GREMLIN Database
YYAB - Uncharacterized protein YyaB
UniProt: P37523 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 146 (131)
Sequences: 276 (239)
Seq/√Len: 20.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
136_N139_I4.2291.00
55_W75_L4.0701.00
105_H125_S3.4921.00
60_L102_G3.3841.00
82_Y136_N3.0380.99
2_V61_K2.9610.99
80_I111_Y2.8740.99
64_L82_Y2.7950.99
124_K127_E2.7060.99
5_T121_S2.6170.98
3_Y131_K2.3950.97
82_Y135_K2.3170.96
131_K134_E2.1270.94
97_G106_A2.0930.93
60_L73_A2.0220.92
106_A119_V1.8600.88
55_W59_D1.8430.88
108_T117_H1.8400.88
89_V108_T1.8220.87
91_K119_V1.7110.84
101_I106_A1.6440.81
103_S106_A1.6370.81
20_L109_I1.6300.81
62_Y122_P1.6170.80
88_V132_L1.5770.78
90_Q125_S1.5550.77
5_T60_L1.5500.77
71_I108_T1.5150.75
10_P103_S1.3630.67
112_Q116_G1.3580.67
95_W119_V1.3360.66
2_V63_V1.2660.61
82_Y139_I1.2620.61
87_K132_L1.2440.60
68_H86_D1.2340.59
71_I120_I1.2220.59
6_K105_H1.2210.59
5_T62_Y1.1890.56
68_H79_Q1.1760.56
91_K108_T1.1740.55
51_G55_W1.1660.55
60_L107_I1.1650.55
88_V107_I1.1550.54
16_V57_F1.1380.53
18_L52_L1.1200.52
96_S119_V1.1170.52
87_K93_K1.1110.51
91_K96_S1.0970.50
96_S106_A1.0720.49
6_K103_S1.0720.49
91_K103_S1.0540.48
71_I106_A1.0410.47
87_K110_Y1.0230.46
97_G119_V1.0220.45
53_I84_N1.0150.45
103_S125_S1.0140.45
95_W103_S1.0090.45
57_F102_G1.0020.44
15_I53_I0.9930.44
14_M18_L0.9930.44
82_Y100_L0.9750.42
42_I129_I0.9700.42
78_H106_A0.9560.41
7_R16_V0.9540.41
94_L97_G0.9510.41
88_V116_G0.9470.41
81_P84_N0.9410.40
138_N141_I0.9410.40
88_V124_K0.9280.39
3_Y6_K0.9270.39
41_I70_I0.9240.39
69_L97_G0.9220.39
78_H107_I0.9180.39
60_L100_L0.9040.38
5_T122_P0.9030.38
65_K136_N0.8980.37
44_I48_L0.8950.37
91_K97_G0.8890.37
91_K95_W0.8840.37
91_K106_A0.8490.34
73_A80_I0.8380.34
111_Y118_A0.8370.34
110_Y117_H0.8330.34
2_V120_I0.8290.33
7_R125_S0.8270.33
135_K139_I0.8250.33
71_I103_S0.8240.33
39_G49_L0.8180.33
65_K109_I0.8140.32
71_I78_H0.8110.32
100_L118_A0.8030.32
7_R57_F0.8020.32
93_K96_S0.8000.32
53_I57_F0.7980.32
93_K119_V0.7940.31
4_Q11_V0.7930.31
56_S73_A0.7930.31
27_I56_S0.7930.31
12_T57_F0.7900.31
122_P132_L0.7850.31
87_K117_H0.7830.31
93_K106_A0.7820.31
104_R119_V0.7590.29
56_S134_E0.7580.29
94_L107_I0.7510.29
4_Q57_F0.7410.28
57_F75_L0.7390.28
3_Y135_K0.7380.28
3_Y18_L0.7370.28
130_H134_E0.7310.28
93_K108_T0.7250.27
95_W106_A0.7220.27
42_I72_K0.7210.27
76_I103_S0.7200.27
76_I140_I0.7150.27
16_V52_L0.7120.27
65_K82_Y0.7110.27
18_L58_I0.7110.27
5_T128_F0.7050.26
60_L122_P0.7050.26
51_G75_L0.7040.26
15_I21_L0.6970.26
69_L81_P0.6930.26
58_I88_V0.6920.26
8_D55_W0.6830.25
94_L120_I0.6800.25
20_L43_F0.6790.25
8_D102_G0.6730.25
123_Q132_L0.6720.25
14_M118_A0.6670.25
70_I84_N0.6630.24
8_D103_S0.6620.24
7_R71_I0.6620.24
14_M27_I0.6580.24
7_R96_S0.6520.24
70_I74_G0.6510.24
19_I24_A0.6500.24
96_S120_I0.6450.23
23_Q51_G0.6420.23
5_T8_D0.6390.23
63_V112_Q0.6350.23
97_G101_I0.6330.23
42_I51_G0.6300.23
131_K138_N0.6240.22
41_I118_A0.6200.22
101_I119_V0.6160.22
61_K138_N0.6120.22
2_V7_R0.6120.22
68_H107_I0.6070.22
13_L127_E0.6050.22
89_V110_Y0.6050.22
116_G132_L0.6040.22
5_T96_S0.6030.22
7_R55_W0.6020.21
107_I119_V0.6020.21
133_K139_I0.5980.21
13_L33_G0.5980.21
15_I23_Q0.5980.21
2_V57_F0.5920.21
25_D28_V0.5890.21
26_A109_I0.5890.21
101_I121_S0.5890.21
41_I107_I0.5880.21
86_D136_N0.5880.21
57_F60_L0.5880.21
86_D116_G0.5850.21
10_P97_G0.5830.21
71_I119_V0.5750.20
73_A120_I0.5730.20
120_I123_Q0.5720.20
66_E88_V0.5680.20
33_G70_I0.5640.20
70_I77_K0.5630.20
88_V123_Q0.5610.20
61_K104_R0.5610.20
18_L25_D0.5600.20
78_H119_V0.5580.20
121_S128_F0.5570.20
13_L66_E0.5480.19
42_I88_V0.5430.19
55_W77_K0.5430.19
42_I45_L0.5430.19
47_T67_H0.5420.19
58_I67_H0.5360.19
87_K120_I0.5330.19
92_K105_H0.5300.18
56_S59_D0.5300.18
78_H92_K0.5300.18
53_I73_A0.5170.18
58_I95_W0.5130.18
38_S66_E0.5080.18
24_A45_L0.5050.17
62_Y121_S0.5040.17
3_Y22_I0.5030.17
96_S126_E0.5010.17
94_L101_I0.5000.17
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  
1vw44 1 0.411 72.8 0.906 Contact Map
5aj3c 1 0.4452 31.5 0.927 Contact Map
1s3aA 1 0.274 26.4 0.93 Contact Map
3j7yb 1 0.4315 16.2 0.937 Contact Map
4e6zA 1 0.2877 14.1 0.938 Contact Map
4tyzA 1 0.726 12.6 0.94 Contact Map
4chmA 1 0.7877 12.6 0.94 Contact Map
2k1aA 1 0.2877 9.3 0.943 Contact Map
2j04B 1 0.3082 6.5 0.947 Contact Map
2kjgA 1 0.5205 5.5 0.949 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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