GREMLIN Database
YlbE - YlbE-like protein
PFAM: PF14003 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 61 (60)
Sequences: 531 (423)
Seq/√Len: 54.6
META: 0.682

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
16_Y23_S2.7471.00
36_K41_D2.5851.00
3_L27_F2.5361.00
23_S26_E2.2971.00
8_R14_Y2.0751.00
24_L27_F2.0171.00
46_F50_I1.9931.00
15_K19_R1.8240.99
3_L31_M1.7270.99
31_M35_Y1.6710.99
2_E5_R1.6380.99
6_Y30_E1.5530.98
33_E38_T1.5170.98
5_R9_E1.5130.98
15_K18_N1.5060.97
36_K45_K1.4910.97
38_T41_D1.4510.97
3_L24_L1.3870.96
24_L28_E1.3380.95
4_K7_L1.3380.95
7_L27_F1.3310.95
25_K28_E1.3120.94
14_Y30_E1.2370.92
30_E34_K1.2010.91
28_E31_M1.1510.89
29_E39_T1.1180.88
50_I55_M1.1040.87
26_E29_E1.0640.85
12_Y30_E1.0610.85
20_N23_S1.0310.83
16_Y43_I0.9690.79
37_L41_D0.9580.79
6_Y34_K0.9490.78
13_W30_E0.9350.77
19_R35_Y0.9310.77
24_L57_L0.9250.76
9_E34_K0.9120.75
36_K39_T0.9080.75
35_Y41_D0.8950.74
45_K60_L0.8940.74
44_E48_N0.8730.72
9_E35_Y0.8480.70
11_P56_M0.8470.69
10_N53_A0.8140.66
45_K49_N0.8030.65
51_Q55_M0.7980.65
8_R48_N0.7960.65
7_L11_P0.7930.64
53_A60_L0.7880.64
10_N32_K0.7770.63
10_N34_K0.7670.62
29_E45_K0.7670.62
12_Y44_E0.7470.60
30_E33_E0.7420.59
43_I51_Q0.7120.56
23_S46_F0.6950.54
43_I50_I0.6930.54
28_E32_K0.6920.54
11_P59_M0.6720.52
20_N33_E0.6710.52
15_K37_L0.6640.51
9_E19_R0.6640.51
44_E47_S0.6540.50
29_E38_T0.6400.48
8_R13_W0.6400.48
28_E35_Y0.6380.48
16_Y26_E0.6370.48
12_Y56_M0.6340.48
2_E37_L0.6300.47
51_Q58_S0.6280.47
11_P51_Q0.6210.46
26_E50_I0.6120.45
13_W37_L0.6000.44
15_K59_M0.5980.44
10_N30_E0.5950.44
39_T46_F0.5880.43
10_N18_N0.5860.43
4_K54_S0.5790.42
51_Q54_S0.5610.40
46_F49_N0.5600.40
40_P50_I0.5540.39
11_P55_M0.5540.39
11_P21_P0.5360.37
18_N31_M0.5330.37
11_P40_P0.5310.37
15_K35_Y0.5250.36
6_Y52_M0.5250.36
8_R56_M0.5190.36
50_I56_M0.5110.35
13_W23_S0.5000.34
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  
3g06A 1 1 22.5 0.853 Contact Map
3e98A 2 0.2295 11.6 0.871 Contact Map
3cvrA 2 0.6066 11.3 0.872 Contact Map
4q68A 1 0.8525 10.6 0.873 Contact Map
2p1gA 1 0.8525 10.5 0.873 Contact Map
4lgyA 1 0.918 8.2 0.88 Contact Map
3ckdA 1 1 7.9 0.88 Contact Map
3hsqA 3 1 7.1 0.883 Contact Map
3ii2A 1 0.6885 6.9 0.884 Contact Map
4pufA 1 0.918 6 0.887 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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