GREMLIN Database
YDDL - Putative uncharacterized protein YddL
UniProt: P77519 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13783
Length: 96 (92)
Sequences: 382 (197)
Seq/√Len: 20.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
55_T83_G4.7261.00
40_A55_T3.5681.00
35_Y76_H2.9120.99
58_R80_D2.2040.95
67_I71_M2.1070.93
40_A43_Y2.0560.93
5_I10_V2.0400.92
3_L7_A2.0370.92
85_N89_N1.9920.91
19_A92_R1.9460.90
35_Y62_K1.9090.89
11_T14_L1.8940.89
41_L54_K1.8500.88
24_V43_Y1.8130.87
24_V34_L1.6180.80
43_Y52_G1.5850.78
43_Y54_K1.5610.77
4_K8_V1.5530.77
4_K10_V1.5500.77
6_V11_T1.5380.76
23_E27_K1.5380.76
14_L17_N1.4450.71
23_E26_N1.4280.70
5_I8_V1.4210.70
4_K14_L1.4180.70
3_L20_H1.3960.69
17_N20_H1.3480.66
12_G18_V1.2860.62
56_Y76_H1.2470.60
64_E72_I1.2470.60
3_L13_L1.2320.59
5_I12_G1.2260.58
35_Y38_V1.1980.56
35_Y78_E1.1870.56
3_L6_V1.1540.54
9_V37_K1.1250.52
23_E66_Q1.1200.51
4_K20_H1.1120.51
42_R52_G1.1090.51
38_V61_F1.1060.50
9_V19_A1.0680.48
9_V64_E1.0680.48
12_G17_N1.0290.45
11_T17_N1.0290.45
62_K76_H1.0170.45
61_F76_H1.0070.44
89_N92_R1.0010.44
28_D69_D0.9950.43
77_W81_F0.9850.42
43_Y58_R0.9840.42
86_D91_S0.9700.42
40_A56_Y0.9680.41
9_V12_G0.9480.40
85_N92_R0.9320.39
56_Y83_G0.9300.39
39_T78_E0.9270.39
38_V49_R0.9260.39
45_T51_D0.9220.39
77_W84_Y0.9120.38
16_A19_A0.9020.37
56_Y74_F0.8730.36
42_R45_T0.8680.35
58_R78_E0.8570.35
74_F83_G0.8540.34
59_L91_S0.8440.34
6_V10_V0.8310.33
86_D89_N0.8280.33
22_A31_K0.8250.33
47_D52_G0.8220.32
39_T46_D0.8180.32
10_V14_L0.8110.32
40_A76_H0.8060.32
1_M8_V0.8040.31
57_A88_A0.8030.31
42_R51_D0.7880.31
7_A12_G0.7780.30
46_D58_R0.7770.30
34_L44_F0.7630.29
2_K34_L0.7610.29
39_T51_D0.7490.28
3_L14_L0.7380.28
35_Y60_G0.7290.27
32_L61_F0.7280.27
88_A91_S0.7270.27
3_L11_T0.7210.27
10_V13_L0.7000.26
30_N60_G0.6920.25
40_A45_T0.6910.25
24_V32_L0.6870.25
5_I13_L0.6870.25
5_I80_D0.6820.25
35_Y83_G0.6810.25
61_F74_F0.6790.25
85_N88_A0.6460.23
33_D62_K0.6450.23
13_L16_A0.6350.23
47_D82_K0.6270.22
9_V18_V0.6160.22
34_L79_Y0.6100.22
24_V91_S0.6100.22
68_N78_E0.6090.22
44_F52_G0.6060.21
44_F84_Y0.6040.21
36_G62_K0.6020.21
17_N39_T0.6010.21
28_D73_G0.5940.21
77_W90_G0.5920.21
8_V34_L0.5820.20
7_A62_K0.5810.20
33_D53_D0.5790.20
20_H39_T0.5730.20
4_K11_T0.5720.20
42_R87_E0.5710.20
56_Y67_I0.5570.19
8_V20_H0.5550.19
57_A80_D0.5540.19
31_K64_E0.5520.19
55_T67_I0.5510.19
27_K36_G0.5490.19
39_T44_F0.5470.19
30_N74_F0.5450.19
59_L79_Y0.5450.19
12_G24_V0.5430.19
45_T49_R0.5430.19
30_N73_G0.5410.19
45_T54_K0.5310.18
15_A20_H0.5280.18
30_N76_H0.5240.18
38_V74_F0.5230.18
7_A20_H0.5120.18
3_L37_K0.5070.17
62_K87_E0.5050.17
8_V17_N0.5050.17
30_N87_E0.5030.17
64_E70_Q0.5020.17
5_I11_T0.5020.17
10_V20_H0.5010.17
31_K66_Q0.5000.17
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  
1phoA 3 0.75 99.3 0.698 Contact Map
2j1nA 3 0.7396 99.3 0.703 Contact Map
3nsgA 3 0.7604 99.2 0.712 Contact Map
2zfgA 3 0.7604 99.2 0.716 Contact Map
3vy8X 3 0.6771 97.6 0.823 Contact Map
2fgqX 3 0.6875 97.1 0.837 Contact Map
2porA 3 0.6354 94.8 0.868 Contact Map
3prnA 3 0.6771 94.5 0.869 Contact Map
3wi5A 3 0.6771 94.5 0.869 Contact Map
3nb3A 2 0.5625 88.5 0.89 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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