GREMLIN Database
YBAJ - Uncharacterized methyltransferase YbaJ
UniProt: P70976 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 255 (211)
Sequences: 12662 (9618)
Seq/√Len: 662.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
61_K82_D3.6631.00
90_E111_K3.2281.00
141_L223_D3.0161.00
67_S85_V2.8761.00
84_T125_F2.7771.00
126_D152_K2.7771.00
86_L112_G2.6541.00
148_Y226_F2.6481.00
93_L111_K2.6411.00
66_A133_A2.6161.00
147_A157_L2.5981.00
95_Q98_M2.5531.00
73_G83_V2.5011.00
65_L147_A2.4311.00
78_A103_D2.3481.00
63_L125_F2.3301.00
96_D109_T2.2971.00
82_D108_H2.2821.00
90_E94_N2.2621.00
62_V76_L2.2531.00
146_E149_R2.2241.00
213_S216_D2.1921.00
140_V220_G2.1811.00
128_I147_A2.1651.00
84_T110_V2.0081.00
120_F125_F1.9521.00
67_S73_G1.9361.00
93_L109_T1.9301.00
141_L220_G1.8201.00
74_P100_A1.8111.00
61_K152_K1.7931.00
141_L145_K1.7761.00
218_I222_I1.7641.00
73_G85_V1.7051.00
151_L157_L1.6911.00
146_E150_V1.6771.00
137_V143_V1.6761.00
151_L155_G1.6641.00
128_I151_L1.6581.00
139_N142_P1.6451.00
100_A109_T1.6441.00
57_I60_L1.6141.00
62_V127_V1.6021.00
66_A130_H1.6021.00
65_L114_M1.5801.00
74_P99_I1.5641.00
113_S116_D1.5551.00
23_T89_S1.5531.00
61_K126_D1.5441.00
142_P145_K1.5181.00
19_G23_T1.5021.00
75_V78_A1.5001.00
23_T91_K1.4711.00
84_T108_H1.4521.00
61_K84_T1.3931.00
219_K223_D1.3901.00
91_K94_N1.3771.00
88_N113_S1.3701.00
112_G119_V1.3511.00
51_K79_A1.3311.00
63_L128_I1.3151.00
87_D93_L1.3101.00
85_V109_T1.3091.00
114_M133_A1.2981.00
94_N97_R1.2951.00
60_L127_V1.2931.00
219_K222_I1.2821.00
77_A106_T1.2611.00
117_L146_E1.2521.00
73_G107_I1.2251.00
141_L224_A1.2241.00
122_D149_R1.2201.00
78_A105_L1.2121.00
100_A107_I1.2071.00
86_L117_L1.1951.00
98_M102_R1.1871.00
121_N124_S1.1721.00
218_I231_F1.1711.00
61_K125_F1.1651.00
130_H133_A1.1541.00
73_G109_T1.1511.00
93_L97_R1.1501.00
143_V147_A1.1421.00
32_E69_G1.1361.00
124_S152_K1.1331.00
67_S96_D1.1301.00
74_P78_A1.1251.00
132_V135_V1.1231.00
120_F150_V1.1211.00
151_L226_F1.1171.00
115_D139_N1.1121.00
61_K123_E1.1121.00
49_V52_D1.1071.00
61_K124_S1.0911.00
214_L233_E1.0861.00
75_V79_A1.0771.00
128_I150_V1.0711.00
216_D219_K1.0501.00
117_L120_F1.0411.00
97_R101_E1.0411.00
35_K39_W1.0401.00
198_V201_L1.0351.00
69_G92_Q1.0301.00
48_D52_D1.0301.00
144_W221_Q1.0221.00
183_H187_Y1.0201.00
157_L221_Q1.0141.00
185_I188_A1.0041.00
161_F217_Q0.9961.00
77_A105_L0.9921.00
50_P158_I0.9921.00
85_V96_D0.9921.00
134_N137_V0.9911.00
86_L110_V0.9861.00
147_A151_L0.9771.00
132_V136_F0.9591.00
70_G109_T0.9591.00
49_V232_Y0.9581.00
119_V146_E0.9581.00
71_Q99_I0.9491.00
22_W25_A0.9461.00
70_G96_D0.9401.00
100_A105_L0.9351.00
65_L128_I0.9331.00
198_V202_I0.9281.00
134_N217_Q0.9221.00
65_L86_L0.9201.00
117_L150_V0.8991.00
46_M50_P0.8981.00
89_S92_Q0.8971.00
62_V83_V0.8931.00
94_N98_M0.8791.00
140_V144_W0.8791.00
148_Y224_A0.8711.00
62_V81_A0.8681.00
54_F127_V0.8631.00
135_V161_F0.8491.00
76_L129_V0.8341.00
53_W232_Y0.8291.00
222_I228_V0.8231.00
145_K149_R0.8191.00
132_V160_G0.8051.00
163_N233_E0.7991.00
60_L126_D0.7971.00
145_K224_A0.7971.00
74_P109_T0.7911.00
71_Q75_V0.7901.00
63_L150_V0.7831.00
74_P103_D0.7801.00
60_L81_A0.7801.00
181_V185_I0.7771.00
72_Q129_V0.7681.00
189_D192_D0.7641.00
30_V33_Q0.7631.00
176_Q179_L0.7631.00
77_A107_I0.7611.00
200_K203_E0.7601.00
174_E178_V0.7601.00
133_A137_V0.7521.00
59_G81_A0.7461.00
32_E99_I0.7411.00
168_L172_E0.7391.00
133_A136_F0.7371.00
65_L143_V0.7371.00
39_W42_R0.7331.00
49_V53_W0.7331.00
