GREMLIN Database
XKDA - Phage-like element PBSX protein XkdA
UniProt: P39780 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 198 (157)
Sequences: 164 (133)
Seq/√Len: 10.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
97_L101_Q3.7110.98
5_L10_E3.6490.98
71_E139_T3.4650.97
108_H150_F3.0140.94
6_S153_R2.9170.93
87_H98_Q2.5940.88
109_F149_M2.4100.83
101_Q109_F2.3470.82
138_V143_A2.2590.79
85_G98_Q2.2470.78
13_K114_F2.1690.76
108_H113_T2.1460.75
28_D33_A2.1420.75
125_R151_E2.1280.74
114_F143_A2.0920.73
90_M147_L2.0880.73
113_T150_F2.0380.71
74_G109_F2.0160.70
15_L36_L2.0050.70
94_F97_L1.9270.67
24_P115_M1.7930.61
149_M153_R1.7870.60
58_I135_V1.6740.55
74_G108_H1.6240.53
111_V132_I1.6160.53
19_L36_L1.6160.53
40_V60_L1.5880.51
16_Y32_I1.5810.51
16_Y109_F1.5650.50
39_W57_S1.5540.50
16_Y73_F1.5340.49
44_D62_Q1.5120.48
50_V72_D1.4810.46
5_L13_K1.4560.45
76_E99_E1.4450.45
24_P138_V1.4450.45
70_W74_G1.4350.44
20_G35_D1.4230.43
101_Q108_H1.4130.43
82_K91_N1.4050.43
3_D82_K1.3980.42
44_D64_K1.3470.40
82_K101_Q1.3300.39
74_G101_Q1.3170.39
4_Y65_S1.2920.38
133_A151_E1.2900.37
13_K129_L1.2750.37
38_I103_N1.2580.36
119_M135_V1.2320.35
42_F94_F1.2230.35
150_F153_R1.2190.34
16_Y82_K1.1920.33
105_F109_F1.1910.33
110_C113_T1.1890.33
11_Y82_K1.1870.33
80_V93_L1.1780.33
97_L159_F1.1690.32
74_G150_F1.1680.32
5_L78_C1.1670.32
42_F121_L1.1490.31
79_H99_E1.1480.31
107_Y142_F1.1480.31
105_F143_A1.1380.31
70_W142_F1.1290.31
14_N33_A1.1200.30
40_V71_E1.1200.30
110_C142_F1.1140.30
113_T142_F1.1120.30
132_I143_A1.1070.30
16_Y105_F1.0970.29
75_H99_E1.0880.29
8_L16_Y1.0850.29
114_F119_M1.0800.29
54_G143_A1.0740.28
61_N69_Q1.0700.28
128_A143_A1.0650.28
6_S149_M1.0550.28
111_V118_Q1.0370.27
78_C105_F1.0370.27
57_S84_A1.0130.26
29_M109_F1.0110.26
8_L82_K1.0050.26
117_L150_F1.0010.26
64_K68_E0.9960.26
96_E135_V0.9940.25
74_G113_T0.9880.25
122_P131_T0.9850.25
74_G110_C0.9730.25
36_L51_K0.9700.25
107_Y139_T0.9620.24
109_F150_F0.9620.24
11_Y137_R0.9590.24
20_G81_L0.9570.24
27_I64_K0.9540.24
11_Y78_C0.9460.24
10_E25_H0.9310.23
108_H149_M0.9240.23
51_K59_V0.9110.23
108_H153_R0.8970.22
156_G159_F0.8900.22
87_H94_F0.8890.22
33_A93_L0.8810.22
19_L57_S0.8810.22
78_C82_K0.8800.22
19_L32_I0.8710.21
16_Y78_C0.8700.21
6_S9_E0.8690.21
80_V116_L0.8620.21
109_F113_T0.8620.21
90_M115_M0.8550.21
29_M70_W0.8550.21
12_V130_A0.8530.21
77_L109_F0.8510.21
97_L150_F0.8500.21
70_W104_Q0.8410.20
92_K134_A0.8290.20
87_H99_E0.8230.20
138_V142_F0.8210.20
5_L114_F0.8210.20
110_C137_R0.8120.20
105_F115_M0.8050.19
83_H87_H0.8000.19
48_M153_R0.7950.19
11_Y36_L0.7900.19
58_I83_H0.7820.19
40_V106_M0.7800.19
