GREMLIN Database
Phage_holin_3_6 - Putative Actinobacterial Holin-X, holin superfamily III
PFAM: PF07332 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 113 (110)
Sequences: 35733 (25450)
Seq/√Len: 2426.6
META: 0.928

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
55_L76_L3.7631.00
81_A85_L2.6121.00
60_L65_R2.5231.00
50_A77_L2.4991.00
88_R92_K2.4271.00
82_V86_V2.3991.00
86_V90_R2.1401.00
13_T17_Q2.0791.00
85_L88_R1.8041.00
59_V69_A1.7991.00
57_A70_L1.7171.00
107_E111_W1.7021.00
84_A88_R1.6721.00
98_P102_I1.6301.00
85_L89_R1.6291.00
34_G38_G1.6191.00
60_L69_A1.5661.00
104_E107_E1.5541.00
54_L73_A1.5231.00
57_A73_A1.5141.00
50_A80_A1.4941.00
31_K34_G1.4911.00
43_A84_A1.4521.00
105_L108_D1.4001.00
49_L52_L1.3841.00
53_F59_V1.3831.00
47_A80_A1.3811.00
56_A60_L1.3751.00
27_K31_K1.3711.00
45_V48_L1.3551.00
86_V89_R1.3431.00
40_L87_G1.3071.00
20_E23_K1.3011.00
65_R69_A1.2831.00
23_K27_K1.2581.00
78_L82_V1.2441.00
58_L72_V1.2361.00
65_R68_A1.2231.00
52_L56_A1.2161.00
48_L52_L1.2161.00
60_L63_A1.2091.00
105_L109_V1.2061.00
56_A69_A1.1851.00
17_Q20_E1.1831.00
50_A73_A1.1351.00
29_K32_R1.1331.00
108_D111_W1.1331.00
46_L76_L1.1211.00
27_K30_A1.1091.00
35_R38_G1.0761.00
102_I106_K1.0621.00
12_S16_R1.0551.00
38_G42_A1.0521.00
89_R93_R1.0491.00
31_K35_R1.0441.00
35_R90_R1.0371.00
49_L53_F1.0101.00
101_T104_E1.0071.00
61_A64_A1.0061.00
39_L86_V1.0031.00
66_W69_A1.0021.00
36_G91_L0.9921.00
51_L76_L0.9841.00
57_A61_A0.9821.00
82_V85_L0.9741.00
6_D10_D0.9641.00
95_S99_E0.9631.00
53_F56_A0.9551.00
107_E110_E0.9551.00
73_A77_L0.9341.00
18_E108_D0.9241.00
90_R93_R0.9141.00
49_L55_L0.9131.00
26_L30_A0.9111.00
89_R92_K0.9071.00
66_W70_L0.9031.00
67_L70_L0.8861.00
98_P101_T0.8811.00
24_A28_E0.8791.00
30_A34_G0.8781.00
43_A87_G0.8731.00
103_E107_E0.8631.00
37_A41_A0.8581.00
58_L61_A0.8491.00
103_E106_K0.8401.00
39_L83_L0.8341.00
14_L18_E0.8291.00
54_L57_A0.8271.00
101_T105_L0.8261.00
9_E12_S0.8221.00
68_A72_V0.8181.00
3_L10_D0.8171.00
14_L17_Q0.8091.00
74_G78_L0.8091.00
8_A12_S0.7961.00
16_R20_E0.7961.00
30_A33_A0.7911.00
36_G87_G0.7891.00
75_V79_V0.7851.00
59_V72_V0.7851.00
81_A84_A0.7801.00
67_L71_I0.7621.00
56_A59_V0.7561.00
100_R104_E0.7531.00
100_R103_E0.7501.00
22_A25_E0.7441.00
21_L24_A0.7431.00
51_L55_L0.7431.00
11_L15_V0.7351.00
5_R9_E0.7301.00
39_L42_A0.7271.00
42_A83_L0.7251.00
61_A66_W0.7201.00
77_L81_A0.7191.00
63_A68_A0.7181.00
19_L23_K0.7121.00
59_V68_A0.7051.00
26_L29_K0.7041.00
53_F73_A0.7031.00
25_E101_T0.6981.00
21_L25_E0.6951.00
8_A11_L0.6921.00
44_A48_L0.6841.00
72_V76_L0.6821.00
106_K110_E0.6761.00
32_R90_R0.6671.00
106_K109_V0.6651.00
45_V51_L0.6611.00
55_L72_V0.6561.00
18_E22_A0.6541.00
9_E13_T0.6451.00
46_L79_V0.6361.00
20_E24_A0.6271.00
106_K111_W0.6261.00
74_G81_A0.6231.00
99_E102_I0.6221.00
26_L98_P0.6201.00
70_L74_G0.6191.00
99_E103_E0.6091.00
96_P99_E0.6071.00
29_K97_V0.6061.00
43_A83_L0.5961.00
35_R39_L0.5891.00
3_L7_L0.5831.00
3_L6_D0.5721.00
6_D9_E0.5611.00
49_L76_L0.5601.00
97_V102_I0.5601.00
65_R70_L0.5541.00
42_A45_V0.5501.00
36_G90_R0.5481.00
102_I105_L0.5471.00
32_R35_R0.5471.00
15_V19_L0.5381.00
57_A66_W0.5311.00
83_L87_G0.5281.00
28_E32_R0.5271.00
40_L84_A0.5271.00
81_A88_R0.5251.00
13_T16_R0.5161.00
10_D13_T0.5141.00
34_G37_A0.5131.00
39_L90_R0.5061.00
7_L10_D0.5011.00
68_A71_I0.5001.00
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  
4ev6A 3 0.8053 30.2 0.834 Contact Map
4i0uA 4 0.7522 23.4 0.842 Contact Map
4ry2A 2 0.7876 17.5 0.851 Contact Map
4q4hA 1 0.7965 17.3 0.851 Contact Map
3wmgA 1 0.7965 16.3 0.853 Contact Map
4a82A 2 0.7965 14.2 0.857 Contact Map
3zdqA 2 0.7965 13.9 0.858 Contact Map
2m20A 2 0.4425 13.6 0.858 Contact Map
3b60A 2 0.7965 13.5 0.858 Contact Map
3b5xA 2 0.7965 12 0.862 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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