GREMLIN Database
NRDIB - SPBc2 prophage-derived protein NrdI
UniProt: P68524 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 129 (119)
Sequences: 898 (578)
Seq/√Len: 53.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
16_A108_L4.3481.00
70_V84_G3.5591.00
11_K15_K3.2861.00
84_G95_L2.6731.00
37_E64_K2.6321.00
65_I91_F2.6181.00
14_V41_I2.5911.00
70_V95_L2.3271.00
85_D98_K2.1801.00
65_I93_T2.1641.00
50_V55_L1.9651.00
74_K80_Y1.9241.00
52_E55_L1.9010.99
19_Q112_I1.8950.99
8_G102_S1.7950.99
40_H58_I1.7920.99
50_V86_K1.7100.99
109_Q113_Q1.7020.99
51_P54_T1.6890.99
69_A111_I1.6840.99
13_F111_I1.6650.99
4_E54_T1.6150.98
40_H54_T1.5420.98
39_I115_V1.5050.97
71_S99_F1.5010.97
49_E79_N1.4830.97
42_T87_L1.4820.97
85_D95_L1.4660.97
79_N82_L1.4650.97
80_Y98_K1.4320.96
70_V81_G1.4290.96
73_N101_L1.4180.96
73_N100_E1.4150.96
46_G79_N1.4120.96
60_K63_N1.4040.96
8_G11_K1.3280.94
34_I57_F1.3260.94
82_L86_K1.3130.94
27_E31_D1.2790.93
116_Q119_D1.2190.91
96_L114_E1.2030.91
113_Q117_L1.1970.90
110_K113_Q1.1820.90
55_L90_K1.1800.90
41_I69_A1.1720.89
60_K92_H1.1710.89
43_Y76_W1.1660.89
34_I61_N1.1620.89
33_I60_K1.1390.88
58_I87_L1.1250.87
97_L111_I1.1250.87
2_T34_I1.1130.87
105_K109_Q1.1040.86
70_V85_D1.0810.85
25_A28_I1.0800.85
55_L86_K1.0720.85
12_R102_S1.0550.84
4_E43_Y1.0510.84
69_A97_L1.0320.82
10_V43_Y1.0270.82
11_K24_E0.9900.80
47_F76_W0.9870.80
9_N48_G0.9840.79
75_V100_E0.9500.77
44_T68_V0.9490.77
49_E86_K0.9430.76
75_V101_L0.9350.76
8_G15_K0.9340.76
9_N101_L0.9170.74
54_T70_V0.9110.74
51_P77_G0.9090.74
6_K45_I0.8900.72
3_Y26_I0.8770.71
97_L110_K0.8770.71
114_E118_I0.8770.71
55_L59_N0.8740.71
58_I62_K0.8650.70
4_E53_R0.8550.69
28_I81_G0.8520.69
45_I76_W0.8500.69
69_A99_F0.8470.68
68_V87_L0.8340.67
13_F99_F0.8230.66
23_V32_T0.8150.65
81_G98_K0.8120.65
17_L110_K0.8110.65
37_E114_E0.8010.64
10_V45_I0.7950.63
7_T36_Q0.7880.63
13_F45_I0.7840.62
40_H87_L0.7770.62
113_Q116_Q0.7750.61
39_I96_L0.7740.61
4_E45_I0.7680.61
89_A92_H0.7650.60
2_T90_K0.7650.60
31_D117_L0.7600.60
65_I98_K0.7570.60
13_F107_D0.7500.59
18_Q21_F0.7300.57
5_S71_S0.7220.56
63_N105_K0.7220.56
10_V71_S0.7200.56
59_N84_G0.7080.54
71_S96_L0.7010.54
19_Q96_L0.6980.53
73_N76_W0.6940.53
116_Q120_K0.6940.53
70_V88_S0.6870.52
3_Y16_A0.6850.52
25_A89_A0.6840.52
73_N99_F0.6840.52
37_E66_R0.6840.52
25_A29_T0.6800.51
24_E68_V0.6790.51
38_F93_T0.6690.50
33_I36_Q0.6640.50
64_K112_I0.6550.49
39_I67_G0.6530.49
78_D81_G0.6520.49
71_S81_G0.6480.48
14_V114_E0.6370.47
48_G101_L0.6340.47
80_Y85_D0.6320.46
15_K18_Q0.6320.46
27_E56_S0.6250.46
66_R118_I0.6250.46
42_T120_K0.6240.46
51_P83_A0.6140.45
27_E32_T0.6080.44
58_I93_T0.6080.44
21_F78_D0.6060.44
77_G83_A0.6020.43
6_K42_T0.6020.43
91_F98_K0.5970.43
81_G84_G0.5890.42
20_E29_T0.5880.42
95_L98_K0.5860.42
99_F118_I0.5830.41
67_G107_D0.5820.41
42_T49_E0.5760.41
62_K83_A0.5730.40
63_N117_L0.5720.40
70_V102_S0.5700.40
53_R90_K0.5700.40
50_V59_N0.5690.40
59_N90_K0.5650.40
84_G98_K0.5640.39
46_G51_P0.5630.39
66_R109_Q0.5610.39
63_N109_Q0.5570.39
8_G52_E0.5560.39
38_F61_N0.5540.38
59_N91_F0.5510.38
65_I87_L0.5470.38
45_I97_L0.5460.38
104_T114_E0.5430.37
9_N46_G0.5380.37
8_G120_K0.5360.37
19_Q36_Q0.5360.37
23_V28_I0.5360.37
40_H77_G0.5350.37
38_F104_T0.5340.36
18_Q106_Q0.5310.36
52_E86_K0.5300.36
39_I66_R0.5300.36
43_Y53_R0.5280.36
13_F73_N0.5260.36
117_L120_K0.5250.36
96_L119_D0.5230.35
39_I114_E0.5170.35
60_K88_S0.5120.34
19_Q116_Q0.5100.34
26_I113_Q0.5080.34
67_G114_E0.5080.34
38_F60_K0.5070.34
4_E76_W0.5040.34
22_D25_A0.5000.33
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  
3n3aC 1 0.9457 99.9 0.565 Contact Map
1rljA 1 0.9457 99.9 0.59 Contact Map
2xodA 1 0.8992 99.8 0.635 Contact Map
4n82B 1 0.9535 99.7 0.66 Contact Map
2bpoA 1 0.9922 99.3 0.727 Contact Map
1bvyF 1 0.9845 99.3 0.727 Contact Map
3hr4A 2 0.9922 99.3 0.733 Contact Map
2bmvA 1 0.9535 99.2 0.74 Contact Map
3qe2A 1 0.969 99.2 0.743 Contact Map
1yobA 1 0.9767 99.2 0.749 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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