GREMLIN Database
YBDZ - Uncharacterized protein YbdZ
UniProt: C0H3Q6 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 69 (63)
Sequences: 1299 (840)
Seq/√Len: 105.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
61_N65_T3.7841.00
45_E49_D3.0201.00
20_G64_K2.6801.00
43_G46_A2.4721.00
6_E12_Y2.3791.00
42_K46_A2.3351.00
19_E62_S1.8471.00
20_G61_N1.8411.00
49_D53_S1.8121.00
39_H42_K1.7401.00
11_T41_Q1.7281.00
50_Y54_H1.6951.00
13_L37_V1.6301.00
27_G41_Q1.5631.00
61_N64_K1.5231.00
22_Y58_M1.5021.00
18_E36_T1.4681.00
42_K47_C1.4441.00
15_L24_L1.4201.00
16_V36_T1.3360.99
38_V50_Y1.3220.99
8_A45_E1.3160.99
13_L41_Q1.3130.99
31_V37_V1.3090.99
15_L23_S1.2900.99
39_H47_C1.2030.99
59_R63_L1.1360.98
16_V22_Y1.0630.97
40_E50_Y1.0560.97
14_V51_I1.0320.97
13_L31_V1.0140.96
16_V38_V1.0050.96
49_D52_Q0.9420.95
14_V22_Y0.9410.95
10_G28_F0.9070.93
14_V47_C0.8700.92
11_T27_G0.8590.91
13_L27_G0.8580.91
24_L44_R0.8490.91
15_L48_L0.8220.90
58_M63_L0.8080.89
30_D33_S0.8080.89
18_E61_N0.7850.87
13_L40_E0.7840.87
59_R62_S0.7810.87
8_A44_R0.7680.86
44_R48_L0.7620.86
20_G36_T0.7590.86
13_L47_C0.7570.85
7_N26_P0.7450.84
36_T65_T0.7300.83
40_E46_A0.7280.83
14_V50_Y0.7110.82
48_L52_Q0.7010.81
5_F15_L0.6960.80
17_N21_Q0.6900.80
19_E56_S0.6840.79
5_F12_Y0.6720.78
46_A49_D0.6560.76
4_P28_F0.6550.76
23_S51_I0.6480.75
22_Y54_H0.6480.75
7_N52_Q0.6450.75
21_Q30_D0.6150.71
15_L39_H0.6130.71
10_G26_P0.6000.70
6_E26_P0.5970.69
10_G24_L0.5870.68
39_H64_K0.5860.68
19_E51_I0.5850.68
15_L29_I0.5790.67
19_E32_P0.5790.67
22_Y38_V0.5780.67
24_L48_L0.5700.66
13_L39_H0.5670.65
56_S64_K0.5580.64
53_S56_S0.5560.64
12_Y63_L0.5540.63
4_P7_N0.5510.63
4_P15_L0.5490.63
13_L44_R0.5450.62
24_L65_T0.5380.61
19_E63_L0.5360.61
14_V42_K0.5220.59
39_H46_A0.5190.58
32_P35_W0.5180.58
8_A30_D0.5150.58
7_N10_G0.5150.58
16_V37_V0.5090.57
9_D12_Y0.5080.57
3_N6_E0.5030.56
49_D56_S0.5020.56
40_E58_M0.5010.56
35_W55_W0.5000.56
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  
2pstX 1 0.8841 100 0.089 Contact Map
2lpdA 1 1 100 0.092 Contact Map
2khrA 1 1 100 0.093 Contact Map
2myyA 1 1 100 0.098 Contact Map
4gr5A 1 1 99.7 0.496 Contact Map
2ikbA 2 0.8551 16.5 0.92 Contact Map
2nr7A 1 0.9275 13.7 0.923 Contact Map
1wr4A 1 0.5217 13.5 0.923 Contact Map
1jmqA 1 0.6377 10.9 0.926 Contact Map
1eg3A 1 0.7101 10.9 0.926 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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