GREMLIN Database
YQXD - UPF0178 protein YqxD
UniProt: P17868 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 164 (144)
Sequences: 1445 (1002)
Seq/√Len: 83.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
72_Y76_H3.9941.00
92_S96_N3.1241.00
94_L99_V2.9341.00
15_T41_L2.9171.00
18_V29_I2.6181.00
72_Y75_N2.6001.00
39_Q58_K2.5611.00
94_L101_V2.4531.00
146_E150_T2.3891.00
103_S109_Y2.3881.00
35_E153_Q2.2611.00
77_V99_V2.1851.00
77_V83_V2.1661.00
30_L42_F2.0771.00
31_Q149_I2.0621.00
127_Q132_V1.9751.00
79_P98_N1.8901.00
83_V94_L1.8631.00
38_V156_L1.8231.00
20_A42_F1.7561.00
29_I40_V1.7241.00
100_S155_I1.7041.00
25_V140_L1.6981.00
86_Q104_E1.6591.00
60_K72_Y1.6511.00
122_H126_K1.5761.00
43_V69_A1.5681.00
36_Y153_Q1.5671.00
131_G134_A1.5511.00
140_L145_R1.5291.00
141_N144_D1.5251.00
37_E56_E1.4980.99
125_G129_R1.4910.99
15_T39_Q1.4900.99
86_Q103_S1.4560.99
41_L58_K1.4440.99
28_E145_R1.4410.99
96_N115_D1.4250.99
71_L93_L1.4210.99
30_L57_E1.4050.99
16_I33_A1.3760.99
16_I152_L1.3630.99
28_E149_I1.3400.99
77_V94_L1.3340.99
34_S55_N1.3150.99
108_L151_L1.3110.98
89_G118_L1.2940.98
151_L154_K1.2920.98
100_S158_N1.2820.98
18_V42_F1.2750.98
92_S118_L1.2730.98
60_K76_H1.2650.98
153_Q157_S1.2560.98
144_D147_R1.2550.98
110_K113_T1.2370.98
65_H68_A1.1950.97
68_A71_L1.1840.97
95_L113_T1.1610.97
16_I29_I1.1560.97
32_T156_L1.1510.97
17_F41_L1.1450.96
143_E147_R1.1310.96
82_I156_L1.1080.96
84_V102_M1.0910.95
126_K130_K1.0870.95
43_V73_I1.0460.94
15_T78_K1.0450.94
15_T58_K1.0360.94
32_T149_I1.0260.93
42_F51_L1.0220.93
101_V109_Y1.0190.93
74_A97_R1.0190.93
119_E122_H1.0120.93
17_F73_I1.0110.93
115_D122_H1.0070.93
134_A137_P0.9980.93
54_S57_E0.9920.92
95_L114_I0.9730.92
67_E71_L0.9690.91
26_K42_F0.9680.91
36_Y156_L0.9570.91
46_F59_W0.9540.91
115_D119_E0.9470.90
101_V108_L0.9470.90
29_I152_L0.9390.90
100_S108_L0.9370.90
124_S134_A0.9330.90
103_S107_R0.9270.89
92_S115_D0.9100.89
47_E64_P0.9010.88
102_M155_I0.9010.88
18_V26_K0.8990.88
43_V76_H0.8960.88
71_L75_N0.8900.87
130_K133_Y0.8760.87
62_V69_A0.8680.86
82_I108_L0.8650.86
142_K145_R0.8640.86
82_I155_I0.8630.86
51_L59_W0.8500.85
40_V57_E0.8500.85
98_N111_E0.8460.85
108_L155_I0.8450.85
116_F120_G0.8300.84
119_E123_F0.8230.83
75_N93_L0.8020.81
83_V99_V0.8020.81
89_G122_H0.7880.80
119_E126_K0.7740.79
126_K129_R0.7710.79
14_K28_E0.7700.79
28_E36_Y0.7670.78
38_V41_L0.7660.78
95_L122_H0.7640.78
43_V62_V0.7590.78
39_Q56_E0.7440.76
