GREMLIN Database
PLD_C - Phospholipase D C terminal
PFAM: PF12357 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 72 (71)
Sequences: 677 (442)
Seq/√Len: 52.4
META: 0.235

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
17_N20_A4.3331.00
1_D15_R4.3121.00
44_V69_L3.0221.00
16_V20_A2.7411.00
29_S33_T2.2281.00
54_P69_L2.2191.00
32_V35_L2.1151.00
15_R39_L1.9040.99
21_E41_K1.8250.99
47_D53_T1.7080.99
22_E26_L1.6650.98
28_A31_E1.5920.98
17_N69_L1.5550.98
47_D54_P1.5290.97
58_C68_V1.5240.97
29_S32_V1.4470.96
44_V52_V1.4370.96
2_D49_D1.2860.93
22_E25_K1.2080.91
10_L14_R1.1690.89
26_L40_L1.1550.88
14_R31_E1.1380.88
26_L32_V1.1240.87
38_H56_P1.1200.87
32_V68_V1.1060.86
12_C62_P1.0940.86
21_E45_E1.0280.82
2_D52_V1.0270.82
27_Y56_P1.0090.81
2_D5_L1.0060.80
19_I22_E1.0030.80
60_F64_T0.9970.80
23_N37_G0.9880.79
61_F68_V0.9880.79
29_S71_S0.9810.79
20_A41_K0.9710.78
47_D51_K0.9700.78
59_E67_K0.9670.78
23_N34_E0.9080.73
26_L35_L0.9050.73
20_A39_L0.8890.72
48_R53_T0.8820.71
10_L41_K0.8800.71
21_E59_E0.8750.70
23_N54_P0.8690.70
13_V20_A0.8620.69
6_E22_E0.8590.69
38_H61_F0.8570.69
10_L51_K0.8550.69
24_W42_Y0.8450.68
45_E54_P0.8420.67
9_S25_K0.8350.67
54_P59_E0.8330.66
17_N40_L0.8220.65
51_K71_S0.8040.64
10_L25_K0.8030.64
63_D70_G0.7830.62
49_D69_L0.7750.61
19_I36_P0.7680.60
22_E28_A0.7640.60
1_D34_E0.7560.59
9_S30_E0.7490.58
28_A35_L0.7370.57
24_W35_L0.7340.57
8_E46_V0.7230.56
36_P66_G0.7190.55
42_Y50_G0.7120.54
5_L26_L0.6940.53
44_V55_L0.6940.53
1_D4_F0.6680.50
8_E41_K0.6620.49
33_T40_L0.6570.49
10_L53_T0.6550.48
57_G68_V0.6470.48
3_C29_S0.6470.48
39_L52_V0.6430.47
20_A69_L0.6350.46
13_V56_P0.6200.45
5_L36_P0.6140.44
40_L62_P0.6130.44
11_E47_D0.6110.44
13_V19_I0.6080.44
26_L33_T0.6080.44
28_A40_L0.6070.43
13_V64_T0.6070.43
53_T71_S0.6050.43
60_F65_G0.5940.42
42_Y49_D0.5900.42
24_W28_A0.5760.40
22_E32_V0.5750.40
18_E69_L0.5720.40
8_E37_G0.5700.40
17_N35_L0.5560.38
3_C19_I0.5440.37
1_D18_E0.5340.36
14_R18_E0.5300.36
46_V61_F0.5300.36
32_V36_P0.5280.36
18_E45_E0.5260.35
6_E60_F0.5220.35
35_L40_L0.5090.34
24_W63_D0.5070.34
5_L30_E0.5030.33
32_V58_C0.5010.33
44_V71_S0.5010.33
7_P12_C0.5000.33
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  
4p78A 2 0.4028 25.6 0.896 Contact Map
3echC 1 0.3194 11.4 0.912 Contact Map
1t62A 2 0.5417 8.3 0.917 Contact Map
4g1gA 2 0.5833 6.5 0.921 Contact Map
3iagC 1 0.7778 6.4 0.921 Contact Map
3gvxA 2 0.5278 5.4 0.924 Contact Map
3mi0A 3 0.375 5.4 0.924 Contact Map
1e5xA 2 0.9028 4.9 0.926 Contact Map
3n7zA 4 0.9861 4.7 0.926 Contact Map
3ln7A 2 1 4.6 0.927 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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