GREMLIN Database
YQBM - Uncharacterized protein YqbM
UniProt: P45929 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 (231)
Seq/√Len: 19.7

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_F4.0971.00
57_G134_F3.1430.99
37_K133_T2.9550.99
39_E56_N2.9330.99
32_N113_S2.8850.99
47_M55_A2.8780.99
14_G119_L2.8700.99
39_E50_H2.7830.99
34_E113_S2.6170.98
72_L142_Q2.5950.98
29_F106_L2.5670.98
37_K112_D2.4160.97
34_E58_T2.3390.96
120_D123_S2.1090.93
31_A106_L2.0500.92
83_D110_N2.0080.91
79_K138_D1.9780.90
13_E46_R1.9150.88
28_T62_T1.9100.88
19_D73_I1.9000.88
34_E56_N1.8860.88
112_D133_T1.8620.87
16_L24_A1.8270.86
75_M137_F1.7790.84
35_K83_D1.7420.83
14_G26_I1.7300.83
29_F88_L1.7260.82
16_L29_F1.7040.82
11_G14_G1.6470.79
51_K94_D1.5250.74
14_G61_A1.5000.72
35_K110_N1.4940.72
28_T120_D1.4880.72
89_Q140_P1.4870.72
60_T131_P1.4560.70
79_K136_D1.4430.69
38_S129_E1.4120.68
94_D100_G1.4090.67
116_I137_F1.3860.66
30_E118_G1.3500.64
36_N54_G1.2610.59
107_Y138_D1.2490.58
36_N104_V1.2470.58
21_E69_Q1.2410.57
90_A117_A1.1930.54
17_F91_V1.1920.54
29_F90_A1.1900.54
15_R91_V1.1870.54
24_A63_F1.1640.52
15_R22_E1.1600.52
37_K110_N1.1450.51
106_L109_V1.1410.51
21_E103_R1.1330.50
73_I93_D1.1150.49
23_M88_L1.1110.49
27_K127_E1.1080.49
48_T56_N1.1080.49
65_K71_V1.0770.47
112_D131_P1.0700.46
40_V61_A1.0630.46
68_S102_E1.0510.45
67_T70_F1.0450.45
65_K102_E1.0380.44
101_T141_E1.0360.44
38_S52_T1.0220.43
50_H56_N1.0190.43
72_L76_D1.0130.43
26_I61_A0.9800.41
35_K52_T0.9770.41
33_V78_V0.9760.40
32_N60_T0.9650.40
85_Y110_N0.9600.39
105_T140_P0.9410.38
76_D79_K0.9280.38
110_N133_T0.9230.37
47_M136_D0.9170.37
87_T105_T0.9100.36
19_D76_D0.9100.36
14_G43_M0.8920.35
9_I143_L0.8880.35
78_V136_D0.8820.35
28_T118_G0.8790.35
75_M79_K0.8790.35
42_I45_R0.8770.35
27_K64_Y0.8730.34
93_D101_T0.8560.33
113_S130_V0.8550.33
11_G123_S0.8520.33
102_E143_L0.8500.33
92_L102_E0.8430.33
49_G85_Y0.8420.33
33_V134_F0.8230.31
7_N102_E0.8160.31
36_N53_T0.8160.31
16_L88_L0.8030.30
51_K100_G0.7940.30
34_E60_T0.7880.30
24_A136_D0.7860.29
45_R49_G0.7820.29
92_L143_L0.7720.29
38_S60_T0.7710.29
5_A51_K0.7700.29
28_T108_D0.7660.28
49_G137_F0.7640.28
26_I118_G0.7590.28
79_K137_F0.7450.27
59_G109_V0.7410.27
50_H108_D0.7390.27
46_R55_A0.7340.27
37_K83_D0.7310.27
108_D135_E0.7290.26
30_E119_L0.7260.26
26_I109_V0.7200.26
92_L101_T0.7170.26
99_R102_E0.7160.26
59_G131_P0.7080.25
45_R136_D0.6920.25
77_Y143_L0.6850.24
49_G112_D0.6830.24
25_H67_T0.6790.24
11_G128_E0.6780.24
76_D136_D0.6780.24
95_A100_G0.6760.24
29_F117_A0.6750.24
76_D80_K0.6740.24
33_V57_G0.6720.24
6_Q96_S0.6700.24
28_T123_S0.6700.24
61_A119_L0.6660.23
15_R119_L0.6620.23
38_S120_D0.6610.23
33_V55_A0.6610.23
55_A116_I0.6570.23
32_N114_A0.6520.23
44_G121_V0.6490.23
33_V116_I0.6470.23
65_K128_E0.6390.22
68_S139_V0.6350.22
92_L103_R0.6340.22
96_S103_R0.6320.22
38_S54_G0.6320.22
17_F103_R0.6250.22
39_E131_P0.6240.22
99_R143_L0.6230.22
62_T127_E0.6200.21
4_K21_E0.6190.21
103_R143_L0.6130.21
67_T105_T0.6100.21
36_N56_N0.6070.21
20_G76_D0.6060.21
19_D32_N0.6030.21
43_M121_V0.6000.21
32_N56_N0.5930.20
96_S105_T0.5920.20
62_T123_S0.5900.20
71_V139_V0.5890.20
53_T73_I0.5830.20
15_R93_D0.5820.20
89_Q101_T0.5780.20
47_M57_G0.5750.20
39_E47_M0.5750.20
35_K135_E0.5730.19
55_A128_E0.5700.19
7_N19_D0.5690.19
76_D125_A0.5680.19
28_T32_N0.5670.19
14_G129_E0.5660.19
24_A116_I0.5650.19
78_V116_I0.5630.19
27_K62_T0.5550.19
112_D135_E0.5540.19
26_I132_F0.5540.19
53_T80_K0.5530.19
6_Q76_D0.5520.19
60_T139_V0.5520.19
115_K118_G0.5490.18
26_I130_V0.5450.18
63_F67_T0.5430.18
39_E129_E0.5370.18
43_M143_L0.5360.18
118_G127_E0.5360.18
39_E59_G0.5350.18
58_T127_E0.5320.18
42_I49_G0.5310.18
26_I60_T0.5310.18
89_Q105_T0.5300.18
26_I88_L0.5280.18
112_D121_V0.5270.18
8_T41_N0.5260.18
21_E131_P0.5250.18
54_G128_E0.5240.18
29_F75_M0.5220.17
82_S140_P0.5180.17
7_N99_R0.5180.17
91_V103_R0.5180.17
68_S141_E0.5160.17
12_K17_F0.5160.17
90_A119_L0.5160.17
37_K135_E0.5150.17
107_Y136_D0.5140.17
109_V132_F0.5120.17
90_A102_E0.5070.17
30_E130_V0.5060.17
29_F59_G0.5060.17
64_Y121_V0.5020.17
49_G135_E0.5010.17
66_V95_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 0.098 Contact Map
3j9qS 11 0.932 48.1 0.931 Contact Map
3v4hA 5 0.7687 20.5 0.943 Contact Map
3wx6A 6 0.7483 19.5 0.944 Contact Map
3he1A 3 0.8231 19.3 0.944 Contact Map
4ksrA 3 0.8776 15 0.947 Contact Map
2k4qA 1 0.8912 10.4 0.95 Contact Map
4hkhA 1 0.8912 8.8 0.952 Contact Map
1y12A 3 0.9116 8.6 0.952 Contact Map
3eaaA 3 0.9116 8 0.953 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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