GREMLIN Database
YPHP - UPF0403 protein YphP
UniProt: P54170 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 144 (136)
Sequences: 483 (198)
Seq/√Len: 17.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
67_A140_F5.1611.00
35_E92_K4.0391.00
14_V18_R3.4751.00
92_K95_E3.2010.99
42_E112_G2.9240.98
64_A107_M2.7930.98
33_E36_N2.7180.97
71_N141_D2.4950.95
57_A132_I2.3800.94
97_F110_L2.2950.93
46_L136_L2.2740.93
117_H139_A2.2700.93
19_E65_T2.2470.92
23_A65_T2.1200.90
69_L140_F1.9680.86
40_K77_N1.8460.82
135_N139_A1.8030.80
18_R22_G1.7850.79
17_R27_E1.6930.76
91_A95_E1.6820.75
49_V97_F1.6780.75
21_T27_E1.6430.73
109_L140_F1.5710.70
16_M20_L1.5510.69
26_E33_E1.5480.69
117_H135_N1.5270.68
8_Y15_P1.5030.66
29_T86_D1.4700.65
93_M97_F1.4540.64
25_F78_T1.3970.61
85_Q90_T1.3960.60
22_G65_T1.3470.58
38_M93_M1.3140.56
90_T96_Y1.3040.55
8_Y57_A1.2940.55
63_A128_D1.2880.54
13_V79_V1.2870.54
71_N137_T1.2820.54
129_M133_M1.2550.52
35_E96_Y1.2260.50
120_P126_G1.2210.50
127_H135_N1.1690.47
37_F45_T1.1690.47
53_C104_S1.1570.46
110_L115_V1.1560.46
108_A118_F1.1550.46
35_E39_E1.1390.45
45_T79_V1.1370.45
43_G112_G1.1350.45
127_H131_E1.1350.45
17_R85_Q1.1330.45
93_M118_F1.1300.45
70_Q137_T1.1110.44
100_Q120_P1.1020.43
101_E120_P1.0800.42
20_L48_V1.0800.42
9_M59_L1.0800.42
73_K109_L1.0780.42
44_T144_C1.0620.41
116_V143_H1.0600.41
81_V90_T1.0550.40
37_F118_F1.0450.40
107_M112_G1.0420.40
63_A106_S1.0400.40
28_L79_V1.0360.39
96_Y99_G1.0280.39
48_V107_M1.0270.39
99_G120_P1.0220.39
25_F64_A1.0200.38
17_R63_A1.0170.38
66_Q133_M1.0160.38
51_S55_C1.0150.38
133_M136_L0.9860.36
30_T33_E0.9580.35
45_T77_N0.9530.35
46_L139_A0.9390.34
100_Q115_V0.9380.34
35_E87_K0.9370.34
100_Q118_F0.9040.32
60_A63_A0.9030.32
92_K99_G0.9010.32
101_E129_M0.8950.32
23_A64_A0.8870.31
66_Q70_Q0.8860.31
26_E40_K0.8810.31
109_L144_C0.8780.31
48_V57_A0.8480.29
37_F40_K0.8480.29
8_Y132_I0.8480.29
19_E85_Q0.8440.29
38_M96_Y0.8360.29
114_E143_H0.8360.29
130_E134_K0.8210.28
98_T114_E0.8190.28
7_E10_R0.8180.28
8_Y135_N0.8170.28
29_T33_E0.8160.28
83_A94_R0.8150.28
66_Q129_M0.8090.27
109_L139_A0.8050.27
59_L132_I0.8020.27
136_L143_H0.8020.27
16_M57_A0.8010.27
70_Q134_K0.7940.27
48_V132_I0.7900.26
109_L143_H0.7900.26
85_Q97_F0.7830.26
93_M112_G0.7730.26
38_M112_G0.7620.25
40_K45_T0.7530.25
123_E127_H0.7500.25
19_E58_G0.7400.24
67_A137_T0.7320.24
117_H132_I0.7270.24
51_S121_R0.7250.24
55_C121_R0.7250.24
20_L25_F0.7210.23
13_V29_T0.7190.23
54_G94_R0.7150.23
109_L135_N0.7080.23
84_G104_S0.7000.22
53_C84_G0.6990.22
47_V93_M0.6970.22
57_A117_H0.6960.22
56_A81_V0.6940.22
101_E115_V0.6900.22
46_L88_E0.6880.22
134_K138_A0.6880.22
38_M113_K0.6840.22
25_F60_A0.6810.22
93_M113_K0.6780.22
54_G82_F0.6770.22
7_E120_P0.6760.22
106_S130_E0.6760.22
31_A78_T0.6680.21
26_E77_N0.6610.21
17_R29_T0.6590.21
71_N74_T0.6560.21
111_K142_A0.6550.21
51_S104_S0.6510.21
55_C104_S0.6510.21
110_L116_V0.6500.20
92_K96_Y0.6420.20
33_E76_D0.6400.20
38_M114_E0.6390.20
63_A129_M0.6380.20
115_V118_F0.6370.20
127_H133_M0.6350.20
47_V110_L0.6350.20
33_E95_E0.6340.20
12_L127_H0.6320.20
9_M106_S0.6320.20
22_G70_Q0.6310.20
57_A139_A0.6270.20
45_T114_E0.6210.19
31_A126_G0.6200.19
47_V76_D0.6130.19
120_P123_E0.6120.19
15_P20_L0.6060.19
42_E74_T0.6050.19
79_V126_G0.6000.19
128_D131_E0.5920.18
110_L142_A0.5880.18
53_C83_A0.5880.18
83_A104_S0.5870.18
33_E38_M0.5840.18
82_F94_R0.5800.18
35_E95_E0.5790.18
23_A79_V0.5770.18
37_F113_K0.5760.18
10_R93_M0.5760.18
37_F77_N0.5730.18
37_F79_V0.5710.18
116_V135_N0.5670.17
39_E113_K0.5650.17
69_L74_T0.5560.17
48_V130_E0.5540.17
93_M120_P0.5530.17
26_E138_A0.5510.17
28_L60_A0.5480.17
110_L123_E0.5480.17
33_E90_T0.5460.17
66_Q72_D0.5450.17
25_F59_L0.5450.17
59_L63_A0.5380.16
43_G76_D0.5370.16
86_D96_Y0.5280.16
7_E15_P0.5270.16
18_R88_E0.5260.16
130_E137_T0.5200.16
51_S54_G0.5180.16
76_D79_V0.5170.16
58_G85_Q0.5170.16
43_G93_M0.5150.16
7_E101_E0.5130.16
93_M119_I0.5080.16
55_C82_F0.5060.15
51_S82_F0.5060.15
15_P57_A0.5040.15
14_V137_T0.5030.15
119_I123_E0.5020.15
73_K76_D0.5010.15
42_E76_D0.5010.15
21_T116_V0.5000.15
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  
3fhkA 4 1 100 0.009 Contact Map
4euyA 1 0.5764 94 0.923 Contact Map
2j23A 1 0.7639 92.2 0.927 Contact Map
1ep7A 1 0.7431 91.3 0.929 Contact Map
4oo4A 2 0.7083 91.2 0.929 Contact Map
4i8bA 2 0.7083 91 0.929 Contact Map
2qgvA 2 0.8056 89.2 0.932 Contact Map
2yoiA 1 0.7153 88.7 0.933 Contact Map
1xwbA 2 0.7153 88.6 0.933 Contact Map
2oe3A 2 0.7292 87.4 0.934 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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