GREMLIN Database
YRBA - Uncharacterized protein YrbA
UniProt: P0A9W6 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12796
Length: 84 (75)
Sequences: 796 (466)
Seq/√Len: 53.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
40_M44_K3.9511.00
7_Q11_M3.7521.00
45_K74_E2.9741.00
40_M48_T2.6161.00
38_D73_A2.5701.00
43_V47_Q2.3841.00
56_Y61_R2.3681.00
70_Y75_W2.1901.00
35_E72_P2.1701.00
22_S29_Q2.0201.00
35_E38_D1.8730.99
11_M19_V1.6080.98
30_V65_V1.5860.98
41_S44_K1.5610.98
4_N7_Q1.5450.98
62_I65_V1.4890.97
13_A52_P1.4770.97
9_V56_Y1.4410.97
46_Q67_I1.4140.96
5_E8_S1.3870.96
32_A67_I1.3650.95
6_I62_I1.3650.95
50_Y57_I1.3280.94
32_A49_V1.3010.94
26_S60_N1.1550.89
6_I28_F1.1190.88
8_S12_N1.1130.87
50_Y62_I1.0800.86
17_Q34_G1.0650.85
35_E73_A1.0610.85
10_L52_P1.0530.84
42_R45_K1.0420.84
15_S36_L1.0340.83
54_M58_A1.0180.82
47_Q51_G1.0080.81
69_A74_E0.9720.79
47_Q50_Y0.9610.78
42_R47_Q0.9410.77
26_S62_I0.9280.76
16_L32_A0.9280.76
28_F62_I0.9130.75
30_V46_Q0.8940.73
46_Q60_N0.8800.72
3_N47_Q0.8790.72
22_S31_I0.8700.71
16_L34_G0.8640.70
7_Q20_H0.8620.70
5_E12_N0.8520.69
24_D27_H0.8450.69
6_I27_H0.8420.68
73_A77_R0.8400.68
37_F71_T0.8370.68
29_Q68_K0.8340.68
45_K70_Y0.8160.66
55_E58_A0.8060.65
54_M57_I0.8050.65
53_L65_V0.8050.65
37_F72_P0.7870.63
6_I56_Y0.7810.63
4_N8_S0.7800.62
66_S74_E0.7560.60
48_T51_G0.7340.58
3_N28_F0.7310.57
46_Q57_I0.7300.57
21_V62_I0.7150.56
31_I75_W0.7150.56
17_Q32_A0.7030.55
23_G66_S0.6960.54
23_G29_Q0.6780.52
10_L34_G0.6620.50
20_H31_I0.6580.50
9_V62_I0.6570.50
37_F69_A0.6560.50
37_F74_E0.6510.49
18_E77_R0.6510.49
50_Y54_M0.6470.49
39_G49_V0.6390.48
8_S44_K0.6270.46
23_G65_V0.6230.46
43_V46_Q0.6160.45
33_V69_A0.6060.44
13_A56_Y0.6040.44
42_R74_E0.6010.44
3_N33_V0.5960.43
13_A49_V0.5910.43
36_L48_T0.5890.42
27_H66_S0.5840.42
11_M17_Q0.5770.41
41_S51_G0.5650.40
10_L32_A0.5640.40
43_V49_V0.5610.40
31_I68_K0.5600.39
16_L36_L0.5560.39
35_E56_Y0.5530.39
33_V68_K0.5460.38
5_E61_R0.5420.38
4_N76_A0.5390.37
36_L68_K0.5340.37
23_G28_F0.5280.36
31_I70_Y0.5220.36
57_I67_I0.5190.35
32_A52_P0.5180.35
9_V19_V0.5170.35
2_E5_E0.5160.35
8_S18_E0.5150.35
70_Y74_E0.5140.35
53_L62_I0.5090.34
6_I38_D0.5090.34
21_V26_S0.5060.34
50_Y67_I0.5060.34
6_I24_D0.5000.34
5_E9_V0.5000.34
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  
1ny8A 1 1 100 0.253 Contact Map
3tr3A 2 0.9167 99.9 0.316 Contact Map
1xs3A 1 0.881 99.9 0.337 Contact Map
2kdnA 1 0.9643 99.9 0.337 Contact Map
3o2eA 2 0.9286 99.9 0.337 Contact Map
2dhmA 1 0.9881 99.9 0.344 Contact Map
2mm9A 1 0.9762 99.9 0.347 Contact Map
1v60A 1 0.9881 99.9 0.35 Contact Map
1v9jA 1 0.9405 99.9 0.35 Contact Map
2mcqA 1 0.8571 99.9 0.37 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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