GREMLIN Database
YABK - Uncharacterized protein YabK
UniProt: P37553 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 76 (76)
Sequences: 152 (117)
Seq/√Len: 13.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
14_V53_T3.6660.99
59_Q63_D3.0980.97
29_F41_I2.7440.95
29_F51_V2.5700.93
44_K48_D2.3570.89
25_D30_Q2.3010.88
56_E59_Q2.1800.85
4_H16_S2.1440.84
17_L22_V2.0880.82
24_T75_I2.0820.82
57_D75_I1.9320.76
2_A16_S1.7910.71
41_I45_E1.7690.70
67_H70_E1.7300.68
30_Q34_N1.7290.68
2_A11_G1.5900.61
39_D63_D1.4690.55
53_T59_Q1.4610.54
39_D52_L1.3180.47
26_S49_V1.2400.43
3_L50_H1.1940.40
71_Y76_Q1.1670.39
38_N71_Y1.1640.39
17_L30_Q1.1550.38
33_T76_Q1.1420.38
18_E21_M1.1400.38
12_V22_V1.1170.36
27_L47_G1.0690.34
14_V35_E1.0650.34
12_V52_L1.0620.34
31_H57_D1.0520.33
20_S45_E1.0430.33
6_Y68_Y1.0380.33
40_M54_I1.0010.31
42_S48_D1.0000.31
54_I72_H0.9900.30
68_Y74_F0.9780.30
6_Y52_L0.9710.30
37_R59_Q0.9620.29
61_A68_Y0.9590.29
68_Y73_T0.9480.29
13_K20_S0.9390.28
60_E64_R0.9380.28
73_T76_Q0.9230.28
57_D60_E0.9030.27
61_A73_T0.9030.27
33_T36_E0.8880.26
51_V73_T0.8860.26
59_Q69_H0.8850.26
12_V17_L0.8840.26
24_T37_R0.8790.26
11_G14_V0.8770.26
26_S35_E0.8730.25
30_Q36_E0.8660.25
48_D60_E0.8540.25
62_L68_Y0.8520.25
17_L53_T0.8510.25
18_E46_N0.8220.23
61_A76_Q0.8170.23
34_N40_M0.8170.23
24_T70_E0.8100.23
31_H51_V0.8050.23
53_T65_N0.8030.23
4_H20_S0.8000.23
11_G21_M0.7780.22
34_N63_D0.7580.21
3_L22_V0.7490.21
3_L30_Q0.7380.20
34_N50_H0.7240.20
18_E26_S0.7100.19
16_S71_Y0.7090.19
40_M70_E0.6990.19
39_D51_V0.6830.19
3_L25_D0.6760.18
18_E24_T0.6750.18
31_H70_E0.6620.18
16_S29_F0.6600.18
41_I51_V0.6510.18
39_D43_Y0.6440.17
6_Y34_N0.6410.17
27_L51_V0.6400.17
49_V64_R0.6230.17
15_G63_D0.6230.17
39_D64_R0.6190.17
23_S53_T0.6190.17
13_K16_S0.6170.17
57_D64_R0.6160.17
46_N62_L0.6110.16
29_F73_T0.6070.16
38_N48_D0.6040.16
12_V35_E0.6020.16
61_A65_N0.5950.16
18_E31_H0.5920.16
8_R22_V0.5920.16
53_T74_F0.5890.16
20_S67_H0.5870.16
16_S52_L0.5850.16
31_H73_T0.5770.15
43_Y49_V0.5760.15
54_I69_H0.5750.15
34_N42_S0.5600.15
64_R67_H0.5580.15
69_H72_H0.5560.15
31_H75_I0.5560.15
3_L73_T0.5540.15
43_Y50_H0.5470.15
46_N49_V0.5460.15
16_S20_S0.5180.14
45_E49_V0.5140.14
23_S42_S0.5140.14
59_Q64_R0.5090.14
9_H43_Y0.5040.13
3_L36_E0.5040.13
14_V26_S0.5000.13
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  
1vq0A 2 0.7632 80.9 0.875 Contact Map
1vzyA 3 0.7763 77.1 0.88 Contact Map
1i7fA 2 0.1053 73.8 0.883 Contact Map
2xigA 4 0.6447 43.1 0.903 Contact Map
1twfI 1 0.3421 39.3 0.906 Contact Map
2fe3A 2 0.6579 34.7 0.908 Contact Map
2o03A 2 0.5921 34.4 0.908 Contact Map
3eyyA 2 0.5658 33.6 0.909 Contact Map
1zvfA 2 0.7368 33.6 0.909 Contact Map
3ja82 1 0.6711 32.6 0.91 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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