GREMLIN Database
HDED - Protein HdeD
UniProt: P0AET5 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11495
Length: 190 (168)
Sequences: 1848 (1478)
Seq/√Len: 114.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
25_Q183_A5.3681.00
136_W140_V3.9691.00
116_C149_A3.8371.00
126_W139_L3.3541.00
32_F180_F3.1611.00
94_Y98_R3.1501.00
65_I86_A2.7241.00
35_G173_I2.6421.00
130_R135_S2.6171.00
119_G142_G2.5691.00
109_A113_G2.4751.00
36_L40_S2.3641.00
135_S139_L2.3031.00
58_I93_G2.2591.00
21_R187_V2.2291.00
28_A180_F2.1751.00
22_R26_F2.0831.00
25_Q29_V2.0421.00
54_G93_G1.9841.00
123_L142_G1.9761.00
65_I90_L1.9541.00
80_L84_L1.9531.00
28_A183_A1.9361.00
28_A176_A1.9181.00
139_L143_V1.9131.00
61_G86_A1.8871.00
113_G117_V1.8791.00
46_G104_I1.8761.00
68_L83_F1.8701.00
61_G90_L1.8511.00
33_I37_L1.8431.00
166_T170_I1.8271.00
55_A59_C1.8241.00
51_T55_A1.8021.00
143_V147_V1.6781.00
21_R25_Q1.6701.00
64_L86_A1.5951.00
25_Q180_F1.5871.00
38_C45_S1.5561.00
32_F176_A1.4861.00
50_S104_I1.4641.00
32_F173_I1.4401.00
68_L86_A1.3951.00
126_W135_S1.3951.00
147_V151_I1.3691.00
118_A122_R1.3401.00
123_L146_I1.3371.00
91_L94_Y1.3291.00
39_I169_G1.3241.00
120_V124_M1.3161.00
48_I52_V1.3131.00
119_G123_L1.3091.00
119_G145_D1.3071.00
37_L41_F1.2950.99
116_C146_I1.2880.99
119_G146_I1.2720.99
112_A149_A1.2560.99
38_C169_G1.2430.99
25_Q184_S1.2240.99
116_C153_L1.2210.99
119_G149_A1.2120.99
173_I177_A1.1770.99
79_V83_F1.1760.99
42_P49_L1.1580.99
177_A181_S1.1410.99
58_I90_L1.1350.99
96_F103_G1.1340.99
92_I96_F1.1200.99
160_S164_V1.1120.98
87_V91_L1.1070.98
46_G165_S1.1000.98
126_W142_G1.0970.98
46_G108_A1.0730.98
52_V55_A1.0590.98
123_L139_L1.0270.97
66_V70_S1.0260.97
166_T169_G1.0220.97
131_S135_S1.0210.97
184_S187_V1.0120.97
122_R171_E1.0060.97
112_A153_L1.0010.97
65_I69_F1.0010.97
39_I173_I0.9990.97
36_L173_I0.9790.96
155_A159_V0.9280.95
83_F87_V0.9270.95
84_L140_V0.9150.95
21_R184_S0.9140.95
140_V143_V0.9090.95
108_A166_T0.8970.94
108_A152_F0.8960.94
27_I60_S0.8890.94
115_F171_E0.8850.94
127_Y159_V0.8710.93
134_G137_L0.8590.93
24_I92_I0.8580.93
61_G93_G0.8570.93
21_R183_A0.8550.93
31_L175_S0.8520.93
148_I167_L0.8460.92
163_L167_L0.8390.92
29_V183_A0.8370.92
124_M128_R0.8370.92
104_I160_S0.8370.92
115_F118_A0.8360.92
19_K127_Y0.8340.92
112_A115_F0.8320.92
152_F175_S0.8240.91
148_I152_F0.8160.91
63_A139_L0.8120.91
112_A116_C0.8120.91
124_M127_Y0.8080.91
55_A80_L0.7850.89
174_F177_A0.7770.89
35_G169_G0.7670.88
89_Y114_L0.7630.88
94_Y117_V0.7580.88
127_Y130_R0.7540.87
21_R24_I0.7470.87
127_Y135_S0.7440.87
55_A66_V0.7400.86
74_H79_V0.7390.86
28_A32_F0.7390.86
41_F44_V0.7320.86
170_I174_F0.7290.85
183_A187_V0.7280.85
76_F80_L0.7270.85
137_L140_V0.7210.85
32_F175_S0.7160.84
109_A153_L0.7150.84
168_V175_S0.7120.84
149_A182_F0.7110.84
48_I133_K0.7090.84
29_V36_L0.7080.84
