GREMLIN Database
Holin_SPP1 - SPP1 phage holin
PFAM: PF04688 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 74 (72)
Sequences: 961 (710)
Seq/√Len: 83.7
META: 0.693

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
59_S68_D5.0401.00
20_Q46_T2.8301.00
67_A71_L2.7201.00
12_V49_A2.5491.00
16_A45_F2.3511.00
9_R58_N2.2541.00
10_T54_W2.1241.00
55_W64_A1.9151.00
66_E69_E1.7741.00
63_K71_L1.6421.00
59_S64_A1.6261.00
13_L17_L1.5911.00
59_S67_A1.5751.00
33_D36_Q1.5731.00
21_I25_F1.5441.00
4_K8_I1.5271.00
63_K67_A1.5200.99
49_A53_A1.5160.99
57_N68_D1.4340.99
37_I41_V1.4290.99
28_S33_D1.4260.99
67_A70_V1.3300.99
38_Y42_S1.2900.98
28_S38_Y1.2880.98
32_I40_A1.1770.97
22_L29_P1.1740.97
48_V52_W1.1550.97
24_A39_Q1.1440.96
62_K65_K1.0730.95
54_W60_F1.0640.95
13_L50_A1.0450.94
13_L53_A1.0320.94
6_T10_T1.0300.94
54_W58_N1.0190.93
39_Q43_T0.9750.92
45_F49_A0.9730.92
10_T60_F0.9490.91
23_V29_P0.9460.90
32_I37_I0.9430.90
42_S46_T0.9400.90
23_V28_S0.9360.90
68_D71_L0.9280.90
4_K45_F0.9250.89
13_L20_Q0.9250.89
6_T61_T0.9040.88
16_A49_A0.8960.88
5_G52_W0.8840.87
24_A27_K0.8720.86
61_T64_A0.8670.86
11_I37_I0.8560.85
21_I43_T0.8370.84
46_T50_A0.8300.84
14_L17_L0.8190.83
8_I12_V0.8100.82
5_G8_I0.7670.79
33_D37_I0.7630.78
59_S65_K0.7530.77
55_W61_T0.7520.77
20_Q23_V0.7170.74
42_S45_F0.7130.73
60_F67_A0.7090.73
66_E70_V0.7080.73
9_R19_N0.7070.73
19_N30_L0.7030.72
39_Q72_K0.6840.70
23_V38_Y0.6790.70
24_A43_T0.6740.69
53_A56_K0.6740.69
55_W59_S0.6680.68
31_P54_W0.6650.68
15_L20_Q0.6640.68
63_K70_V0.6580.67
34_E47_V0.6520.67
2_I6_T0.6510.66
10_T53_A0.6500.66
16_A20_Q0.6490.66
7_I10_T0.6480.66
16_A46_T0.6430.65
64_A67_A0.6290.64
46_T49_A0.6090.61
11_I49_A0.6090.61
34_E38_Y0.6050.61
15_L37_I0.6020.60
68_D72_K0.5990.60
59_S71_L0.5950.59
52_W55_W0.5940.59
17_L46_T0.5840.58
24_A29_P0.5790.57
49_A52_W0.5760.57
3_D65_K0.5700.56
12_V45_F0.5680.56
23_V39_Q0.5650.56
22_L27_K0.5590.55
65_K72_K0.5550.54
59_S63_K0.5540.54
64_A68_D0.5520.54
35_E38_Y0.5470.53
55_W60_F0.5340.52
51_L54_W0.5120.49
57_N61_T0.5110.48
55_W63_K0.5110.48
9_R12_V0.5080.48
39_Q42_S0.5070.48
20_Q43_T0.5070.48
4_K7_I0.5040.48
5_G9_R0.5040.48
62_K66_E0.5010.47
46_T53_A0.5000.47
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  
1pp7U 1 0.7162 9.6 0.889 Contact Map
4r9fA 1 0.4054 7.1 0.895 Contact Map
4i0uA 4 0.7838 6.6 0.897 Contact Map
4aurA 1 0.9324 5.8 0.9 Contact Map
4a4zA 1 0.7162 5.7 0.9 Contact Map
4u4cA 1 0.7162 3.9 0.908 Contact Map
3mktA 1 1 3.1 0.912 Contact Map
1v9dA 3 0.9189 3.1 0.912 Contact Map
1kwfA 1 0.6081 3 0.913 Contact Map
3j01B 1 0.8514 3 0.913 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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