GREMLIN Database
RBSD - D-ribose pyranase
UniProt: P36946 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 131 (131)
Sequences: 854 (542)
Seq/√Len: 47.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
25_V108_A4.4031.00
11_L112_I3.3811.00
56_A87_L2.9411.00
81_A95_Y2.8131.00
66_K94_E2.6331.00
50_A53_D2.5961.00
68_I126_Q2.5851.00
13_K38_L2.4741.00
18_L62_M2.4411.00
44_L48_L2.3271.00
48_L53_D2.1151.00
10_H38_L2.0801.00
45_K57_V2.0761.00
2_K61_E2.0651.00
66_K126_Q1.9840.99
80_N121_A1.9430.99
13_K17_D1.8480.99
14_I110_A1.7610.99
65_E126_Q1.7460.98
69_A95_Y1.7300.98
69_A73_I1.6530.98
9_S39_K1.6330.98
67_V88_F1.5980.97
44_L54_T1.5950.97
33_V39_K1.5490.97
12_A16_A1.5420.97
29_A117_F1.5410.97
25_V101_F1.5120.96
67_V93_I1.5010.96
23_K126_Q1.4780.96
22_D109_K1.4760.96
55_A125_L1.4700.95
26_I58_L1.4630.95
2_K12_A1.4470.95
23_K68_I1.4370.95
59_A64_V1.4170.94
96_L104_L1.3500.93
73_I77_N1.3390.93
103_L106_K1.2950.91
25_V105_T1.2830.91
73_I84_L1.2690.90
63_A130_L1.2510.90
74_K95_Y1.2500.90
24_I110_A1.2490.90
31_L101_F1.2290.89
25_V31_L1.1900.87
71_A75_A1.1760.87
35_D109_K1.1750.87
73_I95_Y1.1590.86
45_K56_A1.1480.85
100_E103_L1.1360.85
82_K86_N1.1360.85
14_I40_I1.1010.83
11_L42_L1.0990.83
36_G106_K1.0830.82
15_L58_L1.0710.81
21_T65_E1.0670.81
10_H13_K1.0660.81
62_M127_A1.0580.80
17_D39_K1.0320.79
51_F116_E1.0240.78
46_P130_L1.0230.78
18_L24_I1.0160.77
33_V111_V1.0150.77
9_S17_D1.0140.77
46_P117_F1.0120.77
24_I58_L0.9860.75
71_A74_K0.9840.75
5_G60_E0.9820.75
15_L61_E0.9740.74
24_I62_M0.9630.74
102_K120_Y0.9600.73
63_A128_G0.9580.73
105_T111_V0.9530.73
81_A85_E0.9500.73
23_K124_I0.9490.72
53_D56_A0.9470.72
52_Q83_F0.9410.72
23_K104_L0.9400.72
4_H60_E0.9340.71
27_A31_L0.9300.71
55_A123_C0.9250.71
68_I104_L0.9170.70
44_L57_V0.9080.69
9_S12_A0.9050.69
21_T31_L0.9030.69
68_I96_L0.8970.68
92_E106_K0.8870.67
29_A130_L0.8610.65
57_V60_E0.8590.65
52_Q80_N0.8530.64
55_A84_L0.8470.64
31_L105_T0.8400.63
24_I40_I0.8360.63
14_I24_I0.8280.62
19_G33_V0.8080.60
58_L112_I0.7980.59
40_I110_A0.7960.59
54_T114_T0.7850.58
112_I130_L0.7690.56
31_L111_V0.7620.56
77_N118_T0.7610.55
77_N83_F0.7470.54
65_E111_V0.7470.54
69_A123_C0.7470.54
85_E90_E0.7460.54
9_S43_S0.7440.54
29_A46_P0.7430.54
80_N83_F0.7370.53
10_H40_I0.7200.51
71_A95_Y0.7200.51
9_S13_K0.7120.51
45_K48_L0.7100.50
44_L114_T0.7050.50
79_E82_K0.7030.50
2_K16_A0.7010.49
13_K39_K0.7000.49
85_E93_I0.7000.49
67_V123_C0.6890.48
13_K40_I0.6770.47
17_D109_K0.6750.47
56_A88_F0.6740.47
69_A84_L0.6700.46
73_I81_A0.6700.46
65_E128_G0.6630.46
19_G128_G0.6620.46
52_Q87_L0.6580.45
72_E98_H0.6570.45
50_A56_A0.6490.44
55_A59_A0.6480.44
39_K67_V0.6410.43
19_G43_S0.6410.43
52_Q56_A0.6370.43
12_A43_S0.6360.43
92_E97_S0.6360.43
85_E95_Y0.6340.43
11_L15_L0.6330.43
39_K43_S0.6320.43
8_N43_S0.6300.42
18_L127_A0.6280.42
15_L129_V0.6270.42
78_Q82_K0.6240.42
72_E102_K0.6210.42
25_V111_V0.6190.41
56_A83_F0.6180.41
6_I15_L0.6160.41
2_K8_N0.6140.41
69_A81_A0.6110.41
31_L121_A0.6110.41
8_N49_P0.6090.40
3_K12_A0.6080.40
21_T126_Q0.6060.40
4_H61_E0.6000.40
19_G119_P0.5970.39
45_K53_D0.5970.39
47_G116_E0.5960.39
24_I112_I0.5880.38
27_A121_A0.5850.38
3_K63_A0.5820.38
57_V61_E0.5810.38
84_L123_C0.5780.37
11_L130_L0.5770.37
96_L106_K0.5730.37
117_F130_L0.5710.37
66_K92_E0.5620.36
6_I130_L0.5610.36
19_G27_A0.5590.36
86_N92_E0.5580.36
18_L112_I0.5580.36
70_A98_H0.5570.35
96_L107_D0.5520.35
61_E64_V0.5520.35
31_L116_E0.5510.35
9_S16_A0.5460.35
15_L130_L0.5420.34
16_A58_L0.5390.34
74_K79_E0.5390.34
31_L65_E0.5340.33
48_L61_E0.5330.33
70_A131_F0.5330.33
39_K80_N0.5320.33
101_F105_T0.5300.33
106_K109_K0.5240.33
30_G122_N0.5230.32
79_E112_I0.5220.32
64_V67_V0.5180.32
27_A111_V0.5160.32
23_K107_D0.5130.32
98_H102_K0.5120.32
27_A131_F0.5110.31
7_L29_A0.5090.31
59_A62_M0.5060.31
71_A97_S0.5040.31
25_V93_I0.5040.31
15_L62_M0.5020.31
32_P102_K0.5000.30
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  
1ogdA 5 1 100 0.152 Contact Map
3e7nA 6 1 100 0.162 Contact Map
3p12A 2 0.9695 100 0.162 Contact Map
2ob5A 2 0.9924 100 0.228 Contact Map
4a34A 5 0.9695 100 0.257 Contact Map
3mvkA 5 0.9618 100 0.259 Contact Map
2wcvA 7 0.9542 100 0.294 Contact Map
2wcuA 2 0.9695 100 0.316 Contact Map
3p9xA 2 0.8473 15.9 0.949 Contact Map
3qhpA 1 0.7481 14.4 0.95 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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