26_H70_W0.7790.19
44_D63_K0.7670.18
35_D123_Q0.7630.18
112_P146_R0.7470.18
112_P136_F0.7470.18
136_F146_R0.7470.18
33_A90_M0.7470.18
113_T143_A0.7460.18
122_P128_A0.7440.18
6_S107_Y0.7430.18
50_V57_S0.7370.17
49_M80_V0.7360.17
60_L77_L0.7340.17
103_N134_A0.7340.17
37_D81_L0.7290.17
114_F120_E0.7270.17
46_G60_L0.7240.17
94_F147_L0.7230.17
55_M144_D0.7140.17
82_K153_R0.7110.17
39_W55_M0.7080.17
9_E115_M0.7030.16
76_E87_H0.7020.16
94_F98_Q0.7000.16
18_R148_D0.6880.16
128_A132_I0.6870.16
28_D44_D0.6800.16
94_F105_F0.6780.16
61_N148_D0.6760.16
82_K97_L0.6760.16
35_D92_K0.6730.16
59_V149_M0.6710.16
103_N130_A0.6700.16
14_N92_K0.6700.16
18_R64_K0.6660.16
108_H116_L0.6650.16
82_K109_F0.6590.15
148_D152_R0.6590.15
20_G80_V0.6560.15
32_I78_C0.6550.15
68_E118_Q0.6550.15
62_Q65_S0.6510.15
47_S72_D0.6480.15
119_M143_A0.6440.15
60_L122_P0.6360.15
113_T118_Q0.6350.15
101_Q150_F0.6290.15
152_R157_I0.6270.15
101_Q149_M0.6220.14
75_H105_F0.6220.14
60_L140_K0.6200.14
62_Q145_K0.6180.14
26_H35_D0.6160.14
15_L95_R0.6070.14
133_A141_E0.6060.14
79_H112_P0.6060.14
79_H136_F0.6060.14
79_H146_R0.6060.14
16_Y33_A0.6040.14
73_F97_L0.6040.14
20_G144_D0.5980.14
14_N27_I0.5930.14
15_L26_H0.5930.14
109_F153_R0.5920.14
70_W109_F0.5860.14
91_N101_Q0.5840.14
14_N18_R0.5820.14
54_G130_A0.5820.14
51_K80_V0.5790.14
65_S116_L0.5780.13
42_F68_E0.5770.13
73_F94_F0.5740.13
103_N116_L0.5730.13
24_P111_V0.5660.13
69_Q94_F0.5660.13
4_Y44_D0.5610.13
31_K62_Q0.5600.13
97_L108_H0.5550.13
59_V109_F0.5550.13
20_G66_R0.5550.13
4_Y92_K0.5530.13
13_K134_A0.5520.13
73_F82_K0.5510.13
111_V145_K0.5500.13
73_F83_H0.5470.13
29_M110_C0.5470.13
28_D89_Q0.5450.13
104_Q150_F0.5450.13
70_W110_C0.5450.13
142_F149_M0.5430.13
110_C114_F0.5410.13
110_C150_F0.5380.13
38_I124_W0.5250.12
30_L42_F0.5230.12
34_K53_D0.5180.12
69_Q119_M0.5170.12
74_G149_M0.5150.12
13_K131_T0.5120.12
119_M132_I0.5120.12
137_R140_K0.5110.12
63_K91_N0.5090.12
35_D44_D0.5080.12
128_A133_A0.5060.12
113_T153_R0.5050.12
86_N117_L0.5030.12
96_E116_L0.5030.12
75_H143_A0.5020.12
95_R138_V0.5010.12
32_I138_V0.5010.12
48_M88_F0.5000.12
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  
3dteA 2 0.9899 99.7 0.758 Contact Map
4aw6A 2 0.7121 92.7 0.923 Contact Map
4il3A 1 0.7475 90.2 0.928 Contact Map
3cqbA 4 0.404 80.2 0.938 Contact Map
4jixA 2 0.5253 70.6 0.942 Contact Map
3c37A 1 0.7879 61.4 0.946 Contact Map
4qhjA 2 0.4899 60.4 0.946 Contact Map
4jiuA 1 0.4899 59.1 0.946 Contact Map
4in9A 1 0.5808 35 0.954 Contact Map
1j7nA 2 0.8182 29.6 0.955 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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