GREMLIN Database
YRKN - Uncharacterized protein YrkN
UniProt: P54441 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 185 (143)
Sequences: 487 (359)
Seq/√Len: 30.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
87_N118_T5.1351.00
112_E142_F3.9111.00
64_Y114_Q2.8591.00
75_G93_Y2.8531.00
65_H72_N2.8061.00
104_G135_F2.7851.00
94_V103_I2.7271.00
66_I107_A2.6681.00
125_T132_N2.6201.00
110_A113_A2.4590.99
108_W140_C2.4510.99
14_A18_D2.3150.99
76_A111_I2.2870.99
77_V91_L2.2760.99
62_V115_Y2.1920.98
12_E65_H2.1850.98
105_L139_K2.1440.98
45_P49_D2.1340.98
18_D65_H1.9910.97
64_Y115_Y1.9510.97
80_I87_N1.9220.96
89_L123_T1.9160.96
20_P24_K1.7580.94
108_W142_F1.7350.93
85_N119_V1.7150.93
35_I39_G1.7040.93
14_A63_V1.6000.90
13_L62_V1.5840.90
22_F75_G1.5700.89
50_N59_P1.5210.88
33_A129_E1.5140.88
73_V103_I1.4920.87
14_A22_F1.4150.84
23_Q47_P1.4040.83
39_G44_G1.3850.82
23_Q49_D1.3520.81
35_I40_D1.3470.81
69_D94_V1.3310.80
12_E67_L1.2840.77
22_F95_S1.2660.76
34_V40_D1.1930.72
22_F33_A1.1860.71
26_L123_T1.1670.70
78_V121_W1.1450.69
34_V45_P1.1260.67
131_R134_N1.1110.66
69_D97_E1.1050.66
138_N144_I1.0900.65
10_I119_V1.0830.64
26_L47_P1.0680.63
19_L56_F1.0620.63
82_S105_L1.0590.62
33_A126_P1.0560.62
144_I147_F1.0350.61
86_H120_L1.0240.60
44_G47_P1.0150.59
33_A91_L1.0090.59
14_A19_L1.0050.58
88_S91_L1.0020.58
29_A95_S0.9890.57
115_Y121_W0.9840.57
85_N118_T0.9820.57
76_A89_L0.9780.56
13_L106_S0.9770.56
78_V134_N0.9670.55
75_G135_F0.9620.55
60_G100_S0.9570.55
94_V107_A0.9480.54
9_V68_Q0.9450.54
48_S129_E0.9280.52
22_F52_V0.9260.52
67_L72_N0.9260.52
9_V71_K0.9260.52
56_F93_Y0.9200.52
70_G98_Y0.9170.51
68_Q150_E0.9150.51
10_I24_K0.9060.51
16_E57_N0.9020.50
66_I94_V0.8990.50
26_L37_T0.8990.50
74_G121_W0.8970.50
89_L108_W0.8940.50
37_T44_G0.8920.49
71_K97_E0.8910.49
129_E132_N0.8880.49
125_T136_Y0.8820.49
31_A48_S0.8790.48
21_E67_L0.8760.48
28_E95_S0.8720.48
31_A35_I0.8710.48
129_E133_I0.8700.48
107_A129_E0.8660.47
9_V16_E0.8610.47
13_L115_Y0.8550.46
10_I13_L0.8530.46
31_A45_P0.8430.46
15_K98_Y0.8430.46
10_I15_K0.8320.45
47_P75_G0.8320.45
126_P129_E0.8230.44
84_T111_I0.8200.44
53_Q106_S0.8160.43
78_V109_K0.8090.43
97_E101_Q0.8020.42
84_T87_N0.7990.42
64_Y71_K0.7910.41
63_V94_V0.7900.41
148_Y152_H0.7870.41
8_K64_Y0.7840.41
88_S124_V0.7810.41
34_V139_K0.7800.41
82_S87_N0.7790.41
89_L140_C0.7790.41
30_F93_Y0.7760.40
124_V151_H0.7730.40
116_P121_W0.7640.39
