GREMLIN Database
RBFA - Ribosome-binding factor A
UniProt: P32731 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 117 (108)
Sequences: 2932 (1769)
Seq/√Len: 170.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
50_I63_L3.1631.00
44_Q85_K2.7791.00
47_K92_E2.6911.00
67_A70_K2.5321.00
105_T109_E2.4211.00
15_E80_R2.3841.00
10_E13_K2.1711.00
16_L48_V2.1011.00
40_S45_I2.0431.00
45_I90_E1.9701.00
8_V83_L1.9451.00
75_S79_S1.8591.00
74_R88_E1.8041.00
73_I89_I1.7831.00
103_I107_I1.6461.00
19_I73_I1.6461.00
78_G86_T1.6261.00
63_L67_A1.6011.00
104_E108_H1.5871.00
76_E79_S1.5351.00
47_K90_E1.5241.00
34_V50_I1.5101.00
70_K88_E1.5031.00
9_G39_V1.4961.00
57_K61_E1.4951.00
107_I111_H1.4271.00
18_D80_R1.4071.00
101_N105_T1.4011.00
76_E80_R1.4011.00
16_L73_I1.3761.00
11_Q14_K1.3481.00
96_S100_G1.3461.00
29_I65_G1.3421.00
37_V46_A1.3361.00
5_A9_G1.3291.00
41_G44_Q1.3191.00
102_R105_T1.3121.00
50_I66_L1.3091.00
65_G68_K1.2881.00
19_I77_I1.2861.00
52_V62_A1.2821.00
59_R93_F1.2791.00
59_R95_E1.2591.00
99_Y102_R1.2511.00
74_R86_T1.2401.00
107_I110_L1.2191.00
102_R106_L1.1841.00
60_E64_K1.1821.00
11_Q15_E1.1741.00
77_I86_T1.1421.00
18_D22_R1.1341.00
95_E99_Y1.1281.00
45_I88_E1.1241.00
105_T108_H1.0791.00
96_S99_Y1.0761.00
106_L110_L1.0681.00
59_R98_D1.0621.00
18_D21_S1.0510.99
12_M16_L1.0500.99
26_D65_G1.0220.99
30_G62_A0.9820.99
72_F76_E0.9710.99
109_E112_S0.9680.99
50_I93_F0.9630.99
15_E18_D0.9620.99
23_K72_F0.9600.99
33_T51_S0.9560.99
28_R69_A0.9330.99
15_E81_I0.9290.99
63_L93_F0.9210.99
23_K76_E0.9170.99
65_G69_A0.9100.98
12_M77_I0.9020.98
61_E64_K0.9020.98
99_Y103_I0.8760.98
8_V39_V0.8730.98
23_K80_R0.8520.98
27_P69_A0.8480.98
4_R8_V0.8410.97
28_R68_K0.8410.97
15_E19_I0.8390.97
71_G75_S0.8370.97
16_L89_I0.8180.97
26_D29_I0.8170.97
19_I76_E0.8010.97
97_I100_G0.8000.97
68_K72_F0.7990.97
77_I89_I0.7880.96
101_N104_E0.7800.96
49_Y92_E0.7600.95
108_H112_S0.7570.95
56_E59_R0.7530.95
12_M39_V0.7530.95
38_R47_K0.7480.95
97_I101_N0.7360.95
24_L29_I0.7290.94
51_S93_F0.7180.94
34_V48_V0.7140.94
16_L34_V0.7130.94
52_V63_L0.7020.93
69_A72_F0.7000.93
36_D99_Y0.6950.93
98_D101_N0.6930.93
39_V43_L0.6910.93
5_A39_V0.6810.92
46_A89_I0.6800.92
13_K34_V0.6780.92
24_L27_P0.6680.91
12_M81_I0.6660.91
73_I91_F0.6640.91
28_R65_G0.6630.91
38_R49_Y0.6600.91
78_G82_R0.6540.90
99_Y104_E0.6500.90
32_L62_A0.6470.90
6_N53_L0.6410.89
52_V55_D0.6350.89
11_Q82_R0.6290.89
13_K112_S0.6230.88
13_K37_V0.6110.87
34_V63_L0.6080.87
44_Q84_R0.6040.86
57_K60_E0.5990.86
40_S90_E0.5860.85
82_R86_T0.5850.85
5_A41_G0.5800.84
103_I106_L0.5800.84
103_I110_L0.5740.84
26_D69_A0.5730.83
26_D68_K0.5720.83
25_K62_A0.5700.83
43_L84_R0.5670.83
67_A90_E0.5660.83
55_D59_R0.5650.83
24_L28_R0.5650.83
14_K18_D0.5640.83
52_V93_F0.5610.82
75_S78_G0.5600.82
40_S104_E0.5580.82
72_F75_S0.5520.81
6_N9_G0.5460.80
81_I86_T0.5440.80
24_L65_G0.5420.80
55_D98_D0.5380.80
4_R78_G0.5360.79
38_R92_E0.5350.79
62_A65_G0.5350.79
50_I67_A0.5340.79
6_N103_I0.5320.79
19_I80_R0.5290.78
32_L52_V0.5270.78
4_R46_A0.5260.78
48_V89_I0.5250.78
36_D100_G0.5240.78
36_D95_E0.5210.77
35_T51_S0.5160.77
28_R61_E0.5120.76
12_M15_E0.5120.76
31_F62_A0.5110.76
104_E111_H0.5060.75
50_I62_A0.5030.75
26_D72_F0.5000.74
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  
1pa4A 1 0.8205 100 0.126 Contact Map
1josA 1 0.8376 100 0.127 Contact Map
2e7gA 1 0.9744 100 0.183 Contact Map
2kzfA 1 0.8632 100 0.201 Contact Map
2dyjA 1 0.7863 100 0.242 Contact Map
3lsjA 2 0.9487 16.6 0.923 Contact Map
3ccyA 2 0.906 16 0.924 Contact Map
1vz0A 3 0.6838 13.9 0.926 Contact Map
3fcsB 1 0.9915 13.5 0.926 Contact Map
3odmA 6 0.6581 11.5 0.928 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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