GREMLIN Database
TSAE - tRNA threonylcarbamoyladenosine biosynthesis protein TsaE
UniProt: P0AF67 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11757
Length: 153 (136)
Sequences: 4117 (2979)
Seq/√Len: 255.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
34_Y123_E2.5011.00
8_L14_T2.4871.00
45_S106_L2.3581.00
10_D13_A2.3321.00
25_C48_F2.2551.00
44_F48_F2.1931.00
9_P13_A2.0901.00
127_D134_E2.0581.00
48_F106_L2.0161.00
34_Y111_Q2.0061.00
127_D136_R1.9981.00
34_Y125_H1.9721.00
33_L45_S1.9481.00
17_L135_A1.9221.00
18_G44_F1.9191.00
126_I135_A1.8821.00
49_L76_V1.8221.00
15_L50_Q1.8041.00
68_P77_Y1.7511.00
15_L47_G1.7361.00
94_G97_D1.7201.00
77_Y103_A1.7001.00
19_E50_Q1.6861.00
32_Y110_P1.6741.00
49_L58_V1.6711.00
15_L46_R1.6571.00
25_C31_I1.6551.00
81_L113_G1.6251.00
21_V44_F1.5651.00
59_K67_E1.5441.00
34_Y110_P1.5411.00
18_G47_G1.5291.00
125_H136_R1.5191.00
8_L135_A1.5141.00
11_E15_L1.4881.00
125_H138_S1.4671.00
123_E138_S1.4551.00
11_E47_G1.4171.00
26_D29_T1.4101.00
8_L17_L1.4001.00
16_D20_R1.3771.00
54_H58_V1.3701.00
49_L54_H1.3481.00
32_Y121_D1.3441.00
79_F95_I1.3411.00
99_F105_C1.3221.00
47_G51_A1.3211.00
9_P132_G1.3201.00
7_P132_G1.3201.00
87_P115_G1.3151.00
129_Q132_G1.2811.00
44_F126_I1.2591.00
7_P134_E1.2371.00
8_L13_A1.2261.00
17_L137_V1.1881.00
19_E23_K1.1801.00
90_L95_I1.1771.00
11_E43_T1.1581.00
16_D19_E1.1431.00
22_A52_L1.1291.00
81_L110_P1.1291.00
31_I106_L1.1141.00
121_D141_S1.1091.00
66_V79_F1.0931.00
129_Q134_E1.0861.00
74_L104_I1.0821.00
22_A51_A1.0721.00
85_A112_Q1.0691.00
36_D128_Y1.0681.00
91_E96_R1.0471.00
68_P98_Y1.0441.00
123_E140_V1.0281.00
19_E51_A1.0141.00
29_T104_I1.0041.00
71_L74_L1.0021.00
37_L82_Y0.9981.00
76_V106_L0.9891.00
25_C29_T0.9881.00
14_T18_G0.9861.00
79_F105_C0.9821.00
117_L121_D0.9791.00
70_T75_M0.9761.00
95_I99_F0.9641.00
90_L113_G0.9531.00
99_F107_V0.9521.00
75_M103_A0.9501.00
122_V139_A0.9311.00
7_P129_Q0.9281.00
86_D89_E0.9201.00
71_L75_M0.9181.00
32_Y123_E0.9171.00
88_E91_E0.9171.00
79_F98_Y0.8961.00
30_V107_V0.8961.00
66_V98_Y0.8781.00
20_R24_A0.8681.00
48_F104_I0.8631.00
89_E112_Q0.8621.00
85_A89_E0.8590.99
14_T135_A0.8590.99
77_Y105_C0.8560.99
75_M101_N0.8460.99
46_R57_N0.8440.99
20_R23_K0.8430.99
31_I122_V0.8420.99
18_G22_A0.8360.99
66_V77_Y0.8300.99
90_L93_M0.8280.99
11_E46_R0.8250.99
45_S49_L0.8090.99
22_A48_F0.8050.99
21_V122_V0.8010.99
21_V124_I0.7960.99
89_E92_F0.7830.99
53_G73_N0.7720.99
31_I124_I0.7710.99
87_P114_T0.7700.99
14_T126_I0.7680.99
12_Q16_D0.7640.99
84_L90_L0.7600.99
33_L106_L0.7570.99
54_H76_V0.7550.99
14_T43_T0.7540.99
59_K65_L0.7510.99
53_G56_G0.7370.98
68_P75_M0.7320.98
13_A16_D0.7310.98
12_Q15_L0.7280.98
96_R100_A0.7120.98
15_L19_E0.7120.98
66_V93_M0.7110.98
25_C104_I0.7000.98
77_Y98_Y0.6900.98
81_L107_V0.6860.98
81_L112_Q0.6840.97
45_S48_F0.6820.97
32_Y113_G0.6780.97
72_D75_M0.6770.97
39_A128_Y0.6730.97
11_E18_G0.6670.97
46_R49_L0.6660.97
21_V48_F0.6640.97
74_L103_A0.6620.97
18_G48_F0.6510.97
8_L126_I0.6510.97
90_L116_V0.6380.96
124_I135_A0.6370.96
14_T17_L0.6370.96
8_L43_T0.6310.96
27_G74_L0.6300.96
118_P121_D0.6300.96
84_L93_M0.6290.96
66_V94_G0.6230.96
32_Y63_Y0.6150.95
84_L95_I0.6140.95
15_L43_T0.6130.95
76_V104_I0.6100.95
63_Y120_P0.6090.95
28_A103_A0.6080.95
32_Y120_P0.6070.95
46_R50_Q0.6050.95
124_I137_V0.6050.95
59_K64_T0.6040.95
121_D140_V0.6020.95
93_M98_Y0.6000.95
84_L112_Q0.5870.94
44_F47_G0.5870.94
64_T67_E0.5860.94
36_D127_D0.5860.94
43_T46_R0.5840.94
8_L47_G0.5830.94
71_L76_V0.5790.94
89_E93_M0.5770.94
120_P141_S0.5690.93
17_L21_V0.5620.93
14_T47_G0.5610.93
19_E47_G0.5610.93
111_Q125_H0.5600.92
89_E94_G0.5570.92
64_T69_Y0.5550.92
18_G51_A0.5540.92
45_S76_V0.5540.92
113_G117_L0.5540.92
46_R59_K0.5520.92
87_P116_V0.5510.92
22_A25_C0.5500.92
79_F118_P0.5390.91
36_D39_A0.5390.91
88_E116_V0.5270.90
122_V137_V0.5250.90
30_V105_C0.5240.90
54_H71_L0.5180.89
55_Q72_D0.5170.89
52_L104_I0.5110.89
81_L84_L0.5110.89
137_V141_S0.5090.88
28_A102_D0.5060.88
31_I48_F0.5050.88
70_T74_L0.5050.88
75_M102_D0.5050.88
58_V76_V0.5030.88
49_L67_E0.5030.88
35_G39_A0.5020.88
39_A126_I0.5000.88
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  
1htwA 1 1 100 0.291 Contact Map
1svmA 3 0.9869 97.4 0.844 Contact Map
2c95A 1 0.8301 97.4 0.844 Contact Map
2yogA 1 0.7516 97.3 0.845 Contact Map
3umfA 1 0.7974 97.3 0.846 Contact Map
2v54A 2 0.7974 97.3 0.847 Contact Map
1uj2A 3 0.8105 97.2 0.848 Contact Map
3kb2A 2 0.7582 97.2 0.848 Contact Map
2f6rA 1 0.915 97.2 0.848 Contact Map
2jeoA 3 0.8105 97.2 0.848 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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