GREMLIN Database
RATB - UPF0125 protein RatB
UniProt: P52119 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13192
Length: 96 (89)
Sequences: 904 (595)
Seq/√Len: 63.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
30_V60_A3.5421.00
24_L28_A3.1641.00
31_E35_R2.7411.00
30_V53_V2.6981.00
20_Q39_L2.4561.00
33_A66_V2.3421.00
34_I53_V2.1781.00
84_E88_Q2.1191.00
53_V62_L2.0101.00
31_E62_L1.9651.00
84_E87_R1.9571.00
18_Y43_R1.8821.00
6_A68_D1.7280.99
39_L74_I1.6750.99
6_A23_T1.5510.99
13_L45_D1.5340.99
30_V34_I1.5310.99
85_L93_S1.5230.99
18_Y42_L1.5220.99
28_A36_A1.4160.98
57_S85_L1.3920.97
86_R89_R1.3690.97
47_D50_K1.3640.97
66_V72_V1.3570.97
18_Y39_L1.3400.97
34_I74_I1.3360.97
25_Q36_A1.3000.96
46_I74_I1.2810.96
87_R91_E1.2590.95
5_I26_E1.2510.95
25_Q28_A1.2490.95
24_L36_A1.2470.95
32_E35_R1.2350.95
67_H70_D1.2030.94
58_R64_D1.1940.94
7_V33_A1.1870.94
88_Q92_K1.1550.93
16_K42_L1.1390.92
52_K59_P1.1210.91
40_L46_I1.0740.90
78_L86_R1.0550.89
34_I62_L1.0530.89
6_A21_R1.0430.88
64_D67_H1.0280.87
8_E19_L1.0170.87
54_G75_Y1.0110.87
22_V28_A0.9980.86
7_V22_V0.9840.85
48_L51_N0.9610.84
5_I68_D0.9430.82
30_V72_V0.9350.82
7_V12_A0.9300.82
69_G93_S0.9150.80
28_A32_E0.9110.80
29_T32_E0.9060.80
80_A91_E0.9010.79
35_R41_E0.8930.79
34_I72_V0.8880.78
29_T33_A0.8810.78
7_V72_V0.8770.78
22_V72_V0.8740.77
24_L68_D0.8670.77
52_K91_E0.8560.76
27_G33_A0.8530.76
27_G65_S0.8400.74
8_E86_R0.8250.73
20_Q42_L0.8040.71
13_L18_Y0.8000.71
22_V66_V0.7990.71
83_K86_R0.7970.71
11_Y17_Q0.7820.69
80_A85_L0.7800.69
78_L90_A0.7770.69
10_A21_R0.7690.68
46_I51_N0.7550.66
9_V49_T0.7460.65
79_I91_E0.7420.65
53_V60_A0.7240.63
5_I66_V0.7220.63
30_V64_D0.7200.63
58_R87_R0.7190.63
8_E78_L0.7010.61
34_I60_A0.6950.60
83_K90_A0.6920.60
80_A93_S0.6900.59
45_D51_N0.6850.59
85_L91_E0.6850.59
31_E53_V0.6740.58
8_E21_R0.6740.58
9_V20_Q0.6730.57
43_R55_I0.6690.57
18_Y88_Q0.6640.56
30_V61_K0.6610.56
78_L83_K0.6510.55
40_L62_L0.6510.55
37_S47_D0.6460.54
60_A92_K0.6440.54
86_R90_A0.6300.53
32_E36_A0.6260.52
14_P34_I0.6260.52
9_V35_R0.6230.52
30_V66_V0.6200.51
60_A64_D0.6080.50
31_E49_T0.6060.50
10_A84_E0.6050.50
20_Q38_G0.6050.50
26_E65_S0.6040.50
89_R92_K0.6010.49
40_L51_N0.5940.48
34_I44_T0.5900.48
41_E68_D0.5870.48
10_A19_L0.5850.47
66_V69_G0.5830.47
55_I67_H0.5700.46
81_D86_R0.5630.45
61_K80_A0.5630.45
40_L48_L0.5540.44
8_E90_A0.5510.44
78_L85_L0.5510.44
24_L72_V0.5470.43
34_I51_N0.5470.43
64_D70_D0.5460.43
13_L43_R0.5430.43
56_Y93_S0.5430.43
78_L89_R0.5350.42
47_D52_K0.5350.42
59_P63_S0.5320.41
84_E90_A0.5300.41
9_V72_V0.5240.41
83_K89_R0.5180.40
88_Q91_E0.5170.40
6_A69_G0.5120.39
80_A83_K0.5060.39
12_A90_A0.5000.38
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  
2hj1A 4 0.8333 99.8 0.499 Contact Map
1ryjA 1 0.7292 98.6 0.74 Contact Map
4hroA 1 0.7708 98.3 0.764 Contact Map
3hvzA 2 0.6667 98.2 0.767 Contact Map
2q5wD 1 0.7604 98.2 0.771 Contact Map
1vjkA 1 0.7604 98 0.781 Contact Map
2l32A 1 0.6771 98 0.782 Contact Map
1rwsA 1 0.6667 97.2 0.813 Contact Map
1f0zA 1 0.6458 97.1 0.817 Contact Map
4hrsA 2 0.6771 96.9 0.821 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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