GREMLIN Database
YPEB - Uncharacterized protein YpeB
UniProt: P0AD40 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG14366
Length: 72 (68)
Sequences: 551 (247)
Seq/√Len: 29.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
8_E45_K4.7221.00
54_L58_T2.9671.00
16_F35_F2.7941.00
26_D69_K2.6261.00
25_I65_V2.5580.99
29_E33_L2.3450.99
9_I53_T1.9490.97
55_L59_E1.8450.95
65_V69_K1.7100.93
12_T49_L1.7050.93
33_L54_L1.6010.90
13_I21_G1.4950.87
29_E62_T1.4290.84
33_L58_T1.3970.83
9_I12_T1.3320.80
30_E33_L1.3080.78
29_E58_T1.3060.78
2_E5_Q1.2980.78
49_L53_T1.2940.78
12_T45_K1.2860.77
27_L32_L1.2830.77
24_L46_L1.2700.76
27_L35_F1.2290.74
13_I23_R1.2200.73
4_E8_E1.1820.71
8_E12_T1.1700.70
50_M59_E1.1510.69
51_Q55_L1.1390.68
50_M70_R1.1350.68
10_A25_I1.0370.61
33_L62_T1.0160.59
19_Y30_E1.0060.58
48_E51_Q0.9910.57
39_D59_E0.9870.57
9_I56_I0.9870.57
19_Y22_R0.9650.55
29_E57_K0.9570.54
24_L53_T0.9510.54
35_F38_K0.9450.53
7_I11_N0.9300.52
4_E64_L0.9300.52
8_E13_I0.9070.50
32_L52_I0.8900.49
25_I69_K0.8880.49
57_K62_T0.8780.48
20_K66_Q0.8700.48
63_Q66_Q0.8680.47
3_K43_A0.8660.47
38_K50_M0.8620.47
23_R68_L0.8560.46
48_E52_I0.8180.43
5_Q52_I0.8140.43
41_F49_L0.7990.42
22_R27_L0.7980.42
56_I64_L0.7970.42
33_L60_G0.7830.41
3_K7_I0.7660.39
41_F51_Q0.7640.39
5_Q48_E0.7640.39
36_A66_Q0.7560.39
24_L57_K0.7270.37
32_L54_L0.7120.35
55_L61_L0.7050.35
26_D51_Q0.6950.34
36_A41_F0.6900.34
9_I64_L0.6810.33
35_F68_L0.6730.33
4_E66_Q0.6720.33
10_A43_A0.6650.32
35_F41_F0.6380.30
10_A32_L0.6370.30
11_N24_L0.6320.30
33_L50_M0.6310.30
10_A29_E0.6310.30
9_I26_D0.6280.30
7_I10_A0.6270.30
37_R58_T0.6070.28
30_E54_L0.6000.28
39_D55_L0.5990.28
12_T67_P0.5920.27
20_K53_T0.5880.27
56_I62_T0.5710.26
25_I53_T0.5690.26
24_L49_L0.5660.26
3_K46_L0.5580.25
16_F70_R0.5520.25
13_I36_A0.5480.25
23_R69_K0.5470.25
22_R26_D0.5450.24
43_A66_Q0.5430.24
4_E43_A0.5330.24
55_L58_T0.5240.23
11_N23_R0.5220.23
6_L64_L0.5210.23
30_E56_I0.5210.23
53_T56_I0.5120.23
64_L67_P0.5120.23
15_P61_L0.5110.22
13_I50_M0.5100.22
16_F19_Y0.5090.22
32_L35_F0.5050.22
36_A51_Q0.5000.22
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  
2yjgA 2 0.7639 29.9 0.906 Contact Map
4bg7A 2 0.9028 27.8 0.907 Contact Map
4ynsA 2 0.8472 26.8 0.908 Contact Map
4r1dB 1 0.6111 18.5 0.915 Contact Map
3kdwA 2 0.5556 11.3 0.922 Contact Map
3izxA 3 0.875 11 0.923 Contact Map
4kmgA 2 0.5833 7.3 0.929 Contact Map
1z21A 1 0.5972 5.8 0.932 Contact Map
4mnoA 1 0.6389 5.8 0.932 Contact Map
2qniA 2 0.9583 5.7 0.932 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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