GREMLIN Database
YHBQ - UPF0213 protein YhbQ
UniProt: P45472 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12786
Length: 100 (80)
Sequences: 1866 (1432)
Seq/√Len: 160.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
56_D59_L2.4711.00
26_R30_Q2.4671.00
65_Y69_Q2.4481.00
52_A63_A2.4031.00
4_W20_I2.3871.00
10_R47_T2.3791.00
15_K39_A2.3621.00
8_L18_T2.3491.00
58_S62_R2.0731.00
20_I61_L2.0591.00
24_V51_S2.0541.00
63_A66_R2.0211.00
18_T67_V1.8751.00
13_D43_K1.8731.00
29_Q33_S1.8731.00
16_L76_E1.7621.00
6_L67_V1.7191.00
71_T74_Q1.6671.00
10_R49_V1.6651.00
28_Y32_Q1.6481.00
57_R61_L1.6361.00
72_K76_E1.6291.00
32_Q46_L1.5131.00
10_R14_N1.5031.00
8_L67_V1.4181.00
28_Y48_L1.2961.00
10_R76_E1.2681.00
11_T39_A1.2531.00
32_Q44_G1.1461.00
58_S61_L1.1281.00
54_V63_A1.1181.00
70_L74_Q1.1031.00
24_V48_L1.0961.00
6_L18_T1.0910.99
62_R66_R1.0870.99
63_A78_L1.0660.99
76_E80_A1.0620.99
74_Q77_R1.0610.99
9_I28_Y1.0590.99
49_V79_V1.0580.99
11_T40_L1.0510.99
21_T24_V1.0170.99
13_D39_A0.9990.99
50_F63_A0.9860.99
8_L16_L0.9690.99
18_T75_K0.9600.99
20_I57_R0.9460.99
12_A44_G0.9110.98
37_A41_R0.9050.98
77_R81_E0.9020.98
50_F78_L0.8860.98
73_R77_R0.8820.98
30_Q44_G0.8620.97
67_V78_L0.8560.97
66_R70_L0.8520.97
28_Y46_L0.8400.97
40_L43_K0.8360.97
9_I32_Q0.8200.96
68_K75_K0.7770.95
30_Q35_K0.7590.95
15_K43_K0.7540.94
24_V28_Y0.7300.93
40_L46_L0.7200.93
34_G44_G0.7070.92
6_L54_V0.6970.92
38_K41_R0.6830.91
12_A32_Q0.6810.91
9_I40_L0.6660.90
22_T26_R0.6620.89
54_V59_L0.6610.89
22_T30_Q0.6600.89
4_W57_R0.6600.89
10_R16_L0.6540.89
52_A78_L0.6530.89
11_T45_E0.6510.89
61_L68_K0.6490.89
11_T15_K0.6450.88
5_F51_S0.6420.88
9_I46_L0.6380.88
16_L49_V0.6350.87
16_L79_V0.6330.87
5_F53_P0.6280.87
32_Q45_E0.6250.87
8_L50_F0.6230.86
73_R76_E0.6190.86
6_L78_L0.6180.86
32_Q43_K0.6030.85
80_A83_A0.6010.84
20_I30_Q0.5980.84
72_K79_V0.5960.84
23_D26_R0.5940.84
11_T43_K0.5900.83
56_D61_L0.5870.83
70_L78_L0.5820.83
21_T26_R0.5780.82
55_G59_L0.5720.81
49_V78_L0.5670.81
12_A43_K0.5640.81
37_A40_L0.5630.80
18_T70_L0.5530.79
6_L20_I0.5530.79
57_R65_Y0.5520.79
30_Q57_R0.5400.78
5_F24_V0.5390.77
13_D40_L0.5360.77
10_R72_K0.5340.77
25_E53_P0.5320.77
77_R82_G0.5310.76
29_Q73_R0.5270.76
39_A42_G0.5270.76
4_W22_T0.5250.76
4_W61_L0.5210.75
65_Y68_K0.5190.75
52_A66_R0.5170.75
53_P77_R0.5140.74
40_L45_E0.5140.74
20_I68_K0.5050.73
54_V61_L0.5040.73
25_E82_G0.5030.73
25_E51_S0.5000.72
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  
1zg2A 1 0.93 100 0.235 Contact Map
1ywlA 1 0.91 100 0.258 Contact Map
4xlgA 1 0.74 99.9 0.36 Contact Map
1mk0A 1 0.84 97.2 0.807 Contact Map
1yd0A 1 0.77 96.6 0.823 Contact Map
1yd6A 5 0.82 95.8 0.835 Contact Map
2wshA 4 0.77 57.5 0.902 Contact Map
4gbsA 1 0.37 21.7 0.923 Contact Map
4zcfA 2 0.73 20.4 0.924 Contact Map
3u22A 4 0.4 10.2 0.933 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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