GREMLIN Database
YBGA - Uncharacterized protein YbgA
UniProt: P24252 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11108
Length: 169 (162)
Sequences: 667 (495)
Seq/√Len: 38.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
16_A79_V4.2921.00
92_H153_Y4.2121.00
42_L102_Y3.5481.00
34_L59_V3.4461.00
40_Y152_R2.8481.00
48_S51_E2.6721.00
19_E40_Y2.5091.00
16_A40_Y2.5001.00
121_S159_R2.4551.00
44_F82_L2.4261.00
100_Q116_A2.3461.00
37_H75_Y2.3311.00
111_E142_L2.3221.00
31_G35_D2.2250.99
48_S85_H2.0540.99
18_H22_R1.9940.99
99_V148_L1.9660.99
120_D123_R1.9020.98
98_H101_G1.8930.98
19_E39_R1.8660.98
115_L119_I1.8240.98
104_R112_R1.8170.98
30_R62_I1.8000.98
20_L76_R1.7800.97
130_L165_H1.6430.96
88_N91_D1.6380.96
139_Y143_Y1.6320.96
34_L38_S1.5740.95
93_T123_R1.5740.95
28_L72_Y1.5580.94
115_L139_Y1.5520.94
41_K56_G1.5430.94
42_L99_V1.5390.94
33_L71_Y1.4510.92
139_Y142_L1.4480.92
140_M149_S1.4400.91
62_I71_Y1.4310.91
35_D150_G1.3980.90
51_E82_L1.3880.90
17_L76_R1.3460.88
100_Q115_L1.3380.88
55_L78_R1.3320.88
49_Q53_R1.3060.87
103_F140_M1.2830.86
80_V87_A1.2800.86
21_H55_L1.2710.85
41_K101_G1.2410.84
94_N98_H1.2360.84
162_N165_H1.2340.84
154_F157_W1.2330.84
117_A121_S1.2290.83
127_Q132_P1.2160.83
97_M116_A1.2080.82
56_G101_G1.1950.82
43_V164_R1.1830.81
30_R63_H1.1680.80
19_E23_L1.1650.80
98_H147_W1.1440.79
31_G34_L1.1430.79
41_K98_H1.1380.78
114_Q138_H1.1340.78
56_G98_H1.1330.78
58_F78_R1.1300.78
37_H52_Y1.1260.77
103_F148_L1.1250.77
148_L154_F1.1180.77
94_N101_G1.1070.76
18_H21_H1.1000.76
115_L136_I1.0950.75
114_Q135_R1.0880.75
13_R47_H1.0870.75
19_E152_R1.0860.75
140_M148_L1.0750.74
120_D124_R1.0660.73
140_M144_P1.0650.73
17_L21_H1.0650.73
6_F24_K1.0590.73
148_L151_Q1.0550.73
128_P131_A1.0450.72
23_L28_L1.0440.72
54_K78_R1.0430.72
114_Q134_M1.0430.72
28_L68_L1.0320.71
66_Q74_Q1.0260.71
77_Q84_S1.0220.70
45_L102_Y1.0160.70
45_L52_Y1.0000.69
49_Q91_D0.9960.68
39_R150_G0.9960.68
46_A147_W0.9940.68
100_Q165_H0.9930.68
77_Q81_V0.9840.67
144_P149_S0.9830.67
34_L60_A0.9780.67
96_L132_P0.9710.66
14_I17_L0.9550.65
67_N70_D0.9370.63
20_L79_V0.9330.63
106_H145_D0.9310.63
111_E139_Y0.9240.62
95_V121_S0.9220.62
68_L72_Y0.9100.61
66_Q71_Y0.9100.61
81_V84_S0.9090.61
29_T32_A0.9050.61
66_Q70_D0.9030.61
103_F136_I0.8990.60
108_D111_E0.8950.60
44_F79_V0.8770.58
98_H102_Y0.8770.58
45_L94_N0.8680.58
41_K147_W0.8670.57
89_P125_G0.8670.57
51_E78_R0.8630.57
158_P161_I0.8530.56
127_Q131_A0.8510.56
45_L49_Q0.8470.56
85_H88_N0.8470.56
21_H76_R0.8460.56
156_L161_I0.8390.55
5_R86_P0.8260.54
53_R83_L0.8080.52
102_Y147_W0.7890.50
42_L45_L0.7800.50
156_L164_R0.7670.48
59_V76_R0.7580.48
61_D64_Q0.7540.47
56_G147_W0.7530.47
26_H32_A0.7440.46
