GREMLIN Database
EXBD - Biopolymer transport protein ExbD
UniProt: P0ABV2 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10272
Length: 141 (128)
Sequences: 4538 (3216)
Seq/√Len: 284.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
69_K73_S4.3121.00
73_S80_P3.3701.00
108_K113_E3.2411.00
21_T24_I2.6121.00
113_E117_K2.5681.00
82_T85_T2.5191.00
70_A109_T2.4891.00
112_Y132_L2.4851.00
87_I124_Q2.4301.00
79_D89_A2.3761.00
90_L122_L2.1551.00
69_K75_F2.0791.00
68_V118_V2.0761.00
74_M118_V2.0301.00
20_V24_I1.9521.00
112_Y115_L1.9241.00
87_I91_N1.8601.00
114_T117_K1.8521.00
111_D114_T1.7941.00
94_T127_Y1.7291.00
75_F80_P1.7151.00
31_L34_F1.6981.00
89_A92_A1.6911.00
89_A93_L1.6551.00
47_V67_S1.6301.00
85_T89_A1.5861.00
106_A115_L1.4581.00
87_I121_T1.4541.00
64_V76_I1.4211.00
93_L96_G1.3931.00
83_D117_K1.3911.00
97_K100_T1.3491.00
88_T91_N1.3381.00
119_M130_I1.3361.00
19_N29_V1.3221.00
83_D114_T1.3181.00
67_S75_F1.2881.00
91_N95_E1.2861.00
21_T29_V1.2811.00
66_L118_V1.2741.00
103_F133_V1.2581.00
76_I89_A1.2421.00
121_T124_Q1.2091.00
102_I127_Y1.2031.00
68_V110_V1.1961.00
32_I35_M1.1941.00
65_Y105_R1.1921.00
72_N110_V1.1791.00
116_M120_D1.1401.00
18_I29_V1.1091.00
116_M132_L1.1031.00
27_M30_L1.1021.00
70_A107_D1.0991.00
29_V33_I1.0981.00
66_L76_I1.0961.00
106_A112_Y1.0921.00
88_T92_A1.0891.00
90_L127_Y1.0871.00
102_I122_L1.0841.00
68_V106_A1.0821.00
55_T134_G1.0811.00
85_T88_T1.0711.00
67_S105_R1.0591.00
110_V114_T1.0481.00
87_I125_A1.0331.00
31_L35_M1.0251.00
83_D121_T0.9981.00
19_N33_I0.9971.00
72_N114_T0.9951.00
116_M134_G0.9941.00
52_S134_G0.9941.00
120_D124_Q0.9751.00
68_V114_T0.9691.00
54_S120_D0.9661.00
83_D87_I0.9431.00
49_L112_Y0.9401.00
28_L33_I0.9241.00
48_N109_T0.9211.00
29_V36_V0.8851.00
23_F28_L0.8841.00
23_F33_I0.8781.00
92_A96_G0.8761.00
20_V33_I0.8711.00
101_T131_G0.8531.00
81_V89_A0.8531.00
45_V75_F0.8451.00
9_L12_N0.8441.00
77_G93_L0.8431.00
66_L102_I0.8301.00
122_L127_Y0.8221.00
105_R133_V0.8191.00
37_A41_A0.8151.00
23_F29_V0.8010.99
84_E121_T0.7910.99
81_V85_T0.7890.99
29_V35_M0.7880.99
74_M83_D0.7860.99
74_M86_M0.7820.99
27_M32_I0.7720.99
106_A110_V0.7680.99
76_I93_L0.7570.99
24_I28_L0.7560.99
123_H128_L0.7540.99
21_T32_I0.7440.99
43_V127_Y0.7420.99
79_D85_T0.7390.99
86_M90_L0.7370.99
52_S120_D0.7310.99
38_A41_A0.7310.99
94_T100_T0.7280.99
48_N108_K0.7270.99
18_I21_T0.7240.99
74_M114_T0.7240.99
52_S116_M0.7220.99
20_V23_F0.7180.99
32_I36_V0.7160.99
16_H34_F0.7140.99
16_H33_I0.7140.99
53_T124_Q0.7130.99
21_T27_M0.6930.98
47_V107_D0.6910.98
116_M119_M0.6850.98
26_V112_Y0.6770.98
45_V116_M0.6770.98
68_V74_M0.6740.98
21_T28_L0.6690.98
21_T39_P0.6660.98
29_V39_P0.6660.98
17_D29_V0.6590.98
65_Y103_F0.6580.98
120_D123_H0.6540.98
72_N111_D0.6510.98
18_I23_F0.6490.98
61_E97_K0.6480.98
20_V32_I0.6450.97
24_I27_M0.6410.97
33_I39_P0.6300.97
112_Y119_M0.6280.97
21_T30_L0.6270.97
27_M36_V0.6260.97
28_L34_F0.6250.97
21_T26_V0.6140.97
22_P28_L0.6130.97
85_T98_K0.6090.96
92_A95_E0.6010.96
76_I81_V0.6010.96
20_V27_M0.5940.96
114_T132_L0.5930.96
94_T129_K0.5910.96
121_T125_A0.5900.96
42_T47_V0.5840.95
48_N101_T0.5830.95
28_L39_P0.5810.95
51_A135_E0.5660.95
99_D129_K0.5590.94
49_L63_P0.5560.94
10_D13_G0.5560.94
24_I29_V0.5550.94
27_M34_F0.5540.94
26_V29_V0.5530.94
56_P59_R0.5520.94
70_A91_N0.5480.94
19_N22_P0.5460.94
13_G90_L0.5460.94
39_P42_T0.5450.93
94_T98_K0.5440.93
68_V115_L0.5410.93
38_A106_A0.5410.93
100_T127_Y0.5390.93
110_V115_L0.5390.93
119_M132_L0.5370.93
20_V31_L0.5340.93
64_V102_I0.5340.93
16_H20_V0.5340.93
20_V28_L0.5280.92
28_L37_A0.5270.92
80_P84_E0.5270.92
66_L86_M0.5270.92
45_V67_S0.5260.92
90_L125_A0.5240.92
53_T78_N0.5230.92
29_V32_I0.5220.92
42_T119_M0.5170.92
65_Y78_N0.5160.91
23_F32_I0.5160.91
28_L32_I0.5160.91
18_I33_I0.5150.91
72_N106_A0.5100.91
90_L102_I0.5090.91
54_S124_Q0.5040.91
17_D36_V0.5020.90
110_V131_G0.5000.90
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  
2pfuA 1 0.7021 99.8 0.475 Contact Map
2jwkA 2 0.4894 99.4 0.629 Contact Map
2w3zA 1 0.5319 84.2 0.88 Contact Map
3ghfA 2 0.5603 28.7 0.918 Contact Map
1uuqA 1 0.4894 26.9 0.92 Contact Map
1hf2A 2 0.5603 26.7 0.92 Contact Map
2obbA 2 0.3759 21.8 0.923 Contact Map
3w5fA 1 0.4468 21.3 0.923 Contact Map
3l07A 2 0.5106 18.1 0.926 Contact Map
1tg7A 1 0.4468 17.8 0.926 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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