GREMLIN Database
YAJD - Uncharacterized protein YajD
UniProt: P0AAQ2 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11097
Length: 115 (90)
Sequences: 766 (651)
Seq/√Len: 68.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
15_Y19_A6.3141.00
57_D60_N3.5991.00
60_N73_H3.4761.00
57_D73_H2.7161.00
27_C30_C2.4171.00
34_F64_L2.2851.00
19_A24_P2.2351.00
70_D73_H1.9801.00
64_L73_H1.9311.00
50_D54_N1.9101.00
36_Y41_E1.8881.00
32_R64_L1.8291.00
27_C45_H1.7161.00
20_L24_P1.6750.99
26_V33_E1.5860.99
60_N64_L1.5430.99
30_C45_H1.4910.99
37_S43_T1.4590.99
94_K97_G1.3910.98
47_I52_T1.3890.98
46_H74_S1.3110.97
33_E63_L1.2980.97
27_C57_D1.2820.97
34_F62_E1.2800.97
17_E24_P1.2520.96
15_Y21_K1.2430.96
15_Y24_P1.2430.96
37_S67_Y1.2300.96
44_V66_L1.2190.96
88_A93_Q1.2080.95
32_R62_E1.2000.95
44_V47_I1.1810.95
96_V99_A1.1430.94
73_H77_T1.1070.93
30_C49_H1.1040.93
19_A23_Y1.0970.92
70_D77_T1.0750.92
97_G100_K1.0690.91
67_Y71_H1.0620.91
21_K35_V1.0480.90
26_V34_F1.0450.90
84_T87_I1.0410.90
16_R29_R1.0230.89
26_V31_S0.9570.86
29_R37_S0.9560.86
94_K100_K0.9470.85
35_V41_E0.9340.85
42_L45_H0.9170.83
80_D85_T0.9140.83
26_V56_E0.9120.83
100_K104_F0.9010.82
96_V102_N0.8810.81
37_S44_V0.8790.81
31_S61_W0.8640.80
89_G92_A0.8400.78
88_A92_A0.8330.77
43_T75_K0.8320.77
96_V104_F0.8290.77
21_K36_Y0.8220.76
100_K103_P0.8190.76
55_P67_Y0.8190.76
47_I50_D0.8180.76
16_R61_W0.8160.76
80_D98_E0.8030.74
88_A96_V0.8000.74
94_K99_A0.7910.73
48_D56_E0.7900.73
91_D95_D0.7860.73
27_C49_H0.7850.73
16_R46_H0.7770.72
66_L70_D0.7730.72
16_R76_Y0.7670.71
14_G17_E0.7660.71
92_A96_V0.7500.69
37_S65_C0.7440.69
28_G58_G0.7410.68
14_G44_V0.7400.68
30_C57_D0.7390.68
95_D99_A0.7310.67
92_A98_E0.7300.67
29_R46_H0.7210.66
93_Q99_A0.7210.66
89_G102_N0.7170.66
90_E95_D0.6970.64
23_Y53_N0.6960.64
82_Y91_D0.6860.62
84_T88_A0.6810.62
45_H73_H0.6810.62
90_E93_Q0.6730.61
98_E103_P0.6690.60
55_P65_C0.6630.60
14_G18_K0.6610.60
98_E101_Y0.6560.59
47_I51_H0.6550.59
17_E22_I0.6540.59
45_H49_H0.6470.58
56_E63_L0.6440.58
45_H60_N0.6380.57
62_E75_K0.6360.57
83_G86_V0.6270.56
51_H55_P0.6270.56
89_G96_V0.6200.55
53_N65_C0.6170.54
43_T56_E0.6110.54
14_G40_R0.6040.53
20_L23_Y0.6020.53
60_N70_D0.6020.53
81_Q101_Y0.5910.51
19_A25_W0.5850.51
83_G88_A0.5800.50
17_E47_I0.5780.50
94_K103_P0.5730.49
54_N66_L0.5690.49
15_Y18_K0.5670.48
90_E94_K0.5630.48
66_L69_H0.5630.48
21_K51_H0.5620.48
43_T46_H0.5570.47
41_E46_H0.5560.47
45_H57_D0.5550.47
33_E69_H0.5480.46
99_A104_F0.5340.44
90_E96_V0.5330.44
14_G36_Y0.5300.44
43_T71_H0.5250.43
88_A98_E0.5190.43
94_K102_N0.5180.43
80_D88_A0.5180.43
69_H75_K0.5170.42
16_R74_S0.5150.42
82_Y101_Y0.5140.42
84_T103_P0.5130.42
44_V50_D0.5100.42
92_A97_G0.5070.41
86_V92_A0.5000.40
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  
2i13A 1 0.6522 99.5 0.376 Contact Map
3w5kB 1 0.687 99.4 0.398 Contact Map
1x6hA 1 0.713 99.4 0.4 Contact Map
2ee8A 1 0.7391 99.4 0.403 Contact Map
2lv2A 1 0.7043 99.4 0.403 Contact Map
4x9jA 1 0.6696 99.4 0.408 Contact Map
2dmdA 1 0.7304 99.4 0.41 Contact Map
2n25A 1 0.2 99.4 0.41 Contact Map
1x6eA 1 0.6261 99.4 0.418 Contact Map
2kmkA 1 0.6696 99.4 0.418 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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