GREMLIN Database
LYSD - Lysozyme RrrD
UniProt: P78285 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13635
Length: 165 (142)
Sequences: 1539 (1096)
Seq/√Len: 92.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
127_D130_G3.4741.00
55_H78_D3.3721.00
96_E100_G2.6501.00
134_Q137_R2.5711.00
49_W62_L2.4471.00
24_L100_G2.2891.00
95_P98_T2.2491.00
89_Y115_R2.1931.00
139_T150_M2.1931.00
122_K134_Q2.1671.00
105_F109_V2.0791.00
139_T145_Q2.0141.00
85_Q111_A1.9951.00
24_L96_E1.9211.00
132_C160_C1.8961.00
37_V53_H1.8561.00
31_N104_S1.8231.00
140_Y145_Q1.8001.00
43_K49_W1.7721.00
48_V56_T1.7651.00
32_D72_K1.7131.00
34_L155_I1.7121.00
147_K151_T1.6771.00
46_V141_A1.6751.00
157_R161_L1.6311.00
122_K130_G1.6041.00
119_L134_Q1.5801.00
91_K124_N1.5611.00
34_L151_T1.5281.00
45_I146_W1.5131.00
55_H107_Y1.5111.00
52_C71_C1.5051.00
41_P63_G1.4891.00
104_S156_E1.4821.00
98_T128_I1.4080.99
37_V68_K1.4020.99
133_D157_R1.3950.99
82_V106_V1.3840.99
136_R154_E1.3820.99
136_R157_R1.3650.99
43_K47_G1.3320.99
51_V66_Y1.3150.99
90_I94_I1.2960.99
25_I29_S1.2870.99
55_H74_L1.2540.99
86_I103_Y1.2430.98
87_N99_R1.2390.98
122_K127_D1.2350.98
61_M64_K1.2220.98
68_K72_K1.2210.98
141_A146_W1.2080.98
82_V86_I1.1950.98
109_V114_F1.1740.98
43_K48_V1.1470.97
94_I123_I1.1460.97
41_P65_T1.1380.97
67_T70_E1.1370.97
117_S138_W1.1260.97
30_G34_L1.1260.97
123_I160_C1.1260.97
23_V83_A1.1240.97
66_Y74_L1.1220.97
52_C66_Y1.1190.97
66_Y71_C1.1060.97
41_P64_K1.1050.97
32_D53_H1.1020.97
40_I65_T1.0830.96
105_F114_F1.0790.96
123_I131_A1.0740.96
145_Q150_M1.0660.96
105_F135_L1.0630.96
39_Y68_K1.0600.96
60_I64_K1.0470.96
69_A73_A1.0470.96
153_R156_E1.0330.95
86_I106_V1.0200.95
39_Y71_C1.0200.95
44_D47_G0.9980.94
37_V71_C0.9830.94
89_Y120_L0.9770.94
70_E74_L0.9700.93
96_E99_R0.9640.93
23_V27_G0.9610.93
44_D48_V0.9460.92
57_G60_I0.9440.92
41_P51_V0.9330.92
90_I120_L0.9290.92
28_P76_N0.9160.91
120_L124_N0.9140.91
53_H71_C0.9120.91
147_K150_M0.9100.91
133_D161_L0.8950.90
83_A103_Y0.8810.89
83_A99_R0.8810.89
118_T137_R0.8740.89
106_V114_F0.8740.89
122_K125_Q0.8480.88
37_V72_K0.8410.87
146_W149_L0.8360.87
121_R125_Q0.8350.87
45_I48_V0.8290.86
134_Q138_W0.8280.86
56_T60_I0.8270.86
92_V123_I0.8090.85
27_G100_G0.8080.85
114_F120_L0.8080.85
94_I102_L0.8040.85
140_Y150_M0.7990.84
118_T134_Q0.7970.84
78_D82_V0.7940.84
129_K133_D0.7920.84
132_C161_L0.7900.84
135_L160_C0.7900.84
53_H68_K0.7830.83
43_K62_L0.7760.83