41_K96_L0.7390.46
51_E81_V0.7360.46
16_A43_V0.7350.46
12_I157_W0.7300.45
128_P132_P0.7290.45
44_F151_Q0.7270.45
10_T158_P0.7240.45
7_D161_I0.7160.44
101_G147_W0.7140.44
80_V89_P0.7090.43
51_E54_K0.7060.43
21_H156_L0.6960.42
10_T156_L0.6940.42
6_F161_I0.6920.42
12_I83_L0.6880.41
143_Y161_I0.6840.41
144_P148_L0.6830.41
12_I104_R0.6830.41
117_A141_A0.6830.41
30_R68_L0.6830.41
8_D94_N0.6800.41
27_G30_R0.6750.40
41_K60_A0.6750.40
135_R138_H0.6710.40
103_F143_Y0.6700.40
19_E62_I0.6690.40
32_A90_R0.6670.40
8_D130_L0.6670.40
97_M153_Y0.6650.39
131_A165_H0.6630.39
7_D162_N0.6580.39
111_E165_H0.6570.39
42_L53_R0.6570.39
25_E109_S0.6480.38
134_M138_H0.6480.38
64_Q109_S0.6450.38
17_L80_V0.6440.38
24_K73_N0.6430.37
33_L43_V0.6400.37
142_L148_L0.6390.37
114_Q139_Y0.6390.37
130_L139_Y0.6380.37
8_D134_M0.6360.37
103_F130_L0.6330.37
49_Q112_R0.6320.37
26_H77_Q0.6300.36
48_S124_R0.6290.36
109_S113_Q0.6280.36
92_H129_L0.6190.35
124_R133_L0.6160.35
84_S99_V0.6150.35
116_A120_D0.6140.35
131_A137_K0.6130.35
21_H93_T0.6080.35
137_K155_E0.6060.34
79_V83_L0.5990.34
49_Q99_V0.5960.34
91_D111_E0.5960.34
56_G60_A0.5940.33
95_V153_Y0.5930.33
45_L101_G0.5890.33
34_L63_H0.5890.33
132_P138_H0.5880.33
118_L146_A0.5870.33
127_Q165_H0.5860.33
5_R89_P0.5850.33
7_D10_T0.5830.33
15_F164_R0.5810.32
93_T97_M0.5800.32
103_F162_N0.5790.32
52_Y164_R0.5780.32
101_G112_R0.5760.32
90_R93_T0.5740.32
58_F71_Y0.5730.32
9_S130_L0.5720.32
46_A128_P0.5720.32
114_Q118_L0.5710.32
80_V119_I0.5680.31
5_R157_W0.5670.31
24_K76_R0.5670.31
82_L154_F0.5620.31
93_T105_P0.5590.31
50_P54_K0.5580.31
27_G153_Y0.5570.31
151_Q164_R0.5530.30
81_V85_H0.5520.30
114_Q141_A0.5520.30
36_Y157_W0.5490.30
67_N82_L0.5480.30
45_L57_P0.5460.30
40_Y97_M0.5440.30
30_R39_R0.5440.30
23_L72_Y0.5430.29
93_T124_R0.5290.28
22_R61_D0.5290.28
49_Q143_Y0.5270.28
12_I48_S0.5230.28
43_V158_P0.5220.28
34_L62_I0.5220.28
78_R81_V0.5200.28
136_I159_R0.5200.28
15_F66_Q0.5180.28
11_L163_L0.5160.27
56_G102_Y0.5120.27
78_R82_L0.5100.27
46_A49_Q0.5070.27
41_K102_Y0.5070.27
103_F165_H0.5070.27
70_D97_M0.5050.27
129_L153_Y0.5040.27
68_L150_G0.5030.27
4_Q154_F0.5010.26
13_R134_M0.5000.26
17_L77_Q0.5000.26
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  
4ykcA 1 0.426 60.2 0.937 Contact Map
2ld7B 1 0.4379 18.5 0.953 Contact Map
3h35A 3 0.432 14.7 0.955 Contact Map
4fqnA 2 0.4734 10.7 0.957 Contact Map
4il1A 1 0 8.3 0.96 Contact Map
1s6iA 1 0.3787 8.3 0.96 Contact Map
1dtlA 1 0.5976 7.7 0.96 Contact Map
1djxA 1 0.2308 7.1 0.961 Contact Map
4jrbA 1 0.7219 6.7 0.961 Contact Map
1j7qA 1 0.497 6.7 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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