GREMLIN Database
YBIJ - Uncharacterized protein YbiJ
UniProt: P0AAX3 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12422
Length: 86 (86)
Sequences: 421 (220)
Seq/√Len: 23.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
68_S83_V2.8960.99
21_F25_P2.8630.99
70_T83_V2.7360.99
47_T50_A2.4530.98
55_L82_A2.4130.98
39_V70_T2.2760.97
5_N13_L2.2230.97
51_L78_L1.9140.93
48_L80_G1.8900.92
56_A60_A1.8090.90
16_L21_F1.7880.90
65_S86_K1.7080.87
74_N78_L1.6710.86
57_E60_A1.5170.80
42_A55_L1.5170.80
24_E37_I1.5120.80
30_Q34_M1.4720.78
57_E61_A1.4170.75
40_V79_S1.3900.74
52_E57_E1.3160.70
24_E27_T1.3120.69
46_S51_L1.3090.69
42_A82_A1.3010.69
7_V15_T1.3000.69
11_M62_A1.2520.66
26_V34_M1.2390.65
51_L74_N1.2260.64
30_Q47_T1.2250.64
41_S85_Y1.2250.64
37_I45_A1.2160.63
44_G77_K1.2120.63
7_V43_D1.1930.62
36_K83_V1.1910.62
38_G48_L1.1590.60
49_D84_I1.1480.59
11_M36_K1.1470.59
42_A80_G1.1340.58
75_N78_L1.1160.57
65_S68_S1.0920.55
16_L19_G1.0720.54
41_S81_T1.0550.52
4_I36_K1.0470.52
31_A54_K1.0430.52
14_S18_F1.0420.52
19_G62_A1.0400.51
6_T11_M1.0330.51
30_Q66_G1.0290.51
57_E66_G1.0130.49
18_F55_L0.9930.48
45_A51_L0.9780.47
38_G41_S0.9720.47
18_F81_T0.9600.46
47_T66_G0.9580.46
43_D78_L0.9440.45
40_V60_A0.9330.44
48_L51_L0.9310.44
18_F38_G0.9270.43
12_A15_T0.9250.43
51_L80_G0.9140.43
25_P67_Y0.9000.42
12_A29_S0.8880.41
25_P33_N0.8830.40
20_V36_K0.8720.40
25_P66_G0.8520.38
56_A84_I0.8420.38
6_T39_V0.8320.37
65_S70_T0.8300.37
11_M75_N0.8240.36
24_E28_A0.8210.36
17_S21_F0.8180.36
7_V20_V0.8130.36
38_G80_G0.8060.35
26_V68_S0.7750.33
67_Y71_S0.7750.33
25_P28_A0.7690.33
38_G55_L0.7680.33
45_A75_N0.7650.33
71_S81_T0.7560.32
11_M54_K0.7490.32
4_I20_V0.7360.31
76_N84_I0.7330.31
71_S79_S0.7320.31
57_E85_Y0.7280.30
10_A69_I0.7110.29
42_A46_S0.7070.29
20_V27_T0.7050.29
14_S85_Y0.7030.29
73_T79_S0.7020.29
50_A61_A0.6980.29
31_A49_D0.6940.28
24_E72_A0.6730.27
7_V41_S0.6670.27
40_V78_L0.6650.27
35_N68_S0.6590.26
51_L76_N0.6590.26
12_A78_L0.6590.26
14_S73_T0.6580.26
16_L86_K0.6560.26
29_S40_V0.6550.26
2_K13_L0.6510.26
19_G53_A0.6470.26
12_A25_P0.6390.25
27_T56_A0.6370.25
6_T10_A0.6320.25
29_S32_Q0.6310.25
13_L44_G0.6290.25
52_E79_S0.6200.24
67_Y75_N0.6120.24
70_T81_T0.6070.24
26_V54_K0.6040.24
44_G51_L0.6030.24
44_G65_S0.5860.23
6_T9_A0.5810.22
14_S21_F0.5760.22
3_T9_A0.5730.22
4_I8_V0.5720.22
67_Y81_T0.5660.22
32_Q67_Y0.5590.21
7_V29_S0.5540.21
33_N65_S0.5520.21
42_A51_L0.5390.20
61_A69_I0.5270.20
37_I44_G0.5190.20
49_D79_S0.5170.19
40_V83_V0.5150.19
14_S19_G0.5140.19
16_L77_K0.5100.19
43_D46_S0.5020.19
37_I73_T0.5000.19
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  
2nocA 1 0.9884 100 0.136 Contact Map
2jnaA 2 0.9884 100 0.159 Contact Map
2m2jA 1 0.7674 99.9 0.312 Contact Map
2ma4A 1 0.7442 99.9 0.331 Contact Map
4evuA 2 0.7558 99.8 0.383 Contact Map
3b55A 1 0.5581 39.3 0.891 Contact Map
4n4rB 1 0.6977 29.2 0.898 Contact Map
3layA 5 0.686 27 0.9 Contact Map
2qgmA 1 0.5698 19.3 0.907 Contact Map
1dbgA 1 0.4302 18.9 0.907 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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