GREMLIN Database
RBFA - Ribosome-binding factor A
UniProt: P0A7G2 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11178
Length: 133 (114)
Sequences: 3078 (1875)
Seq/√Len: 175.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
54_V69_I3.1351.00
51_K98_F2.8031.00
48_A91_I2.7301.00
73_Q76_S2.5951.00
111_N115_S2.3871.00
18_E86_A2.3131.00
13_Q16_Q2.2551.00
19_I52_V2.2201.00
44_S49_Y2.1171.00
49_Y96_T2.0131.00
11_V89_L1.9171.00
80_R94_E1.8871.00
81_S85_K1.8361.00
79_I95_L1.8251.00
22_I79_I1.7061.00
109_M113_V1.6231.00
38_V54_V1.5991.00
61_D67_A1.5991.00
84_G92_V1.5841.00
69_I73_Q1.5581.00
82_L85_K1.5461.00
110_S114_T1.4951.00
12_A43_M1.4811.00
107_M111_N1.4691.00
82_L86_A1.4371.00
117_V120_D1.4121.00
51_K96_T1.4031.00
21_L86_A1.3971.00
32_L71_A1.3911.00
76_S94_E1.3721.00
19_I79_I1.3611.00
45_R48_A1.3491.00
102_S106_G1.3471.00
108_R111_N1.3461.00
22_I83_L1.3281.00
14_E17_K1.3121.00
65_V101_N1.3091.00
65_V99_Y1.2981.00
56_F68_G1.2921.00
41_V50_A1.2891.00
105_E108_R1.2731.00
113_V117_V1.2691.00
54_V72_L1.2561.00
8_P12_A1.2531.00
71_A74_E1.2181.00
14_E18_E1.2051.00
80_R92_V1.1901.00
102_S105_E1.1761.00
5_F8_P1.1721.00
83_L92_V1.1471.00
108_R112_L1.1441.00
66_K70_K1.1401.00
112_L116_V1.1381.00
101_N105_E1.1231.00
21_L25_R1.1031.00
33_G68_G1.0881.00
115_S119_H1.0871.00
5_F9_Q1.0861.00
21_L24_Q1.0741.00
113_V116_V1.0711.00
65_V104_V1.0621.00
111_N114_T1.0370.99
54_V99_Y1.0270.99
29_D71_A1.0210.99
49_Y94_E1.0180.99
5_F45_R1.0180.99
118_K122_E1.0140.99
116_V119_H1.0020.99
15_M19_I1.0000.99
31_R75_A0.9970.99
116_V120_D0.9740.99
115_S118_K0.9730.99
69_I99_Y0.9570.99
118_K121_E0.9500.99
18_E21_L0.9300.99
71_A75_A0.9230.99
78_F82_L0.8980.99
22_I82_L0.8950.98
26_E82_L0.8880.98
5_F10_R0.8830.98
105_E109_M0.8760.98
119_H122_E0.8710.98
37_T55_T0.8680.98
67_A70_K0.8670.98
11_V43_M0.8620.98
18_E87_M0.8530.98
30_P75_A0.8500.98
26_E78_F0.8420.98
15_M83_L0.8400.98
15_M43_M0.8320.98
77_G81_S0.8280.97
83_L95_L0.7920.97
60_K65_V0.7920.97
31_R74_E0.7860.97
50_A95_L0.7820.96
26_E86_A0.7790.96
27_I30_P0.7750.96
19_I95_L0.7630.96
107_M110_S0.7620.96
55_T99_Y0.7570.96
18_E22_I0.7550.96
117_V121_E0.7450.95
103_L106_G0.7420.95
74_E78_F0.7400.95
114_T118_K0.7330.95
42_E51_K0.7280.95
27_I32_L0.7260.95
31_R71_A0.7060.94
53_Y98_F0.6990.93
75_A78_F0.6960.93
56_F69_I0.6900.93
103_L107_M0.6870.93
40_G105_E0.6850.93
16_Q38_V0.6830.93
7_R11_V0.6830.93
29_D32_L0.6740.92
79_I97_F0.6680.92
15_M87_M0.6580.91
59_D104_V0.6530.91
42_E53_Y0.6460.90
84_G88_R0.6370.90
56_F59_D0.6310.89
19_I38_V0.6290.89
104_V107_M0.6270.89
73_Q96_T0.6260.89
16_Q41_V0.6260.89
105_E110_S0.6230.89
81_S84_G0.6230.89
87_M92_V0.6160.88
38_V52_V0.6120.88
48_A90_R0.6010.87
14_E88_R0.5990.87
78_F81_S0.5950.87
8_P43_M0.5890.86
40_G106_G0.5890.86
27_I31_R0.5830.85
38_V69_I0.5800.85
9_Q57_L0.5800.85
44_S96_T0.5790.85
47_L90_R0.5720.84
44_S110_S0.5690.84
6_G9_Q0.5650.84
29_D75_A0.5640.84
88_R92_V0.5600.83
56_F99_Y0.5590.83
15_M18_E0.5560.83
52_V95_L0.5530.82
43_M47_L0.5510.82
17_K21_L0.5440.81
42_E98_F0.5390.81
55_T59_D0.5380.81
68_G71_A0.5380.81
55_T103_L0.5380.81
60_K66_K0.5350.80
21_L26_E0.5340.80
11_V88_R0.5330.80
109_M116_V0.5320.80
59_D65_V0.5320.80
34_M68_G0.5310.80
29_D74_E0.5220.79
109_M112_L0.5200.78
14_E87_M0.5170.78
9_Q109_M0.5140.78
66_K69_I0.5140.78
18_E83_L0.5130.77
9_Q12_A0.5100.77
7_R50_A0.5050.76
22_I27_I0.5030.76
80_R84_G0.5020.76
30_P37_T0.5020.76
28_K68_G0.5000.76
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  
1josA 1 0.7519 100 0.12 Contact Map
1pa4A 1 0.7218 100 0.166 Contact Map
2e7gA 1 0.8647 100 0.214 Contact Map
2kzfA 1 0.782 100 0.235 Contact Map
2dyjA 1 0.6917 100 0.302 Contact Map
3odmA 6 0.594 9.5 0.933 Contact Map
2cz4A 4 0.6992 8.1 0.936 Contact Map
3ccyA 2 0.8647 7 0.937 Contact Map
1ybxA 2 0.6165 7 0.938 Contact Map
2y6xA 1 0.6015 6.8 0.938 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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