GREMLIN Database
YOPM - SPBc2 prophage-derived uncharacterized protein YopM
UniProt: O34605 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 66 (53)
Sequences: 853 (765)
Seq/√Len: 105.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
5_S54_K2.9721.00
8_K57_M2.6031.00
6_Y55_G2.3871.00
4_I37_I2.2971.00
18_Y22_V1.8441.00
12_T61_S1.8061.00
4_I40_S1.7211.00
10_S59_L1.6341.00
19_Q30_L1.6151.00
14_H33_H1.5561.00
52_L56_Y1.5281.00
19_Q22_V1.5151.00
9_N58_K1.4691.00
4_I8_K1.4171.00
15_K34_E1.3400.99
4_I53_T1.3390.99
7_L33_H1.3350.99
36_S39_K1.3180.99
50_K54_K1.3040.99
56_Y59_L1.2570.99
15_K30_L1.2430.99
49_R52_L1.2320.99
16_T21_K1.0920.98
53_T56_Y1.0840.98
11_M30_L1.0510.97
46_E51_Q1.0440.97
46_E49_R1.0230.97
12_T16_T1.0180.96
40_S44_K1.0060.96
44_K47_N0.9950.96
9_N34_E0.9940.96
57_M60_L0.9840.96
8_K12_T0.9780.96
7_L43_M0.9600.95
41_K46_E0.9310.94
13_M16_T0.9110.93
54_K58_K0.9070.93
52_L59_L0.9010.93
13_M31_F0.8960.93
13_M34_E0.8780.92
14_H29_D0.8410.90
15_K21_K0.8290.90
34_E58_K0.8180.89
38_E56_Y0.8070.89
7_L40_S0.7730.86
22_V28_N0.7720.86
15_K18_Y0.7610.85
11_M60_L0.7530.85
45_N49_R0.7490.85
51_Q54_K0.7400.84
32_F58_K0.7160.82
14_H18_Y0.6800.78
20_K30_L0.6720.78
9_N19_Q0.6620.77
55_G59_L0.6450.75
14_H17_I0.6280.73
22_V43_M0.6250.72
21_K37_I0.6190.72
52_L55_G0.6170.71
46_E55_G0.6080.70
15_K20_K0.6070.70
18_Y21_K0.6020.70
38_E47_N0.6020.70
21_K39_K0.5980.69
8_K37_I0.5910.68
22_V30_L0.5890.68
18_Y30_L0.5880.68
52_L60_L0.5870.68
12_T17_I0.5800.67
45_N56_Y0.5700.65
9_N20_K0.5650.65
33_H61_S0.5590.64
45_N53_T0.5570.64
9_N12_T0.5500.63
6_Y44_K0.5490.62
7_L36_S0.5330.60
15_K58_K0.5300.60
46_E50_K0.5240.59
16_T39_K0.5230.59
32_F36_S0.5000.55
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  
3qwpA 1 0.8939 98.2 0.47 Contact Map
4wuyA 1 0.8939 98.1 0.472 Contact Map
3n71A 1 0.8939 97.8 0.51 Contact Map
4d10B 1 0.8333 97.7 0.527 Contact Map
4gpkA 3 0.8788 97.4 0.551 Contact Map
3u3wA 2 0.8788 97.3 0.561 Contact Map
4yvqC 1 0.8636 97.3 0.562 Contact Map
3edtB 2 0.8939 97.2 0.565 Contact Map
4yvoA 1 0.8636 97.1 0.571 Contact Map
4i1aA 2 0.8636 97.1 0.571 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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