GREMLIN Database
YJDI - Putative Cys-tRNA(Pro)/Cys-tRNA(Cys) deacylase YjdI
UniProt: O31650 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 159 (148)
Sequences: 4385 (2961)
Seq/√Len: 243.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
128_F141_K3.1801.00
56_A94_E2.5541.00
61_H116_P2.5471.00
146_D149_R2.5261.00
15_E21_Y2.5201.00
35_G69_V2.5121.00
82_T118_Y2.4921.00
148_A155_F2.3651.00
95_L106_C2.2901.00
57_A84_E2.1931.00
124_E155_F2.1521.00
143_A146_D2.0871.00
36_I40_E2.0541.00
81_V156_A2.0321.00
77_K157_E2.0011.00
65_F78_A1.9231.00
91_A94_E1.9181.00
121_A157_E1.8541.00
22_E141_K1.8491.00
62_Y98_V1.8421.00
13_L17_Q1.8371.00
114_L152_D1.8081.00
130_I141_K1.7591.00
17_Q150_S1.7241.00
24_L141_K1.6901.00
48_Y126_L1.6751.00
55_A78_A1.6151.00
47_K126_L1.5741.00
45_S48_Y1.5681.00
55_A73_L1.5471.00
92_M103_R1.4901.00
50_Y66_V1.4681.00
63_Y78_A1.4661.00
111_M117_T1.4431.00
47_K70_A1.4011.00
148_A153_A1.3881.00
121_A125_T1.3801.00
12_R15_E1.3671.00
54_V115_F1.3551.00
96_L102_L1.3301.00
12_R16_Q1.3171.00
81_V154_A1.2821.00
57_A61_H1.2811.00
145_Q148_A1.2721.00
23_V138_M1.2671.00
37_S41_K1.2631.00
44_Y130_I1.2561.00
124_E145_Q1.2491.00
24_L130_I1.2321.00
62_Y115_F1.2261.00
58_G84_E1.2171.00
74_D77_K1.2161.00
119_I148_A1.2161.00
76_K80_K1.2031.00
118_Y158_I1.2021.00
64_V111_M1.1951.00
50_Y123_A1.1931.00
48_Y141_K1.1871.00
11_V23_V1.1871.00
22_E128_F1.1611.00
57_A87_I1.1501.00
56_A88_E1.1471.00
19_I150_S1.1371.00
63_Y82_T1.1361.00
123_A155_F1.1231.00
9_N112_K1.1131.00
11_V15_E1.1081.00
37_S40_E1.1041.00
62_Y90_I1.0981.00
55_A63_Y1.0911.00
118_Y156_A1.0801.00
65_F158_I1.0781.00
53_L73_L1.0781.00
122_S125_T1.0771.00
121_A124_E1.0711.00
8_T12_R1.0671.00
14_I140_L1.0651.00
48_Y128_F1.0541.00
94_E98_V1.0321.00
90_I98_V1.0221.00
40_E46_L1.0121.00
116_P154_A1.0121.00
29_D37_S1.0111.00
53_L89_M1.0101.00
56_A62_Y1.0051.00
120_D157_E0.9551.00
63_Y84_E0.9491.00
84_E87_I0.9441.00
131_V142_L0.9421.00
94_E97_A0.9391.00
36_I46_L0.9361.00
71_E122_S0.9311.00
98_V115_F0.9201.00
123_A129_I0.9151.00
29_D32_P0.9121.00
77_K80_K0.8951.00
54_V95_L0.8881.00
56_A60_N0.8841.00
135_K138_M0.8821.00
119_I123_A0.8750.99
96_L103_R0.8750.99
26_Y29_D0.8740.99
95_L103_R0.8740.99
118_Y154_A0.8670.99
34_D37_S0.8670.99
102_L136_I0.8660.99
42_I130_I0.8630.99
133_A139_Q0.8520.99
57_A63_Y0.8470.99
126_L129_I0.8460.99
133_A140_L0.8430.99
27_K41_K0.8350.99
145_Q149_R0.8320.99
142_L146_D0.8300.99
17_Q149_R0.8270.99
40_E43_G0.8260.99
44_Y49_V0.8190.99
33_V37_S0.8170.99
