GREMLIN Database
TypeIII_RM_meth - Type III restriction/modification enzyme methylation subunit
PFAM: PF12564 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 56 (56)
Sequences: 1812 (917)
Seq/√Len: 122.5
META: 0.901

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
21_E24_G4.2971.00
6_K23_D3.7061.00
31_N34_I3.4491.00
28_F33_F3.4391.00
29_D32_K3.4161.00
15_K26_L2.1971.00
2_E20_T1.8721.00
12_E16_E1.7851.00
13_E16_E1.6941.00
13_E17_H1.6691.00
20_T29_D1.6351.00
17_H32_K1.6261.00
8_L14_I1.5851.00
18_F36_F1.5271.00
39_N44_P1.3641.00
21_E26_L1.3091.00
38_S41_N1.2500.99
35_K49_A1.2280.99
39_N42_F1.1790.99
3_E6_K1.1640.99
10_S23_D1.1190.99
19_F43_L1.0380.98
6_K10_S1.0250.98
41_N44_P0.9860.97
35_K38_S0.9210.96
35_K39_N0.9010.95
42_F45_D0.8980.95
11_N14_I0.8450.94
33_F36_F0.8160.92
2_E6_K0.8110.92
19_F28_F0.7770.90
16_E32_K0.7750.90
39_N43_L0.7660.90
8_L19_F0.7590.89
3_E14_I0.7420.88
9_L25_V0.7360.88
6_K11_N0.7360.88
5_I29_D0.7360.88
6_K22_V0.7310.88
3_E10_S0.7190.87
34_I38_S0.7000.85
9_L15_K0.6940.85
34_I41_N0.6900.84
40_K45_D0.6850.84
7_L11_N0.6840.84
32_K35_K0.6820.84
21_E25_V0.6820.84
34_I40_K0.6690.83
34_I49_A0.6600.82
30_K44_P0.6380.79
3_E7_L0.6260.78
16_E21_E0.6250.78
15_K27_V0.6220.78
36_F49_A0.6100.76
2_E23_D0.6080.76
38_S51_K0.6070.76
22_V25_V0.6020.75
4_L43_L0.5980.75
15_K21_E0.5980.75
18_F53_K0.5870.74
14_I34_I0.5850.73
10_S18_F0.5820.73
34_I37_I0.5770.72
5_I25_V0.5700.71
29_D35_K0.5690.71
12_E20_T0.5650.71
37_I51_K0.5600.70
20_T32_K0.5540.69
6_K16_E0.5470.68
38_S49_A0.5380.67
25_V30_K0.5370.67
2_E16_E0.5360.67
7_L19_F0.5340.67
13_E24_G0.5280.66
36_F40_K0.5240.65
29_D34_I0.5230.65
17_H41_N0.5150.64
37_I43_L0.5130.63
6_K21_E0.5130.63
3_E20_T0.5120.63
26_L45_D0.5120.63
28_F40_K0.5070.63
18_F43_L0.5040.62
43_L51_K0.5000.62
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  
2kjgA 1 1 6.6 0.878 Contact Map
3c5yA 5 0.6429 5.5 0.882 Contact Map
3onoA 4 0.625 5.3 0.884 Contact Map
4u8fA 4 0.6607 4.4 0.887 Contact Map
2mu0A 1 0.6607 4 0.89 Contact Map
4dcuA 1 0.9286 3.5 0.893 Contact Map
2m46A 1 0.6964 3 0.897 Contact Map
2qdjA 1 0.8214 3 0.897 Contact Map
4kegA 2 0.3929 2.8 0.898 Contact Map
3fz4A 1 0.6607 2.7 0.899 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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