0.6580.97
38_F207_I0.6520.97
24_A28_K0.6520.97
112_Y115_S0.6520.97
15_K229_G0.6520.97
72_C82_M0.6510.97
136_D139_N0.6500.97
78_K135_K0.6500.97
243_E248_Y0.6430.97
40_D85_M0.6410.97
233_I260_S0.6410.97
85_M199_K0.6400.97
56_W67_E0.6380.97
137_A140_Y0.6370.97
40_D204_L0.6350.97
113_D118_Q0.6330.97
106_S122_H0.6310.97
19_H245_N0.6290.97
233_I256_L0.6280.97
120_K126_M0.6270.97
23_L67_E0.6270.97
142_F145_D0.6270.97
125_S178_N0.6260.97
16_T253_L0.6240.97
112_Y118_Q0.6240.97
119_A122_H0.6220.96
85_M204_L0.6210.96
126_M178_N0.6190.96
122_H134_V0.6190.96
20_G28_K0.6130.96
143_N148_L0.6120.96
26_L242_I0.6110.96
147_I151_A0.6100.96
56_W66_F0.6090.96
29_I34_V0.6090.96
64_W222_F0.6090.96
95_D131_L0.6080.96
118_Q122_H0.6060.96
23_L68_V0.6050.96
147_I150_E0.6050.96
205_K231_V0.5990.96
148_L151_A0.5980.96
19_H243_E0.5980.96
114_S126_M0.5940.95
166_P171_N0.5910.95
21_D27_K0.5910.95
258_V261_H0.5910.95
20_G24_A0.5900.95
22_A26_L0.5900.95
32_E75_V0.5880.95
124_G177_G0.5830.95
37_I80_G0.5830.95
14_A17_I0.5830.95
98_C101_L0.5800.95
182_F186_R0.5800.95
17_I226_F0.5790.95
107_R131_L0.5750.95
33_S217_I0.5740.95
35_D217_I0.5740.95
117_V122_H0.5740.95
16_T28_K0.5730.94
19_H252_G0.5730.94
24_A60_L0.5720.94
182_F202_A0.5660.94
112_Y116_G0.5650.94
95_D133_M0.5620.94
45_I49_F0.5600.94
27_K67_E0.5560.94
204_L228_T0.5560.94
68_V72_C0.5550.94
13_E238_K0.5540.93
63_D66_F0.5520.93
141_T216_D0.5510.93
113_D120_K0.5480.93
36_L211_S0.5450.93
72_C76_L0.5450.93
114_S120_K0.5450.93
181_D185_V0.5450.93
146_A149_V0.5430.93
114_S119_A0.5410.93
17_I239_F0.5400.93
170_Y174_K0.5390.93
113_D119_A0.5360.92
119_A124_G0.5340.92
50_D55_A0.5330.92
88_T129_P0.5310.92
23_L27_K0.5310.92
114_S189_M0.5290.92
20_G23_L0.5290.92
144_G149_V0.5280.92
208_I235_S0.5280.92
122_H142_F0.5280.92
231_V235_S0.5280.92
62_I97_Q0.5270.92
148_L152_K0.5240.91
175_V179_V0.5230.91
184_R189_M0.5220.91
40_D197_T0.5220.91
172_H175_V0.5190.91
116_G119_A0.5190.91
97_Q101_L0.5180.91
85_M130_I0.5180.91
21_D24_A0.5160.91
105_K140_Y0.5160.91
165_N171_N0.5150.91
216_D237_R0.5150.91
93_F100_K0.5150.91
83_Y123_Y0.5150.91
223_A226_F0.5150.91
17_I256_L0.5140.91
115_S187_Y0.5120.90
111_S177_G0.5120.90
26_L29_I0.5100.90
28_K56_W0.5100.90
221_P242_I0.5070.90
73_H101_L0.5020.90
170_Y173_Q0.5010.90
175_V180_W0.5010.90
115_S126_M0.5000.89
21_D244_I0.5000.89
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  
1eg2A 2 0.8639 100 0.332 Contact Map
1booA 1 0.8673 100 0.336 Contact Map
4zcfA 2 0.966 100 0.343 Contact Map
1g60A 2 0.7891 100 0.365 Contact Map
2zigA 2 0.7619 100 0.404 Contact Map
3v97A 1 0.4082 98 0.88 Contact Map
2b78A 1 0.4116 97.9 0.882 Contact Map
3lpmA 2 0.4728 97.9 0.883 Contact Map
2ozvA 2 0.5102 97.9 0.884 Contact Map
4dzrA 2 0.3163 97.8 0.884 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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