GREMLIN Database
XKDN - Phage-like element PBSX protein XkdN
UniProt: P54333 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 148 (137)
Sequences: 179 (153)
Seq/√Len: 13.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
26_K44_I4.2651.00
89_T125_W4.1671.00
53_I80_F3.6300.99
93_D96_S3.4160.99
97_K101_E3.2040.98
19_T32_R2.6490.93
66_V69_R2.5450.92
15_M146_A2.5240.91
94_F100_R2.4660.90
105_T111_V2.3450.88
94_F112_A2.0850.81
89_T94_F2.0600.80
26_K42_P1.9750.77
128_K131_E1.9640.77
100_R111_V1.9430.76
124_N127_N1.8820.73
59_E83_R1.8460.72
13_F41_I1.8320.71
19_T102_A1.7910.70
79_R83_R1.7800.69
30_S33_F1.7480.68
94_F115_V1.7240.67
48_I84_I1.6930.65
11_L30_S1.6870.65
43_F94_F1.6620.64
52_R87_E1.6490.63
26_K140_E1.5940.60
13_F17_G1.5770.59
24_E44_I1.5750.59
32_R121_E1.5750.59
56_L60_N1.4730.54
100_R115_V1.4620.53
80_F133_N1.4210.51
20_I141_D1.4030.50
32_R116_L1.3910.50
60_N83_R1.3590.48
43_F91_Y1.3560.48
88_S133_N1.3510.48
51_E114_R1.3380.47
80_F84_I1.3350.47
75_L122_Y1.3280.46
24_E60_N1.3270.46
48_I110_E1.3120.46
48_I54_D1.3070.45
37_K110_E1.2960.45
74_D142_L1.2600.43
49_T63_F1.2580.43
33_F116_L1.2300.41
12_S51_E1.2300.41
83_R122_Y1.2240.41
140_E144_E1.2170.41
46_K87_E1.2080.40
45_L88_S1.1740.39
62_T140_E1.1440.37
32_R117_S1.1220.36
46_K137_D1.0800.34
107_D129_A1.0320.32
76_D137_D1.0110.31
16_P114_R1.0100.31
45_L79_R1.0010.30
84_I108_P0.9990.30
25_I45_L0.9840.30
43_F116_L0.9680.29
56_L114_R0.9680.29
97_K106_A0.9600.29
95_R108_P0.9550.28
57_E96_S0.9540.28
16_P103_Y0.9460.28
67_K117_S0.9430.28
10_D96_S0.9390.28
16_P102_A0.9350.27
119_G135_F0.9300.27
80_F105_T0.9270.27
31_K137_D0.9250.27
72_V78_Q0.9150.27
130_I134_G0.9140.27
116_L125_W0.9030.26
110_E132_I0.9010.26
109_V119_G0.8810.25
10_D112_A0.8750.25
89_T115_V0.8710.25
13_F30_S0.8630.25
17_G126_L0.8570.24
113_K122_Y0.8530.24
20_I24_E0.8530.24
93_D112_A0.8490.24
44_I135_F0.8450.24
34_V104_K0.8400.24
107_D110_E0.8350.24
42_P87_E0.8320.23
46_K141_D0.8300.23
12_S82_A0.8260.23
29_I38_G0.8170.23
80_F100_R0.8160.23
100_R112_A0.8090.23
60_N68_G0.8040.22
98_D144_E0.8030.22
42_P49_T0.8020.22
19_T116_L0.7950.22
55_E93_D0.7950.22
27_V30_S0.7920.22
19_T135_F0.7910.22
145_E148_N0.7790.21
37_K144_E0.7780.21
57_E135_F0.7730.21
95_R107_D0.7690.21
36_K131_E0.7690.21
85_A126_L0.7680.21
55_E141_D0.7620.21
48_I53_I0.7610.21
136_E144_E0.7570.21
94_F102_A0.7490.20
36_K40_V0.7440.20
86_I104_K0.7390.20
27_V45_L0.7350.20
64_K141_D0.7240.20
48_I142_L0.7230.20
55_E84_I0.7210.19
30_S116_L0.7200.19
134_G145_E0.7170.19
81_Y141_D0.7150.19
99_L103_Y0.7150.19
18_K90_I0.7140.19
42_P53_I0.7140.19
41_I75_L0.7120.19
88_S135_F0.7090.19
12_S73_K0.7060.19
65_N96_S0.7040.19
74_D130_I0.6940.19
120_G129_A0.6920.19
11_L105_T0.6910.19
76_D89_T0.6860.18
41_I146_A0.6820.18
94_F111_V0.6780.18
42_P101_E0.6780.18
82_A113_K0.6780.18
59_E98_D0.6720.18
89_T143_E0.6710.18
30_S38_G0.6670.18
80_F88_S0.6620.18
15_M69_R0.6570.17
20_I26_K0.6520.17
65_N70_G0.6500.17
15_M76_D0.6440.17
123_A127_N0.6390.17
85_A96_S0.6380.17
45_L128_K0.6320.17
114_R123_A0.6280.17
18_K105_T0.6240.16
19_T121_E0.6220.16
59_E122_Y0.6180.16
109_V128_K0.6110.16
65_N69_R0.6110.16
83_R109_V0.6060.16
54_D113_K0.6060.16
89_T135_F0.6020.16
80_F94_F0.6020.16
53_I89_T0.6010.16
25_I127_N0.6000.16
15_M77_S0.5990.16
138_D143_E0.5970.16
33_F85_A0.5960.16
124_N136_E0.5940.16
98_D122_Y0.5940.16
33_F103_Y0.5940.16
16_P19_T0.5870.15
42_P46_K0.5860.15
82_A123_A0.5850.15
11_L111_V0.5770.15
21_E44_I0.5730.15
40_V43_F0.5710.15
84_I88_S0.5660.15
18_K143_E0.5600.15
50_T53_I0.5550.15
54_D137_D0.5540.15
15_M75_L0.5520.15
103_Y115_V0.5490.14
63_F117_S0.5370.14
53_I125_W0.5370.14
117_S128_K0.5350.14
17_G98_D0.5330.14
17_G25_I0.5290.14
45_L129_A0.5270.14
117_S134_G0.5260.14
48_I88_S0.5250.14
28_P116_L0.5250.14
79_R127_N0.5240.14
56_L83_R0.5240.14
81_Y97_K0.5210.14
57_E119_G0.5210.14
102_A143_E0.5180.14
14_F121_E0.5160.14
39_N66_V0.5160.14
21_E84_I0.5160.14
26_K71_R0.5140.14
60_N119_G0.5110.13
23_E90_I0.5110.13
28_P82_A0.5110.13
98_D141_D0.5110.13
122_Y133_N0.5100.13
136_E145_E0.5090.13
51_E146_A0.5080.13
61_T73_K0.5070.13
12_S28_P0.5030.13
63_F71_R0.5020.13
57_E131_E0.5000.13
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  
3kluA 1 0.8041 100 0.182 Contact Map
4dvyP 1 0.7838 6.2 0.957 Contact Map
4mafA 2 0.8649 6.1 0.957 Contact Map
3j8bE 1 0.473 5.2 0.959 Contact Map
2mb9A 1 0.6486 4.9 0.96 Contact Map
3pmkN 1 0.2027 4.6 0.96 Contact Map
2kdoA 1 0.7095 4.4 0.961 Contact Map
1g5zA 2 0.5473 4.2 0.961 Contact Map
1yjgA 2 0.5 4.2 0.961 Contact Map
1djxA 1 0.6351 4 0.961 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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