GREMLIN Database
YCHJ - UPF0225 protein YchJ
UniProt: P37052 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12119
Length: 152 (123)
Sequences: 1634 (1256)
Seq/√Len: 113.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
95_S110_I3.8761.00
36_S48_Y3.1581.00
13_Y21_V3.0401.00
20_Y27_A2.9071.00
28_P32_H2.7931.00
81_F97_V2.6021.00
20_Y28_P2.3211.00
114_R126_D2.1821.00
18_H22_S2.1411.00
82_E112_R2.1301.00
21_V39_C1.9951.00
30_P92_G1.9751.00
56_S118_E1.9371.00
97_V108_A1.8801.00
77_G99_R1.8251.00
84_C93_F1.8031.00
93_F112_R1.7821.00
85_W89_D1.7661.00
50_I58_G1.6761.00
79_T97_V1.6461.00
97_V110_I1.6301.00
96_F113_S1.5771.00
20_Y32_H1.5751.00
20_Y52_T1.5601.00
38_Y77_G1.5241.00
20_Y48_Y1.4911.00
85_W92_G1.4831.00
109_I124_Y1.4731.00
22_S45_D1.4711.00
95_S112_R1.4421.00
13_Y43_M1.4391.00
29_D32_H1.4201.00
54_H116_L1.3701.00
79_T99_R1.3521.00
86_Q89_D1.3081.00
14_S18_H1.3041.00
21_V45_D1.2810.99
55_P118_E1.2750.99
53_W59_A1.2650.99
41_F49_L1.2630.99
31_E83_H1.2310.99
34_M94_V1.2140.99
102_E105_K1.2100.99
82_E93_F1.2000.99
44_Q64_A1.1940.99
26_V121_Q1.1850.99
54_H118_E1.1670.99
53_W124_Y1.1490.99
73_T109_I1.1340.99
47_D63_R1.1340.99
31_E35_R1.1170.98
88_A91_I1.1090.98
83_H92_G1.1070.98
81_F95_S1.0980.98
50_I63_R1.0870.98
101_T106_T1.0570.98
19_P32_H1.0440.98
82_E95_S1.0420.98
73_T102_E1.0400.98
11_V15_L1.0350.97
100_F107_G1.0320.97
49_L53_W1.0310.97
44_Q71_A1.0300.97
56_S116_L0.9930.97
91_I128_T0.9920.97
99_R106_T0.9910.97
29_D92_G0.9790.96
38_Y76_L0.9710.96
30_P83_H0.9570.96
46_A62_L0.9560.96
53_W62_L0.9540.96
19_P25_K0.9470.96
57_C125_I0.9350.95
86_Q91_I0.9320.95
76_L106_T0.9280.95
39_C42_V0.9150.95
12_E15_L0.9060.95
91_I114_R0.9050.94
124_Y127_G0.8980.94
99_R108_A0.8890.94
62_L65_E0.8860.94
44_Q70_F0.8840.94
46_A50_I0.8820.94
91_I116_L0.8790.94
76_L101_T0.8780.94
25_K28_P0.8670.93
46_A63_R0.8400.92
45_D51_K0.8280.91
21_V42_V0.8250.91
118_E123_Y0.8230.91
81_F110_I0.8220.91
55_P123_Y0.8210.91
46_A64_A0.8110.91
53_W57_C0.8100.90
75_W100_F0.8100.90
29_D85_W0.8090.90
50_I61_A0.7900.89
58_G62_L0.7820.89
47_D51_K0.7720.88
29_D83_H0.7670.88
51_K123_Y0.7650.88
89_D92_G0.7610.88
41_F109_I0.7510.87
13_Y45_D0.7470.87
30_P89_D0.7450.86
6_P13_Y0.7450.86
114_R127_G0.7420.86
84_C112_R0.7390.86
90_N117_K0.7370.86
93_F114_R0.7260.85
38_Y99_R0.7260.85
13_Y18_H0.7250.85
74_E101_T0.7110.84
50_I62_L0.7010.83
52_T123_Y0.6990.83
104_G107_G0.6980.83
73_T107_G0.6960.82
46_A65_E0.6960.82
31_E80_V0.6950.82
6_P43_M0.6920.82
19_P24_E0.6900.82
65_E72_H0.6890.82
26_V120_G0.6890.82
36_S52_T0.6830.81
114_R128_T0.6790.81
6_P42_V0.6770.81
20_Y26_V0.6730.80
54_H57_C0.6730.80
30_P85_W0.6650.80
46_A61_A0.6600.79
102_E109_I0.6590.79
3_Q43_M0.6560.79
18_H24_E0.6550.78
4_L9_S0.6470.78
50_I53_W0.6470.78
46_A70_F0.6410.77
8_G38_Y0.6390.77
54_H123_Y0.6380.77
51_K121_Q0.6310.76
53_W61_A0.6310.76
90_N121_Q0.6280.76
70_F73_T0.6180.74
39_C43_M0.6120.74
63_R71_A0.6090.73
83_H86_Q0.6080.73
49_L124_Y0.6040.73
21_V48_Y0.6000.72
38_Y42_V0.5990.72
53_W70_F0.5940.71
49_L98_A0.5910.71
30_P93_F0.5860.70
58_G123_Y0.5780.69
42_V49_L0.5680.68
49_L75_W0.5620.67
20_Y36_S0.5620.67
117_K123_Y0.5590.67
21_V43_M0.5570.67
53_W109_I0.5450.65
48_Y51_K0.5430.65
48_Y52_T0.5380.64
102_E107_G0.5350.64
62_L109_I0.5320.63
65_E124_Y0.5320.63
5_C16_C0.5280.63
8_G80_V0.5270.62
100_F106_T0.5270.62
59_A62_L0.5260.62
58_G125_I0.5240.62
76_L99_R0.5220.62
52_T129_R0.5220.62
105_K129_R0.5210.61
87_D90_N0.5180.61
42_V53_W0.5180.61
59_A64_A0.5170.61
4_L10_A0.5150.61
85_W90_N0.5140.60
30_P84_C0.5090.60
70_F80_V0.5040.59
74_E104_G0.5040.59
11_V14_S0.5020.59
75_W98_A0.5020.59
27_A33_L0.5020.59
5_C17_C0.5010.59
13_Y20_Y0.5000.58
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  
2i9wA 1 0.9868 100 0.077 Contact Map
2jq5A 1 0.8355 100 0.282 Contact Map
1tf5A 1 0.5789 99.2 0.807 Contact Map
1ozbI 1 0.1382 98.4 0.856 Contact Map
2ipcA 2 0.5921 98 0.87 Contact Map
3ke7A 2 0.7434 91.1 0.922 Contact Map
2r4iA 2 0.7303 87.2 0.928 Contact Map
3b7cA 2 0.6974 85.9 0.929 Contact Map
4i4kA 2 0.7434 84.8 0.93 Contact Map
3kspA 2 0.7434 82.6 0.932 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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