GREMLIN Database
DLTC - D-alanine--poly(phosphoribitol) ligase subunit 2
UniProt: P39579 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 78 (73)
Sequences: 204 (132)
Seq/√Len: 15.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
27_E65_N5.8061.00
4_K75_S2.9270.98
25_D68_N2.6990.96
12_A21_K2.5200.94
4_K24_P2.2730.91
6_E50_F2.1120.87
13_E62_D1.9990.84
73_Q76_E1.9450.82
63_V73_Q1.8220.77
45_A49_R1.7340.74
15_C41_E1.4810.61
6_E49_R1.4790.61
46_I74_L1.4110.57
9_D21_K1.3750.55
8_L71_V1.3400.53
12_A31_E1.3180.52
27_E34_L1.3170.52
46_I69_N1.3000.51
39_T59_F1.2760.50
59_F64_W1.2540.48
10_V49_R1.2120.46
17_D22_E1.2000.45
45_A48_N1.1920.45
24_P68_N1.1910.45
37_F56_I1.1810.44
27_E30_E1.1780.44
29_F61_R1.1730.44
3_F16_Q1.1290.41
54_V59_F1.1140.41
52_I74_L1.1020.40
61_R64_W1.0850.39
60_D63_V1.0850.39
32_G38_G1.0840.39
37_F74_L1.0780.39
42_L48_N1.0460.37
39_T56_I1.0210.36
4_K71_V1.0170.35
39_T64_W1.0100.35
8_L13_E1.0070.35
25_D30_E1.0020.35
43_L51_D0.9910.34
34_L54_V0.9900.34
32_G40_V0.9650.33
29_F38_G0.9620.33
3_F7_V0.9450.32
4_K73_Q0.9320.31
10_V45_A0.9300.31
40_V56_I0.9190.30
7_V29_F0.9150.30
7_V46_I0.9100.30
47_E53_L0.8900.29
21_K24_P0.8760.28
55_P59_F0.8240.26
17_D21_K0.8230.26
56_I59_F0.8080.25
29_F39_T0.7960.25
41_E57_T0.7770.24
42_L67_P0.7660.24
11_L73_Q0.7610.23
29_F32_G0.7570.23
17_D23_N0.7500.23
44_L71_V0.7470.23
30_E51_D0.7460.23
69_N74_L0.7440.23
22_E51_D0.7440.23
56_I64_W0.7410.23
9_D49_R0.7370.22
15_C33_L0.7300.22
10_V46_I0.7280.22
16_Q61_R0.7100.21
40_V44_L0.7090.21
49_R52_I0.6940.21
15_C56_I0.6920.21
3_F23_N0.6890.21
44_L47_E0.6770.20
20_V66_T0.6600.20
44_L62_D0.6480.19
50_F65_N0.6460.19
59_F67_P0.6420.19
41_E50_F0.6370.19
28_I57_T0.6370.19
26_I31_E0.6350.19
37_F63_V0.6300.19
69_N72_N0.6260.18
14_V18_D0.6220.18
42_L46_I0.6160.18
41_E47_E0.6150.18
72_N75_S0.6060.18
65_N69_N0.6040.18
8_L31_E0.5970.17
54_V64_W0.5890.17
21_K26_I0.5840.17
8_L22_E0.5710.17
3_F75_S0.5700.17
28_I70_I0.5680.16
15_C28_I0.5490.16
3_F62_D0.5340.15
55_P64_W0.5340.15
9_D30_E0.5290.15
22_E26_I0.5290.15
55_P73_Q0.5290.15
7_V59_F0.5280.15
20_V51_D0.5270.15
42_L62_D0.5190.15
8_L42_L0.5160.15
48_N52_I0.5130.15
44_L48_N0.5120.15
23_N31_E0.5080.15
59_F73_Q0.5080.15
38_G70_I0.5000.14
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  
4bpfA 1 1 99.4 0.575 Contact Map
1dv5A 1 1 99.2 0.61 Contact Map
2lkiA 1 0.9872 99.1 0.635 Contact Map
2jq4A 1 0.9487 98.8 0.668 Contact Map
2lmlA 1 0.9744 98.7 0.685 Contact Map
4h2wC 1 0.9744 98.5 0.7 Contact Map
2cgqA 1 0.9359 98.5 0.705 Contact Map
2kw2A 1 1 98.4 0.711 Contact Map
4dxeH 2 0.9487 98.4 0.712 Contact Map
1vkuA 1 0.9615 98.4 0.714 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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