28_E140_L0.7400.76
51_L57_E0.7370.76
151_L155_I0.7370.76
62_V72_Y0.7330.75
150_T154_K0.7290.75
154_K157_S0.7280.75
42_F59_W0.7250.74
74_A94_L0.7190.74
17_F72_Y0.7120.73
78_K97_R0.7120.73
22_A42_F0.7100.73
113_T117_A0.7060.72
122_H130_K0.7050.72
95_L111_E0.7010.72
25_V148_F0.6990.72
105_R131_G0.6980.72
32_T153_Q0.6980.72
91_A109_Y0.6890.71
34_S54_S0.6890.71
50_Q53_R0.6850.70
18_V22_A0.6840.70
48_H59_W0.6820.70
84_V97_R0.6710.69
88_I117_A0.6700.69
34_S53_R0.6700.69
44_A59_W0.6600.67
64_P68_A0.6590.67
42_F57_E0.6530.67
20_A44_A0.6480.66
29_I84_V0.6480.66
102_M151_L0.6440.65
110_K117_A0.6430.65
20_A24_P0.6420.65
149_I153_Q0.6290.64
41_L76_H0.6290.64
68_A93_L0.6280.64
120_G123_F0.6260.63
38_V80_G0.6250.63
95_L99_V0.6130.62
45_S73_I0.6110.61
139_K145_R0.6090.61
25_V28_E0.6090.61
123_F127_Q0.6070.61
63_D72_Y0.6020.60
66_K71_L0.6010.60
45_S68_A0.5970.60
17_F43_V0.5970.60
37_E54_S0.5960.60
29_I105_R0.5940.59
32_T35_E0.5920.59
75_N140_L0.5910.59
102_M108_L0.5900.59
142_K146_E0.5880.59
33_A40_V0.5880.59
18_V23_C0.5860.58
67_E75_N0.5850.58
15_T151_L0.5790.57
117_A122_H0.5790.57
37_E55_N0.5770.57
22_A128_R0.5740.57
81_D152_L0.5730.57
88_I118_L0.5730.57
34_S56_E0.5690.56
122_H129_R0.5670.56
79_P157_S0.5660.56
147_R151_L0.5630.55
108_L154_K0.5600.55
45_S62_V0.5580.55
14_K78_K0.5580.55
108_L158_N0.5540.54
88_I95_L0.5540.54
33_A56_E0.5530.54
22_A50_Q0.5490.53
45_S65_H0.5430.53
26_K44_A0.5420.52
29_I148_F0.5400.52
51_L54_S0.5400.52
73_I90_L0.5390.52
22_A44_A0.5330.51
85_T101_V0.5290.51
107_R120_G0.5260.50
102_M152_L0.5250.50
62_V128_R0.5250.50
15_T76_H0.5240.50
31_Q35_E0.5210.50
20_A52_S0.5120.49
22_A104_E0.5120.49
47_E59_W0.5090.48
30_L52_S0.5090.48
115_D123_F0.5090.48
84_V104_E0.5070.48
64_P67_E0.5060.48
47_E50_Q0.5050.48
86_Q109_Y0.5040.47
17_F77_V0.5040.47
15_T155_I0.5030.47
105_R144_D0.5030.47
80_G97_R0.5010.47
39_Q78_K0.5000.47
45_S67_E0.5000.47
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  
4mj7A 2 0.7256 81.7 0.927 Contact Map
3hblA 4 0.8902 78.2 0.929 Contact Map
3ouzA 2 0.8841 75.2 0.931 Contact Map
2vpqA 2 0.872 64.3 0.936 Contact Map
4qshA 4 0.7561 62 0.937 Contact Map
3votA 1 0.8537 60.3 0.938 Contact Map
3c48A 2 0.9329 58 0.939 Contact Map
4rcnA 6 0.8415 55.7 0.939 Contact Map
2jjmA 4 0.8963 53.2 0.94 Contact Map
4pqgA 2 0.8963 52.4 0.94 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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