59_D64_K0.7710.82
151_T155_I0.7700.82
28_P79_L0.7700.82
119_L135_L0.7680.82
90_I123_I0.7670.82
41_P49_W0.7650.82
38_S42_Y0.7630.81
24_L27_G0.7580.81
23_V31_N0.7550.81
92_V124_N0.7540.81
114_F117_S0.7480.80
70_E73_A0.7470.80
55_H59_D0.7460.80
53_H72_K0.7410.80
89_Y114_F0.7390.79
60_I63_G0.7380.79
119_L137_R0.7300.79
118_T122_K0.7290.78
105_F138_W0.7280.78
102_L123_I0.7270.78
41_P60_I0.7260.78
158_E162_W0.7260.78
112_G116_T0.7230.78
97_T159_V0.7090.76
99_R103_Y0.6970.75
50_T148_G0.6960.75
49_W60_I0.6950.75
42_Y50_T0.6930.75
53_H75_L0.6900.75
31_N79_L0.6860.74
98_T102_L0.6860.74
122_K137_R0.6860.74
33_G155_I0.6850.74
105_F120_L0.6840.74
146_W150_M0.6820.74
32_D68_K0.6800.73
41_P61_M0.6780.73
56_T62_L0.6780.73
90_I124_N0.6680.72
118_T121_R0.6630.72
129_K161_L0.6610.71
24_L99_R0.6580.71
146_W151_T0.6550.71
131_A157_R0.6550.71
113_N138_W0.6530.70
132_C157_R0.6530.70
133_D136_R0.6530.70
26_T100_G0.6480.70
117_S120_L0.6430.69
136_R139_T0.6420.69
45_I141_A0.6410.69
22_S83_A0.6400.69
123_I128_I0.6370.69
28_P75_L0.6370.69
118_T138_W0.6340.68
64_K70_E0.6270.67
131_A160_C0.6220.67
23_V79_L0.6190.66
102_L119_L0.6170.66
90_I102_L0.6150.66
53_H107_Y0.6080.65
97_T162_W0.6000.64
108_N153_R0.5950.63
36_G75_L0.5940.63
136_R150_M0.5850.62
94_I98_T0.5840.62
88_P115_R0.5780.61
109_V135_L0.5750.61
109_V117_S0.5710.60
86_I99_R0.5700.60
115_R120_L0.5670.60
157_R160_C0.5640.59
39_Y66_Y0.5600.59
91_K120_L0.5590.59
56_T63_G0.5570.58
23_V28_P0.5500.57
42_Y108_N0.5490.57
51_V64_K0.5490.57
82_V103_Y0.5480.57
84_R88_P0.5440.56
83_A86_I0.5410.56
51_V60_I0.5400.56
35_E108_N0.5400.56
26_T29_S0.5380.56
73_A77_K0.5340.55
113_N117_S0.5320.55
27_G31_N0.5310.55
154_E158_E0.5290.54
109_V113_N0.5270.54
30_G159_V0.5210.53
81_T111_A0.5170.53
132_C135_L0.5160.53
141_A149_L0.5150.52
93_D128_I0.5120.52
78_D81_T0.5050.51
94_I128_I0.5040.51
69_A72_K0.5010.51
108_N149_L0.5000.50
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  
3hdeA 2 0.9818 100 0.108 Contact Map
1xjtA 1 0.9697 100 0.122 Contact Map
1xjuA 2 0.8545 100 0.156 Contact Map
2anvA 4 0.8606 100 0.157 Contact Map
3hdfA 1 0.8061 100 0.157 Contact Map
4yx7C 1 0.9636 100 0.265 Contact Map
4zwjA 1 0.8182 100 0.283 Contact Map
4e97A 1 0.9091 100 0.288 Contact Map
4httA 1 0.0242 100 0.292 Contact Map
1swyA 1 0.8242 100 0.308 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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