144_W217_Q0.7321.00
183_H186_P0.7321.00
46_M49_V0.7311.00
114_M137_V0.7281.00
84_T120_F0.7251.00
112_G117_L0.7251.00
174_E179_L0.7241.00
214_L218_I0.7231.00
53_W56_P0.7181.00
142_P146_E0.7171.00
53_W230_G0.7131.00
47_K51_K0.7121.00
69_G99_I0.7121.00
48_D79_A0.7081.00
101_E105_L0.7021.00
116_D142_P0.7001.00
136_F207_A0.6991.00
74_P105_L0.6971.00
29_Q32_E0.6941.00
119_V149_R0.6941.00
134_N143_V0.6891.00
220_G224_A0.6871.00
184_S188_A0.6861.00
99_I102_R0.6851.00
40_D44_T0.6851.00
67_S87_D0.6841.00
100_A104_G0.6841.00
215_E219_K0.6831.00
90_E97_R0.6831.00
38_N41_I0.6831.00
64_C85_V0.6801.00
66_A114_M0.6801.00
39_W43_V0.6791.00
197_K200_K0.6781.00
145_K223_D0.6771.00
72_Q76_L0.6771.00
56_P60_L0.6771.00
98_M101_E0.6771.00
131_P160_G0.6741.00
135_V162_V0.6741.00
43_V46_M0.6721.00
199_K203_E0.6711.00
42_R45_P0.6711.00
215_E218_I0.6681.00
95_Q99_I0.6661.00
173_L177_G0.6611.00
59_G80_G0.6611.00
130_H137_V0.6571.00
167_F170_D0.6561.00
214_L231_F0.6531.00
26_V29_Q0.6531.00
110_V120_F0.6521.00
29_Q95_Q0.6511.00
122_D150_V0.6501.00
64_C68_G0.6501.00
177_G181_V0.6461.00
173_L179_L0.6451.00
37_G40_D0.6401.00
181_V188_A0.6391.00
46_M54_F0.6381.00
41_I45_P0.6361.00
36_K40_D0.6351.00
64_C72_Q0.6301.00
199_K202_I0.6301.00
130_H159_S0.6281.00
23_T26_V0.6271.00
220_G223_D0.6231.00
167_F172_E0.6221.00
35_K38_N0.6221.00
120_F124_S0.6221.00
22_W136_F0.6181.00
93_L96_D0.6161.00
124_S149_R0.6151.00
22_W135_V0.6101.00
91_K95_Q0.6081.00
205_N208_L0.6061.00
216_D220_G0.6051.00
67_S93_L0.6041.00
125_F150_V0.6031.00
127_V156_I0.6031.00
192_D198_V0.5981.00
211_G217_Q0.5981.00
31_I35_K0.5981.00
100_A106_T0.5911.00
22_W32_E0.5881.00
148_Y151_L0.5861.00
101_E104_G0.5851.00
41_I44_T0.5851.00
85_V107_I0.5851.00
127_V155_G0.5831.00
140_V212_H0.5821.00
124_S150_V0.5801.00
53_W158_I0.5801.00
97_R109_T0.5801.00
206_E209_E0.5771.00
122_D146_E0.5771.00
19_G111_K0.5721.00
74_P77_A0.5711.00
174_E177_G0.5701.00
134_N159_S0.5651.00
184_S187_Y0.5641.00
92_Q132_V0.5641.00
170_D173_L0.5601.00
87_D92_Q0.5601.00
134_N144_W0.5591.00
62_V129_V0.5591.00
60_L156_I0.5581.00
134_N161_F0.5561.00
181_V184_S0.5541.00
165_V168_L0.5531.00
188_A191_E0.5531.00
21_E25_A0.5501.00
175_Q178_V0.5461.00
191_E194_P0.5451.00
32_E35_K0.5451.00
167_F171_T0.5411.00
222_I227_I0.5411.00
190_P194_P0.5401.00
115_D137_V0.5401.00
157_L226_F0.5361.00
164_P213_S0.5351.00
192_D196_H0.5341.00
22_W26_V0.5331.00
159_S221_Q0.5311.00
31_I36_K0.5290.99
115_D143_V0.5290.99
187_Y192_D0.5280.99
35_K40_D0.5260.99
201_L204_N0.5260.99
204_N207_A0.5220.99
198_V203_E0.5190.99
97_R108_H0.5190.99
42_R46_M0.5170.99
20_N24_V0.5170.99
190_P193_L0.5150.99
213_S217_Q0.5150.99
48_D75_V0.5150.99
40_D43_V0.5140.99
149_R152_K0.5110.99
119_V150_V0.5080.99
114_M146_E0.5070.99
47_K71_Q0.5040.99
131_P135_V0.5040.99
50_P72_Q0.5040.99
22_W31_I0.5040.99
196_H200_K0.5040.99
65_L117_L0.5020.99
69_G95_Q0.5010.99
64_C129_V0.5010.99
123_E152_K0.5000.99
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  
1y8cA 1 0.898 100 0.41 Contact Map
1wznA 4 0.8784 100 0.425 Contact Map
4obxA 2 0.8392 100 0.425 Contact Map
3g5lA 3 0.8275 100 0.435 Contact Map
4kdcA 1 0.8157 100 0.437 Contact Map
3bkwA 2 0.8157 100 0.438 Contact Map
4hgzA 4 0.8588 100 0.442 Contact Map
3d2lA 1 0.8824 100 0.443 Contact Map
3thrA 3 0.9882 100 0.446 Contact Map
4kdrA 1 0.7804 100 0.446 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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