26_Y137_G0.8010.99
25_G138_M0.7910.99
124_E148_A0.7840.99
28_T37_S0.7770.99
29_D33_V0.7750.99
127_D143_A0.7740.99
119_I153_A0.7670.99
108_P147_L0.7620.99
46_L70_A0.7610.99
50_Y129_I0.7610.99
26_Y42_I0.7600.99
35_G46_L0.7580.98
13_L16_Q0.7490.98
61_H84_E0.7440.98
38_V139_Q0.7440.98
20_S146_D0.7440.98
9_N12_R0.7380.98
42_I139_Q0.7380.98
49_V139_Q0.7370.98
109_I151_C0.7360.98
14_I21_Y0.7340.98
52_T64_V0.7310.98
32_P37_S0.7250.98
78_A87_I0.7210.98
50_Y122_S0.7190.98
109_I147_L0.7150.98
124_E144_P0.7140.98
93_K96_L0.7120.98
119_I155_F0.7110.98
88_E91_A0.7080.98
63_Y87_I0.7060.98
50_Y126_L0.6930.97
57_A82_T0.6910.97
36_I70_A0.6760.97
54_V90_I0.6750.97
60_N84_E0.6710.97
131_V147_L0.6700.97
11_V21_Y0.6690.97
100_G112_K0.6660.97
119_I147_L0.6640.97
92_M95_L0.6630.96
144_P155_F0.6580.96
132_S139_Q0.6570.96
19_I146_D0.6570.96
66_V119_I0.6510.96
145_Q155_F0.6500.96
26_Y32_P0.6480.96
29_D34_D0.6460.96
55_A65_F0.6430.96
98_V113_K0.6390.96
44_Y141_K0.6310.95
67_V73_L0.6260.95
92_M96_L0.6210.95
15_E20_S0.6200.95
65_F82_T0.6160.95
14_I19_I0.6140.95
77_K81_V0.6120.95
65_F73_L0.5950.94
76_K85_K0.5940.94
55_A87_I0.5940.94
130_I139_Q0.5850.93
19_I22_E0.5840.93
57_A60_N0.5840.93
48_Y127_D0.5830.93
64_V115_F0.5820.93
111_M115_F0.5790.93
48_Y130_I0.5720.92
35_G39_A0.5710.92
65_F118_Y0.5680.92
34_D38_V0.5670.92
21_Y146_D0.5620.92
10_A140_L0.5610.92
54_V99_T0.5600.92
54_V106_C0.5560.91
53_L67_V0.5550.91
71_E120_D0.5540.91
110_G115_F0.5510.91
16_Q113_K0.5510.91
13_L150_S0.5510.91
99_T112_K0.5510.91
14_I150_S0.5470.91
24_L128_F0.5460.91
50_Y67_V0.5430.90
68_P71_E0.5410.90
56_A91_A0.5400.90
67_V158_I0.5380.90
55_A89_M0.5340.90
20_S143_A0.5320.89
66_V131_V0.5260.89
50_Y120_D0.5250.89
67_V71_E0.5250.89
25_G135_K0.5240.89
29_D41_K0.5240.89
10_A107_S0.5190.88
70_A125_T0.5180.88
56_A90_I0.5160.88
38_V49_V0.5130.88
117_T151_C0.5130.88
28_T32_P0.5110.87
101_Y107_S0.5090.87
51_K101_Y0.5060.87
10_A14_I0.5060.87
45_S126_L0.5050.87
38_V44_Y0.5000.86
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  
2dxaA 1 0.9623 100 0.213 Contact Map
1dbuA 1 0.9245 100 0.215 Contact Map
3op6A 2 0.9434 100 0.22 Contact Map
2z0xA 1 0.9686 100 0.223 Contact Map
1vjfA 1 0.956 100 0.241 Contact Map
1wdvA 1 0.9371 100 0.244 Contact Map
1vkiA 2 0.9623 100 0.257 Contact Map
3memA 1 0.8553 100 0.377 Contact Map
2j3lA 2 0.9748 97.9 0.807 Contact Map
1s3cA 2 0.7736 48.8 0.919 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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