GREMLIN Database
YBHB - UPF0098 protein YbhB
UniProt: P12994 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11238
Length: 158 (147)
Sequences: 2558 (1767)
Seq/√Len: 145.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
124_D146_H4.9761.00
39_V46_F3.9341.00
25_Y107_A3.5081.00
98_F104_D2.9561.00
50_C118_F2.8271.00
17_R78_Q2.5701.00
48_V120_V2.5671.00
13_K156_M2.4851.00
68_N129_D2.4811.00
6_N33_H2.3311.00
7_D78_Q2.2771.00
7_D33_H2.1271.00
9_R12_D2.0061.00
117_I154_T1.9731.00
46_F71_A1.9031.00
119_T152_S1.8451.00
8_L155_A1.8431.00
47_V139_V1.7791.00
14_L106_A1.7381.00
17_R28_D1.7341.00
39_V74_R1.7321.00
123_L143_V1.6831.00
67_V94_T1.6671.00
94_T139_V1.6271.00
29_N105_G1.6271.00
33_H75_V1.5751.00
35_A75_V1.4541.00
31_S76_L1.4371.00
3_L151_A1.4221.00
119_T150_S1.4221.00
47_V143_V1.4071.00
66_V91_V1.4051.00
3_L120_V1.3981.00
36_W76_L1.3961.00
54_D115_R1.3251.00
45_S125_I1.3231.00
88_P91_V1.3221.00
69_L73_T1.3201.00
79_G82_S1.3061.00
67_V139_V1.2751.00
139_V143_V1.2641.00
68_N127_R1.2561.00
14_L155_A1.2471.00
8_L15_P1.2161.00
45_S68_N1.2101.00
142_N145_F1.1981.00
62_W136_G1.1921.00
143_V147_S1.1881.00
52_D63_H1.1861.00
65_V94_T1.1541.00
81_G93_Q1.1531.00
5_S153_I1.1410.99
121_H143_V1.1370.99
135_S138_M1.1350.99
93_Q102_G1.1260.99
40_P122_A1.1110.99
2_K37_D1.1090.99
45_S127_R1.0990.99
125_I146_H1.0940.99
18_H78_Q1.0880.99
61_W98_F1.0860.99
39_V43_T1.0810.99
17_R30_I1.0790.99
65_V139_V1.0730.99
77_P80_F1.0690.99
6_N35_A1.0660.99
47_V123_L1.0630.99
117_I152_S1.0580.99
103_Y106_A1.0570.99
68_N92_L1.0550.99
87_M91_V1.0540.99
42_G148_L1.0430.99
46_F120_V1.0390.99
3_L34_L1.0370.99
67_V134_A1.0300.99
128_I143_V1.0200.99
10_D154_T1.0080.99
121_H147_S1.0060.99
40_P43_T0.9900.99
46_F74_R0.9780.98
63_H108_P0.9760.98
18_H33_H0.9690.98
120_V151_A0.9670.98
43_T148_L0.9660.98
63_H114_H0.9410.98
134_A139_V0.9360.98
51_Y62_W0.9340.98
51_Y119_T0.9250.98
68_N128_I0.9190.98
51_Y59_S0.9180.98
67_V92_L0.9140.98
108_P114_H0.9040.97
5_S34_L0.9000.97
115_R154_T0.9000.97
43_T46_F0.9000.97
52_D114_H0.8970.97
30_I78_Q0.8960.97
50_C103_Y0.8940.97
19_V157_F0.8790.97
36_W46_F0.8750.97
19_V26_D0.8720.97
59_S137_A0.8690.97
32_P118_F0.8640.97
13_K16_H0.8640.97
95_R133_G0.8630.96
13_K113_T0.8620.96
3_L153_I0.8570.96
31_S64_W0.8530.96
39_V42_G0.8440.96
64_W93_Q0.8390.96
42_G149_A0.8330.96
31_S80_F0.8230.95
134_A138_M0.8130.95
101_T133_G0.8080.95
43_T122_A0.8080.95
26_D157_F0.8040.95
8_L12_D0.8010.95
7_D18_H0.8010.95