82_S118_T0.7630.39
112_E121_W0.7620.39
15_K70_G0.7510.38
33_A44_G0.7490.38
26_L39_G0.7480.38
14_A26_L0.7360.37
105_L117_D0.7330.37
30_F136_Y0.7240.36
21_E71_K0.7200.36
68_Q103_I0.7120.36
20_P113_A0.7120.36
146_E152_H0.7070.35
74_G140_C0.7060.35
91_L128_F0.7050.35
111_I144_I0.7030.35
91_L129_E0.7000.35
58_A94_V0.6990.35
11_L33_A0.6980.35
20_P109_K0.6980.35
19_L23_Q0.6970.34
19_L99_H0.6880.34
81_N85_N0.6860.34
89_L126_P0.6810.33
44_G49_D0.6740.33
13_L143_H0.6700.33
78_V85_N0.6680.32
17_S72_N0.6660.32
105_L140_C0.6650.32
37_T50_N0.6650.32
70_G113_A0.6650.32
30_F129_E0.6620.32
123_T138_N0.6610.32
69_D143_H0.6610.32
31_A92_F0.6570.32
61_A113_A0.6560.32
9_V59_P0.6490.31
86_H122_E0.6410.31
16_E54_E0.6400.30
46_I111_I0.6390.30
8_K106_S0.6290.30
13_L110_A0.6270.30
31_A66_I0.6230.29
134_N139_K0.6190.29
39_G47_P0.6150.29
38_F72_N0.6130.29
121_W131_R0.6120.29
80_I85_N0.6090.28
61_A77_V0.6060.28
17_S101_Q0.6030.28
34_V37_T0.6030.28
104_G128_F0.6020.28
142_F151_H0.5980.28
12_E64_Y0.5940.27
121_W134_N0.5940.27
31_A107_A0.5880.27
135_F144_I0.5880.27
30_F33_A0.5870.27
111_I117_D0.5830.27
13_L24_K0.5790.27
138_N146_E0.5780.26
30_F133_I0.5750.26
108_W134_N0.5730.26
30_F142_F0.5720.26
62_V70_G0.5640.26
57_N106_S0.5630.26
92_F122_E0.5630.26
21_E106_S0.5620.25
13_L68_Q0.5610.25
61_A89_L0.5610.25
17_S50_N0.5590.25
140_C148_Y0.5580.25
118_T139_K0.5570.25
11_L110_A0.5570.25
86_H101_Q0.5540.25
20_P119_V0.5510.25
21_E72_N0.5470.25
73_V94_V0.5470.25
138_N149_N0.5450.24
71_K113_A0.5420.24
89_L144_I0.5410.24
20_P97_E0.5410.24
67_L76_A0.5350.24
58_A79_R0.5320.24
29_A101_Q0.5300.24
29_A69_D0.5290.24
26_L34_V0.5250.23
79_R88_S0.5250.23
45_P93_Y0.5250.23
11_L121_W0.5230.23
15_K71_K0.5210.23
61_A118_T0.5190.23
138_N143_H0.5180.23
113_A116_P0.5150.23
100_S151_H0.5110.23
13_L71_K0.5110.23
68_Q106_S0.5100.22
71_K120_L0.5020.22
22_F36_E0.5000.22
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  
2fiaA 1 0.8486 99.8 0.667 Contact Map
2oh1A 1 0.8432 99.7 0.673 Contact Map
2pc1A 1 0.8432 99.7 0.675 Contact Map
3blnA 2 0.7676 99.7 0.686 Contact Map
3d8pA 1 0.8486 99.7 0.686 Contact Map
4m85A 1 0.8108 99.7 0.687 Contact Map
3fncA 2 0.8486 99.7 0.688 Contact Map
3pp9A 2 0.8811 99.7 0.689 Contact Map
2q7bA 2 0.8541 99.7 0.69 Contact Map
2ob0A 1 0.827 99.7 0.691 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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