50_S108_A0.7070.84
81_S86_A0.7050.83
92_I117_V0.7050.83
116_C119_G0.7050.83
162_T166_T0.7040.83
107_I164_V0.7040.83
105_F110_F0.7020.83
58_I97_I0.6970.83
133_K136_W0.6940.83
73_S110_F0.6940.83
91_L95_F0.6880.82
127_Y131_S0.6870.82
25_Q187_V0.6830.81
108_A162_T0.6820.81
54_G94_Y0.6800.81
99_A103_G0.6730.81
142_G179_L0.6650.80
156_T159_V0.6570.79
21_R180_F0.6510.78
129_Q135_S0.6460.78
181_S184_S0.6420.77
39_I112_A0.6410.77
37_L81_S0.6400.77
123_L127_Y0.6390.77
159_V166_T0.6330.76
102_L128_R0.6240.75
146_I158_M0.6190.75
150_W155_A0.6140.74
103_G115_F0.6130.74
122_R142_G0.6070.73
140_V156_T0.6050.73
95_F110_F0.6050.73
99_A102_L0.6040.73
46_G115_F0.6020.73
45_S165_S0.6020.73
81_S85_V0.6000.72
112_A152_F0.5990.72
109_A144_L0.5990.72
45_S49_L0.5970.72
68_L79_V0.5960.72
53_V96_F0.5950.72
109_A156_T0.5950.72
132_M135_S0.5930.72
21_R68_L0.5920.71
41_F122_R0.5910.71
115_F148_I0.5890.71
22_R25_Q0.5870.71
98_R161_V0.5870.71
62_I66_V0.5850.71
43_F165_S0.5840.70
156_T163_L0.5840.70
152_F160_S0.5810.70
51_T97_I0.5770.70
103_G106_A0.5700.69
115_F145_D0.5640.68
56_L172_L0.5640.68
67_G178_S0.5590.67
63_A167_L0.5590.67
17_L20_H0.5580.67
108_A168_V0.5580.67
77_W80_L0.5570.67
91_L98_R0.5540.66
136_W170_I0.5540.66
180_F184_S0.5510.66
27_I172_L0.5500.66
69_F83_F0.5500.66
41_F52_V0.5500.66
54_G58_I0.5480.66
138_Q141_I0.5460.65
111_I167_L0.5450.65
144_L151_I0.5450.65
119_G164_V0.5450.65
157_P160_S0.5440.65
19_K74_H0.5440.65
159_V167_L0.5430.65
63_A67_G0.5410.65
29_V52_V0.5400.64
91_L101_E0.5380.64
92_I110_F0.5380.64
57_L106_A0.5370.64
117_V132_M0.5370.64
126_W138_Q0.5360.64
57_L114_L0.5350.64
51_T100_P0.5350.64
115_F119_G0.5350.64
41_F45_S0.5340.64
126_W129_Q0.5340.64
162_T170_I0.5340.64
107_I165_S0.5310.63
115_F152_F0.5300.63
53_V57_L0.5290.63
40_S146_I0.5260.62
106_A151_I0.5250.62
40_S63_A0.5240.62
89_Y92_I0.5190.61
24_I183_A0.5190.61
21_R134_G0.5190.61
69_F84_L0.5180.61
44_V155_A0.5150.61
31_L56_L0.5140.61
27_I115_F0.5130.61
164_V168_V0.5120.60
50_S57_L0.5120.60
183_A186_F0.5110.60
46_G168_V0.5100.60
114_L118_A0.5100.60
32_F177_A0.5100.60
109_A112_A0.5090.60
92_I114_L0.5070.60
54_G97_I0.5070.60
44_V100_P0.5060.60
56_L164_V0.5040.59
130_R139_L0.5040.59
35_G174_F0.5030.59
46_G125_S0.5030.59
123_L143_V0.5030.59
31_L167_L0.5020.59
89_Y175_S0.5000.59
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  
4pgrA 1 0.8684 40.9 0.909 Contact Map
2xq2A 2 0.9421 34.5 0.913 Contact Map
4i0uA 4 0.3684 25 0.918 Contact Map
4ev6A 3 0.3842 22.5 0.92 Contact Map
2i68A 2 0.4053 21.3 0.921 Contact Map
4djkA 2 0.9737 21 0.921 Contact Map
3giaA 1 0.9368 18.3 0.923 Contact Map
4j05A 3 0.8368 15.5 0.926 Contact Map
3wdoA 1 0.9 11.6 0.93 Contact Map
4lz6A 1 0.7 9.9 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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