58_G140_G0.7830.94
14_L18_H0.7740.94
16_H26_D0.7660.93
16_H19_V0.7610.93
11_G154_T0.7520.93
37_D74_R0.7480.92
52_D108_P0.7470.92
4_I35_A0.7460.92
53_P117_I0.7440.92
96_T104_D0.7390.92
138_M142_N0.7380.92
124_D147_S0.7370.92
66_V93_Q0.7360.92
4_I37_D0.7330.92
68_N125_I0.7300.92
61_W104_D0.7220.91
29_N98_F0.7120.91
29_N104_D0.7040.90
64_W81_G0.7020.90
110_K113_T0.7010.90
27_G107_A0.6970.90
30_I79_G0.6940.89
40_P46_F0.6930.89
147_S150_S0.6920.89
55_A61_W0.6910.89
19_V25_Y0.6800.88
55_A58_G0.6790.88
12_D156_M0.6790.88
138_M141_F0.6710.88
49_T143_V0.6710.88
130_V139_V0.6700.88
94_T136_G0.6690.88
100_K104_D0.6600.87
34_L153_I0.6580.87
8_L153_I0.6560.87
34_L118_F0.6560.87
95_R99_G0.6560.87
108_P111_G0.6550.87
65_V136_G0.6480.86
131_D134_A0.6460.86
34_L48_V0.6370.85
8_L14_L0.6340.85
38_D46_F0.6290.84
136_G140_G0.6250.84
130_V134_A0.6210.83
144_H150_S0.6200.83
40_P149_A0.6190.83
93_Q101_T0.6170.83
96_T100_K0.6170.83
13_K19_V0.6150.83
18_H30_I0.6130.83
113_T156_M0.6120.83
63_H105_G0.6090.82
51_Y117_I0.6050.82
66_V87_M0.6050.82
5_S8_L0.6020.82
82_S93_Q0.5990.81
12_D155_A0.5950.81
143_V146_H0.5920.81
48_V69_L0.5900.80
66_V81_G0.5900.80
55_A60_G0.5900.80
55_A109_P0.5850.80
51_Y136_G0.5810.79
61_W141_F0.5800.79
63_H109_P0.5790.79
145_F148_L0.5780.79
36_W149_A0.5750.79
55_A59_S0.5740.78
16_H28_D0.5690.78
51_Y140_G0.5670.78
35_A74_R0.5640.77
53_P109_P0.5600.77
47_V121_H0.5590.77
47_V94_T0.5590.77
29_N100_K0.5550.76
15_P18_H0.5540.76
76_L80_F0.5520.76
11_G156_M0.5490.75
49_T121_H0.5490.75
119_T140_G0.5480.75
36_W67_V0.5430.75
54_D63_H0.5420.74
109_P114_H0.5420.74
66_V69_L0.5410.74
51_Y60_G0.5410.74
2_K38_D0.5360.74
61_W138_M0.5330.73
14_L118_F0.5290.73
52_D55_A0.5250.72
55_A114_H0.5240.72
95_R101_T0.5220.72
15_P103_Y0.5200.71
70_P74_R0.5200.71
123_L145_F0.5180.71
62_W97_D0.5130.70
25_Y104_D0.5080.70
55_A97_D0.5070.69
54_D114_H0.5060.69
36_W120_V0.5040.69
31_S79_G0.5000.68
130_V133_G0.5000.68
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  
1fjjA 2 1 100 0.125 Contact Map
1fuxA 2 1 100 0.146 Contact Map
4begA 4 0.9937 100 0.159 Contact Map
3n08A 2 0.9114 100 0.169 Contact Map
2evvA 2 0.943 100 0.222 Contact Map
1wpxB 1 0.8671 99.9 0.51 Contact Map
2jyzA 1 0.8165 99.9 0.545 Contact Map
3axyA 1 0.7911 99.9 0.558 Contact Map
1vw41 1 0.8924 99.9 0.561 Contact Map
2gzqA 1 0.8354 99.9 0.565 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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