GREMLIN Database
ARFB - Peptidyl-tRNA hydrolase ArfB
UniProt: P40711 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12354
Length: 140 (128)
Sequences: 1949 (1292)
Seq/√Len: 114.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
111_T114_S4.0821.00
76_E86_A3.8021.00
29_H33_T3.4291.00
125_K128_V3.2821.00
113_A117_R2.9811.00
119_L123_A2.6491.00
17_I88_L2.6251.00
42_D45_A2.6181.00
116_E120_A2.5881.00
19_A37_I2.5481.00
92_V96_K2.4551.00
77_Y86_A2.2271.00
112_R116_E2.1121.00
120_A124_Q2.1031.00
49_P52_Y2.0621.00
74_A87_A1.8101.00
20_I34_S1.7821.00
41_F46_S1.7491.00
97_E100_T1.7371.00
40_R71_V1.7251.00
14_E46_S1.6991.00
110_P114_S1.6651.00
128_V131_M1.6571.00
29_H79_S1.6311.00
82_L85_E1.6171.00
35_T79_S1.5941.00
65_S71_V1.5371.00
35_T80_Q1.4901.00
52_Y99_T1.4741.00
105_R108_T1.4551.00
43_I64_I1.4421.00
42_D69_V1.4071.00
50_E54_E1.4021.00
44_R57_L1.3791.00
121_S124_Q1.3551.00
29_H32_K1.3261.00
40_R69_V1.3211.00
23_Q75_Q1.3171.00
72_I87_A1.2750.99
116_E119_L1.2750.99
130_A133_G1.2700.99
17_I37_I1.2650.99
19_A34_S1.2550.99
43_I56_L1.2530.99
74_A86_A1.2510.99
14_E47_S1.2260.99
38_H73_K1.2040.99
20_I38_H1.1640.99
21_R34_S1.1630.99
46_S53_K1.1420.99
89_A93_A1.1410.99
15_L88_L1.1310.99
18_T38_H1.1170.98
70_I94_M1.1020.98
127_S130_A1.0970.98
43_I57_L1.0900.98
17_I84_R1.0720.98
93_A97_E1.0490.98
53_K57_L1.0420.98
41_F53_K1.0340.97
123_A126_S1.0200.97
11_P92_V1.0140.97
109_R112_R0.9990.97
85_E89_A0.9930.97
20_I36_A0.9870.97
8_V52_Y0.9780.96
74_A77_Y0.9730.96
14_E41_F0.9680.96
37_I80_Q0.9630.96
119_L126_S0.9620.96
77_Y82_L0.9430.96
56_L95_I0.9290.95
113_A116_E0.9260.95
112_R115_K0.9220.95
115_K119_L0.9180.95
22_A75_Q0.8820.94
65_S69_V0.8690.93
57_L68_G0.8670.93
88_L92_V0.8630.93
59_A98_L0.8470.92
39_L91_L0.8400.92
50_E53_K0.8290.92
57_L64_I0.8170.91
36_A73_K0.8170.91
55_R102_K0.8080.91
20_I73_K0.8060.90
114_S121_S0.8010.90
57_L61_H0.7960.90
11_P14_E0.7960.90
43_I70_I0.7950.90
54_E58_A0.7950.90
22_A35_T0.7910.90
22_A34_S0.7910.90
127_S131_M0.7880.89
111_T115_K0.7860.89
43_I46_S0.7780.89
89_A96_K0.7620.88
94_M97_E0.7600.88
65_S68_G0.7590.88
105_R111_T0.7460.87
41_F95_I0.7450.87
74_A90_R0.7260.85
19_A84_R0.7220.85
12_D88_L0.7200.85
129_K132_R0.6970.83
101_E106_R0.6950.83
18_T40_R0.6940.83
38_H81_E0.6930.82
48_L56_L0.6920.82
79_S86_A0.6890.82
19_A80_Q0.6870.82
9_A12_D0.6850.82
107_P110_P0.6840.82
101_E104_A0.6820.81
81_E85_E0.6740.81
64_I68_G0.6720.81
59_A94_M0.6630.80
29_H81_E0.6620.80
51_Y101_E0.6600.79
93_A96_K0.6570.79
51_Y99_T0.6550.79
41_F47_S0.6500.78
52_Y60_S0.6460.78
47_S53_K0.6390.77
110_P115_K0.6390.77
84_R125_K0.6310.76
62_H70_I0.6310.76
23_Q123_A0.6260.76
34_S75_Q0.6250.76
14_E53_K0.6200.75
126_S131_M0.6190.75
13_G45_A0.6160.74
63_L90_R0.6160.74
111_T119_L0.6130.74
46_S56_L0.6120.74
33_T79_S0.6120.74
76_E82_L0.6110.74
119_L127_S0.6040.73
9_A96_K0.6040.73
23_Q36_A0.6020.73
124_Q128_V0.5970.72
10_I95_I0.5970.72
86_A89_A0.5930.72
21_R33_T0.5930.72
15_L92_V0.5920.72
43_I53_K0.5920.72
114_S117_R0.5880.71
29_H35_T0.5860.71
123_A127_S0.5840.71
39_L71_V0.5840.71
11_P15_L0.5830.70
76_E79_S0.5800.70
8_V12_D0.5720.69
105_R110_P0.5680.68
97_E101_E0.5680.68
25_A38_H0.5680.68
48_L87_A0.5640.68
20_I23_Q0.5620.68
108_T114_S0.5580.67
125_K133_G0.5560.67
47_S52_Y0.5520.66
56_L98_L0.5490.66
17_I80_Q0.5480.66
9_A92_V0.5440.65
56_L99_T0.5400.65
9_A13_G0.5350.64
119_L122_K0.5330.64
29_H34_S0.5320.63
101_E109_R0.5310.63
61_H64_I0.5290.63
16_E130_A0.5280.63
121_S125_K0.5260.63
116_E126_S0.5260.63
55_R91_L0.5250.62
32_K35_T0.5240.62
103_K107_P0.5240.62
28_Q31_N0.5230.62
98_L101_E0.5220.62
16_E40_R0.5210.62
108_T111_T0.5190.62
41_F48_L0.5180.61
11_P45_A0.5130.61
13_G88_L0.5130.61
25_A30_V0.5110.60
107_P128_V0.5090.60
111_T121_S0.5060.60
116_E123_A0.5060.60
124_Q127_S0.5050.59
120_A123_A0.5020.59
109_R113_A0.5000.59
54_E57_L0.5000.59
44_R53_K0.5000.59
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  
4dh9Y 1 0.9429 100 0.116 Contact Map
3j7yp 1 0.5857 100 0.219 Contact Map
2jvaA 1 0.7714 100 0.309 Contact Map
1j26A 1 0.7429 100 0.346 Contact Map
1gqeA 1 0.8143 99.9 0.522 Contact Map
2rsmA 1 0.5857 99.9 0.539 Contact Map
2b3tB 1 0.7357 99.8 0.56 Contact Map
3d5aX 1 0.8286 99.8 0.571 Contact Map
2ihr1 1 0.8214 99.8 0.573 Contact Map
1rq0A 3 0.7286 99.8 0.573 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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