GREMLIN Database
YBEY - Endoribonuclease YbeY
UniProt: P0A898 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13655
Length: 155 (133)
Sequences: 3758 (2714)
Seq/√Len: 235.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
48_T89_C3.0951.00
52_H62_D3.0791.00
48_T95_K2.5621.00
134_E137_E2.3891.00
92_V95_K2.2411.00
52_H63_K2.2281.00
53_S57_T2.1781.00
56_L62_D2.1661.00
48_T92_V2.1441.00
52_H56_L2.0901.00
45_V90_R2.0061.00
48_T91_Q1.9251.00
44_R87_V1.7271.00
28_L116_S1.7201.00
66_N96_E1.7161.00
30_A143_A1.7061.00
125_I129_E1.6531.00
46_V50_E1.6231.00
106_A146_Y1.6211.00
52_H64_P1.6111.00
93_V111_M1.5841.00
126_E129_E1.5821.00
34_Q143_A1.5371.00
54_L68_L1.5321.00
24_F43_I1.5261.00
138_T142_L1.4851.00
34_Q139_E1.4851.00
136_L139_E1.4701.00
94_E104_L1.4661.00
46_V87_V1.4651.00
50_E53_S1.4541.00
46_V51_S1.4521.00
93_V108_W1.4511.00
130_A134_E1.4501.00
54_L87_V1.4441.00
51_S64_P1.4361.00
88_I112_V1.4241.00
135_A139_E1.4091.00
66_N107_H1.3991.00
88_I93_V1.3991.00
25_Q29_N1.3391.00
89_C92_V1.2891.00
96_E107_H1.2861.00
110_H130_A1.2791.00
75_P78_M1.2441.00
24_F112_V1.2231.00
93_V104_L1.2171.00
73_E81_S1.2121.00
47_D50_E1.2091.00
90_R94_E1.2081.00
23_Q105_E1.2051.00
67_V86_L1.1961.00
127_D131_E1.1761.00
44_R50_E1.1751.00
94_E98_Q1.1691.00
103_P106_A1.1661.00
122_Y136_L1.1581.00
110_H137_E1.1441.00
109_A146_Y1.1401.00
95_K99_E1.1301.00
21_E25_Q1.1111.00
71_P74_V1.1041.00
69_S84_G1.0941.00
28_L112_V1.0841.00
31_V113_V1.0841.00
30_A34_Q1.0751.00
132_E136_L1.0711.00
23_Q27_W1.0581.00
42_T85_D1.0431.00
22_S26_T1.0321.00
61_K68_L1.0291.00
113_V140_I0.9831.00
55_N59_R0.9811.00
122_Y132_E0.9731.00
45_V108_W0.9701.00
131_E135_A0.9691.00
32_I116_S0.9661.00
43_I112_V0.9641.00
139_E143_A0.9471.00
55_N61_K0.9471.00
72_F82_L0.9461.00
27_W109_A0.9391.00
64_P89_C0.9341.00
23_Q26_T0.9291.00
110_H134_E0.9191.00
96_E102_K0.9181.00
84_G119_L0.9151.00
130_A137_E0.9011.00
30_A144_L0.8920.99
102_K107_H0.8840.99
16_S19_P0.8840.99
40_E82_L0.8730.99
31_V116_S0.8570.99
43_I86_L0.8570.99
90_R108_W0.8540.99
41_V116_S0.8520.99
104_L108_W0.8410.99
52_H61_K0.8360.99
47_D91_Q0.8300.99
59_R68_L0.8300.99
29_N33_P0.8300.99
83_L120_L0.8280.99
39_S81_S0.8270.99
116_S120_L0.8250.99
67_V115_G0.8230.99
26_T30_A0.8220.99
69_S119_L0.8160.99
44_R85_D0.8160.99
64_P92_V0.8150.99
28_L31_V0.8120.99
135_A138_T0.8020.99
28_L32_I0.8000.99
24_F108_W0.7980.99
94_E97_A0.7980.99
107_H110_H0.7960.99
69_S83_L0.7860.99
67_V111_M0.7820.99
66_N134_E0.7820.99
35_F39_S0.7820.99
48_T64_P0.7810.99
58_Y70_F0.7790.99
51_S63_K0.7720.98
97_A103_P0.7670.98
136_L140_I0.7640.98
127_D130_A0.7640.98
59_R63_K0.7600.98
71_P115_G0.7600.98
110_H138_T0.7590.98
96_E110_H0.7520.98
51_S65_T0.7490.98
51_S89_C0.7470.98
68_L71_P0.7460.98
54_L58_Y0.7450.98
66_N102_K0.7380.98
28_L43_I0.7380.98
86_L115_G0.7330.98
71_P85_D0.7280.98
106_A145_G0.7270.98
66_N110_H0.7260.98
34_Q140_I0.7130.97
138_T141_M0.7120.97
55_N62_D0.7100.97
102_K110_H0.7000.97
51_S86_L0.6900.97
117_L140_I0.6820.97
112_V116_S0.6810.97
106_A110_H0.6800.97
71_P75_P0.6790.97
51_S87_V0.6750.97
72_F119_L0.6650.96
98_Q104_L0.6580.96
51_S92_V0.6560.96
105_E146_Y0.6560.96
23_Q109_A0.6550.96
30_A33_P0.6490.96
27_W144_L0.6470.96
113_V141_M0.6450.95
106_A147_E0.6400.95
56_L63_K0.6320.95
72_F83_L0.6310.95
141_M146_Y0.6310.95
117_L133_M0.6190.94
66_N138_T0.6160.94
55_N68_L0.6080.94
53_S56_L0.6050.94
67_V93_V0.6020.94
142_L147_E0.5950.93
20_E23_Q0.5930.93
30_A140_I0.5910.93
98_Q101_G0.5840.92
15_N18_L0.5800.92
113_V117_L0.5790.92
71_P125_I0.5770.92
129_E132_E0.5750.92
102_K106_A0.5660.91
111_M124_H0.5650.91
36_Q39_S0.5610.91
72_F87_V0.5590.91
46_V89_C0.5550.90
100_Q146_Y0.5530.90
42_T82_L0.5530.90
24_F27_W0.5520.90
100_Q107_H0.5460.90
49_A53_S0.5430.89
72_F85_D0.5430.89
107_H138_T0.5410.89
59_R124_H0.5400.89
35_F38_E0.5370.89
63_K92_V0.5360.89
54_L86_L0.5350.89
52_H57_T0.5350.89
38_E81_S0.5270.88
75_P81_S0.5240.88
126_E131_E0.5210.88
110_H141_M0.5160.87
96_E111_M0.5150.87
131_E134_E0.5090.86
106_A109_A0.5050.86
139_E142_L0.5010.85
37_E81_S0.5000.85
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  
1xaxA 1 0.929 100 0.106 Contact Map
1xm5A 1 0.9806 100 0.107 Contact Map
1oz9A 1 0.8968 100 0.187 Contact Map
1tviA 1 0.9161 100 0.214 Contact Map
1hv5A 2 0.9097 86.7 0.899 Contact Map
1cgeA 1 0.9032 82 0.905 Contact Map
3ayuA 1 0.9161 81.4 0.905 Contact Map
1su3A 4 0.9161 80.7 0.906 Contact Map
3ma2D 1 0.9226 79.4 0.907 Contact Map
4xctA 1 0.8968 78 0.908 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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