GREMLIN Database
XKDM - Phage-like element PBSX protein XkdM
UniProt: P54332 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 147 (138)
Sequences: 295 (229)
Seq/√Len: 19.5

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_G132_F4.1111.00
57_G134_F3.1410.99
39_E56_N2.9270.99
37_K133_T2.9040.99
32_N113_S2.9000.99
14_G119_L2.8950.99
47_M55_A2.8090.99
39_E50_H2.7770.99
34_E113_S2.5990.98
29_F106_L2.5830.98
72_L142_K2.5650.98
37_K112_D2.3680.96
34_E58_T2.2870.95
120_D123_S2.0960.92
31_A106_L2.0320.91
83_D110_N1.9900.90
79_K138_D1.9810.90
28_T62_T1.9380.89
13_E46_R1.9000.88
34_E56_N1.8990.88
112_D133_T1.8120.85
16_L24_A1.8070.85
19_D73_L1.8040.85
14_G26_I1.7530.83
35_K83_D1.7390.83
75_M137_F1.7350.82
29_F88_L1.7040.81
11_G14_G1.6660.80
16_L29_F1.6650.80
51_K94_D1.5160.73
14_G61_A1.5120.73
60_T131_P1.4730.71
35_K110_N1.4670.70
116_I137_F1.4610.70
89_Q140_P1.4450.69
28_T120_D1.4400.69
38_S129_E1.4310.68
79_K136_D1.4110.67
94_D100_G1.4000.66
30_E118_S1.3690.65
65_K102_E1.3650.64
107_Y138_D1.2600.58
21_E69_K1.2440.57
17_F91_V1.2260.56
36_N54_G1.2240.56
90_A117_A1.1970.54
36_N104_V1.1770.53
15_R91_V1.1660.52
24_A63_F1.1520.51
29_F90_A1.1390.50
15_R22_E1.1340.50
106_L109_V1.1330.50
73_L93_D1.1180.49
37_K110_N1.1170.49
27_K127_E1.1120.49
48_T56_N1.1000.48
87_T105_T1.1000.48
23_M88_L1.0960.48
21_E103_R1.0900.47
108_D135_E1.0860.47
40_V61_A1.0600.45
68_S102_E1.0590.45
112_D131_P1.0550.45
65_K71_V1.0510.45
67_T70_F1.0380.44
102_E143_L1.0380.44
72_L76_D1.0280.43
9_I143_L1.0180.43
50_H56_N1.0110.42
32_N60_T0.9960.41
38_S52_T0.9960.41
26_I61_A0.9810.40
101_T141_E0.9800.40
33_V78_V0.9600.39
76_D79_K0.9600.39
35_K52_T0.9500.39
105_T140_P0.9300.37
85_Y110_N0.9240.37
42_I45_R0.9010.36
19_D76_D0.9010.36
110_N133_T0.8910.35
11_G123_S0.8810.34
28_T118_S0.8780.34
113_S130_V0.8750.34
14_G43_M0.8710.34
78_V136_D0.8580.33
75_M79_K0.8570.33
47_M136_D0.8570.33
93_D101_T0.8310.32
49_G135_E0.8240.31
27_K64_Y0.8170.31
16_L88_L0.8160.31
33_V134_F0.8150.31
49_G85_Y0.8030.30
5_A51_K0.8020.30
34_E60_T0.8000.30
28_T108_D0.7980.30
36_N53_T0.7890.29
51_K100_G0.7860.29
79_K137_F0.7810.29
38_S60_T0.7710.28
26_I118_S0.7660.28
92_L101_T0.7610.28
49_G137_F0.7580.28
92_L143_L0.7580.28
45_R49_G0.7490.27
37_K83_D0.7430.27
24_A136_D0.7410.27
76_D80_K0.7340.27
59_G109_V0.7260.26
7_N102_E0.7230.26
50_H108_D0.7200.26
59_G131_P0.7130.25
46_R55_A0.7120.25
30_E119_L0.7060.25
15_R119_L0.6890.24
11_G128_E0.6880.24
26_I109_V0.6880.24
61_A119_L0.6820.24
95_Q100_G0.6790.24
60_T139_V0.6780.24
6_Q96_S0.6780.24
92_L102_E0.6760.24
77_Y143_L0.6700.23
38_S120_D0.6650.23
76_D136_D0.6610.23
45_R136_D0.6590.23
33_V57_G0.6560.23
28_T123_S0.6550.23
33_V116_I0.6510.23
49_G112_D0.6500.23
37_K135_E0.6490.23
55_A116_I0.6480.22
17_F103_R0.6480.22
39_E131_P0.6460.22
32_N114_A0.6460.22
25_H67_T0.6450.22
33_V55_A0.6450.22
68_S139_V0.6430.22
92_L103_R0.6430.22
29_F117_A0.6420.22
44_G121_V0.6410.22
112_D135_E0.6410.22
62_T127_E0.6320.22
36_N56_N0.6290.22
38_S54_G0.6270.22
20_G76_D0.6250.21
65_K128_E0.6240.21
96_S103_R0.6230.21
6_Q76_D0.6200.21
89_Q101_T0.6170.21
103_R143_L0.6130.21
32_N56_N0.6070.21
7_N19_D0.5940.20
19_D32_N0.5930.20
67_T105_T0.5890.20
53_T73_L0.5870.20
58_T127_E0.5830.20
55_A128_E0.5820.20
62_T123_S0.5800.20
4_K21_E0.5780.19
43_M121_V0.5760.19
15_R93_D0.5760.19
96_S105_T0.5720.19
14_G129_E0.5700.19
39_E47_M0.5680.19
71_V139_V0.5680.19
27_K62_T0.5620.19
26_I130_V0.5620.19
118_S127_E0.5610.19
26_I132_F0.5600.19
35_K135_E0.5560.19
90_A119_L0.5520.18
9_I97_S0.5510.18
99_R143_L0.5490.18
78_V116_I0.5480.18
24_A116_I0.5470.18
89_Q105_T0.5460.18
28_T32_N0.5430.18
47_M57_G0.5420.18
54_G128_E0.5390.18
63_F67_T0.5380.18
7_N99_R0.5340.18
76_D125_A0.5340.18
26_I88_L0.5340.18
39_E129_E0.5310.18
21_E131_P0.5280.18
39_E59_G0.5270.18
4_K76_D0.5220.17
18_L23_M0.5180.17
8_T41_N0.5170.17
68_S141_E0.5160.17
5_A82_S0.5140.17
74_M139_V0.5130.17
107_Y136_D0.5130.17
12_K17_F0.5100.17
42_I49_G0.5090.17
115_K118_S0.5060.17
14_G31_A0.5050.17
30_E130_V0.5050.17
29_F59_G0.5040.17
109_V132_F0.5030.17
5_A135_E0.5030.17
91_V103_R0.5030.17
53_T80_K0.5020.17
58_T83_D0.5010.17
40_V125_A0.5000.17
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  
2gujA 1 0.9048 100 0.087 Contact Map
3j9qS 11 0.932 28.3 0.938 Contact Map
3v4hA 5 0.7823 18.4 0.943 Contact Map
3he1A 3 0.8231 17.7 0.944 Contact Map
4ksrA 3 0.8776 15.1 0.945 Contact Map
3wx6A 6 0.7483 14.5 0.946 Contact Map
2k4qA 1 0.8912 14.4 0.946 Contact Map
3eaaA 3 0.9184 11.6 0.948 Contact Map
4hkhA 1 0.8912 9.6 0.95 Contact Map
1y12A 3 0.9116 9.4 0.95 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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