GREMLIN Database
CAAD - CAAD domains of cyanobacterial aminoacyl-tRNA synthetase
PFAM: PF14159 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 85 (83)
Sequences: 1172 (768)
Seq/√Len: 84.3
META: 0.605

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
65_F68_D3.2071.00
62_Y71_E2.7071.00
10_Y13_P2.6041.00
59_V63_L2.3461.00
54_Y57_W2.2411.00
16_T20_I2.2141.00
56_G60_Y2.1921.00
35_D39_D2.0431.00
56_G59_V1.9341.00
20_I23_A1.7801.00
70_Q74_A1.7651.00
5_E9_Q1.7571.00
43_L47_L1.7531.00
38_N43_L1.7071.00
57_W62_Y1.6831.00
77_Q81_K1.6751.00
27_L31_L1.6671.00
28_K39_D1.6301.00
19_L23_A1.6091.00
73_L77_Q1.5691.00
53_G57_W1.5581.00
4_G8_S1.5080.99
40_I43_L1.4380.99
78_S82_Q1.4180.99
46_L50_V1.4040.99
6_F10_Y1.3960.99
47_L52_L1.3180.99
68_D71_E1.3070.99
26_A30_I1.2250.98
75_K82_Q1.1920.97
26_A29_L1.1480.97
62_Y72_L1.1270.96
75_K79_L1.1170.96
28_K65_F1.1010.96
40_I44_P1.1010.96
14_L18_G1.0960.96
15_T18_G1.0660.95
36_A39_D1.0510.94
24_I30_I1.0470.94
59_V64_L1.0370.94
16_T43_L1.0170.93
54_Y58_F0.9870.92
17_L25_V0.9630.91
34_L42_L0.9610.91
41_P48_E0.9520.91
29_L65_F0.9490.91
29_L33_V0.9470.91
12_K15_T0.9460.91
52_L56_G0.9270.90
58_F61_R0.9260.90
48_E52_L0.9220.89
23_A27_L0.9200.89
80_K84_L0.8920.88
22_A29_L0.8730.87
74_A77_Q0.8550.86
16_T19_L0.8500.85
22_A32_A0.8340.84
21_L26_A0.8330.84
4_G7_W0.8280.84
45_G48_E0.8220.83
8_S23_A0.8100.82
16_T55_T0.7970.81
67_E75_K0.7950.81
17_L21_L0.7910.81
32_A39_D0.7840.80
21_L40_I0.7810.80
7_W10_Y0.7780.80
61_R71_E0.7710.79
15_T29_L0.7680.79
7_W12_K0.7620.78
6_F9_Q0.7600.78
38_N48_E0.7580.78
36_A54_Y0.7480.77
57_W61_R0.7480.77
74_A85_G0.7450.77
56_G75_K0.7410.76
79_L83_I0.7380.76
11_K14_L0.7330.76
23_A49_L0.7260.75
22_A35_D0.7210.74
19_L22_A0.7200.74
46_L60_Y0.7000.72
58_F69_R0.6960.72
45_G55_T0.6910.71
63_L69_R0.6890.71
62_Y68_D0.6830.70
32_A36_A0.6660.68
58_F64_L0.6510.67
34_L47_L0.6500.67
17_L77_Q0.6490.66
76_I79_L0.6480.66
15_T67_E0.6410.66
60_Y83_I0.6370.65
51_G85_G0.6230.63
28_K32_A0.6190.63
5_E43_L0.6170.63
8_S20_I0.5950.60
77_Q80_K0.5920.59
63_L72_L0.5880.59
44_P48_E0.5870.59
17_L32_A0.5780.58
9_Q12_K0.5730.57
53_G76_I0.5710.57
43_L76_I0.5660.56
57_W70_Q0.5610.55
30_I55_T0.5560.55
29_L60_Y0.5550.55
32_A56_G0.5520.54
46_L83_I0.5420.53
75_K78_S0.5380.52
46_L63_L0.5380.52
57_W71_E0.5360.52
24_I27_L0.5340.52
14_L17_L0.5340.52
78_S83_I0.5240.50
7_W50_V0.5180.50
4_G40_I0.5180.50
34_L74_A0.5150.49
14_L38_N0.5130.49
52_L75_K0.5120.49
27_L64_L0.5110.49
18_G63_L0.5110.49
23_A30_I0.5020.48
7_W16_T0.5000.47
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  
1ji6A 1 0.6588 32 0.86 Contact Map
2c9kA 1 0.6706 15.8 0.88 Contact Map
1dlcA 1 0.7294 10.7 0.888 Contact Map
1d4aA 2 1 9 0.892 Contact Map
4w8jA 2 0.6235 8.9 0.892 Contact Map
4gi5A 2 1 8.5 0.893 Contact Map
1ciyA 1 0.6706 8.2 0.894 Contact Map
2amjA 2 1 7.6 0.896 Contact Map
3eb7A 2 0.7059 7.1 0.897 Contact Map
4fglA 2 1 4.4 0.906 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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