GREMLIN Database
HNS - DNA-binding protein H-NS
UniProt: P0ACF8 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10457
Length: 137 (131)
Sequences: 382 (248)
Seq/√Len: 21.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
120_K124_D4.3511.00
98_S106_T4.1831.00
61_Y64_M3.3681.00
99_Y119_I2.7890.99
115_T123_M2.7130.99
27_E41_R2.6800.99
30_L34_E2.5960.98
131_D134_L2.5700.98
63_E67_A2.4210.97
38_N41_R2.3520.97
93_R112_Q2.3060.97
59_Q62_R2.2470.96
9_N25_T2.2310.96
128_K132_D2.0480.93
52_E56_R1.9510.91
61_Y65_L1.9160.91
9_N13_T1.8710.90
90_R112_Q1.8100.88
56_R60_Q1.7680.87
11_I15_R1.7460.86
9_N29_M1.6740.84
121_K126_Q1.6700.83
120_K123_M1.5920.80
17_Q62_R1.5380.78
30_L37_V1.4910.76
100_V106_T1.4510.74
44_E48_A1.4440.73
108_T112_Q1.4300.73
46_A50_E1.4260.72
60_Q64_M1.3980.71
4_A17_Q1.3690.69
70_I74_E1.3140.66
18_A36_V1.3100.66
94_P110_T1.3030.65
63_E66_I1.2870.64
10_N13_T1.2860.64
57_K71_D1.2760.64
99_Y107_K1.2730.63
28_E32_K1.2590.62
119_I122_A1.2560.62
123_M127_G1.2520.62
5_L11_I1.2400.61
7_I13_T1.2310.61
110_T130_L1.2300.61
65_L70_I1.2290.61
64_M68_D1.2290.61
21_C25_T1.2030.59
61_Y68_D1.1990.59
27_E30_L1.1630.56
107_K119_I1.1490.55
12_R32_K1.1480.55
117_A121_K1.1340.54
110_T114_R1.1270.54
72_P78_S1.1150.53
30_L70_I1.1110.53
119_I130_L1.1080.53
13_T25_T1.0840.51
44_E47_A1.0680.50
115_T124_D1.0670.50
2_S105_E1.0660.50
56_R64_M1.0490.49
10_N32_K1.0480.48
122_A128_K1.0460.48
59_Q63_E1.0330.47
15_R39_E0.9950.45
119_I129_S0.9900.45
31_E63_E0.9700.43
10_N16_A0.9650.43
48_A88_A0.9590.43
98_S108_T0.9510.42
77_N124_D0.9490.42
13_T19_R0.9180.40
20_E40_R0.9160.40
4_A21_C0.9140.40
110_T115_T0.9000.39
92_Q118_V0.8990.39
47_A80_A0.8950.38
10_N15_R0.8790.37
47_A50_E0.8770.37
46_A49_A0.8720.37
5_L29_M0.8610.36
119_I133_F0.8460.35
109_W113_G0.8400.35
9_N18_A0.8390.35
16_A19_R0.8370.35
42_E46_A0.8370.35
93_R130_L0.8370.35
16_A112_Q0.8340.35
55_T117_A0.8320.34
3_E56_R0.8290.34
10_N74_E0.8280.34
6_K13_T0.8260.34
100_V105_E0.8240.34
4_A36_V0.8100.33
94_P112_Q0.8070.33
105_E129_S0.8030.33
57_K93_R0.8010.33
21_C29_M0.7970.32
18_A41_R0.7910.32
5_L65_L0.7900.32
48_A55_T0.7860.32
36_V55_T0.7850.32
15_R19_R0.7770.31
126_Q129_S0.7660.31
130_L133_F0.7590.30
45_S85_G0.7570.30
118_V124_D0.7500.30
11_I19_R0.7350.29
42_E129_S0.7280.28
1_M14_L0.7270.28
51_V55_T0.7270.28
57_K131_D0.7240.28
19_R110_T0.7210.28
11_I32_K0.7180.28
92_Q112_Q0.7130.28
43_E51_V0.7020.27
11_I99_Y0.6980.27
64_M70_I0.6970.27
13_T39_E0.6950.27
118_V122_A0.6930.27
14_L36_V0.6880.26
4_A9_N0.6860.26
72_P98_S0.6830.26
40_R71_D0.6780.26
99_Y118_V0.6730.25
6_K15_R0.6580.25
5_L9_N0.6560.25
123_M130_L0.6530.24
42_E81_A0.6510.24
9_N41_R0.6460.24
72_P76_L0.6460.24
45_S53_E0.6420.24
16_A32_K0.6410.24
105_E134_L0.6410.24
22_T25_T0.6390.24
11_I29_M0.6390.24
1_M5_L0.6370.24
115_T119_I0.6350.24
29_M36_V0.6310.23
17_Q115_T0.6270.23
58_L70_I0.6250.23
3_E7_I0.6240.23
2_S33_L0.6210.23
16_A110_T0.6200.23
16_A90_R0.6200.23
35_V107_K0.6190.23
10_N94_P0.6150.23
52_E73_N0.6140.23
40_R120_K0.6120.22
34_E38_N0.6090.22
6_K11_I0.6040.22
60_Q63_E0.6040.22
8_L11_I0.6020.22
108_T119_I0.6000.22
16_A28_E0.5990.22
10_N19_R0.5980.22
42_E45_S0.5980.22
40_R44_E0.5950.22
3_E62_R0.5950.22
55_T59_Q0.5930.22
58_L87_K0.5910.22
71_D121_K0.5850.21
4_A18_A0.5840.21
42_E50_E0.5810.21
67_A76_L0.5750.21
3_E88_A0.5680.20
99_Y102_E0.5620.20
61_Y70_I0.5610.20
62_R66_I0.5600.20
109_W116_P0.5600.20
111_G116_P0.5600.20
12_R16_A0.5580.20
5_L120_K0.5570.20
58_L64_M0.5570.20
9_N28_E0.5540.20
58_L61_Y0.5460.20
117_A120_K0.5420.19
113_G116_P0.5400.19
17_Q25_T0.5380.19
20_E24_E0.5350.19
22_T121_K0.5340.19
15_R18_A0.5340.19
65_L74_E0.5330.19
26_L93_R0.5300.19
36_V81_A0.5290.19
16_A134_L0.5290.19
15_R95_A0.5260.19
26_L37_V0.5210.19
56_R61_Y0.5210.19
23_L45_S0.5140.18
28_E78_S0.5120.18
4_A13_T0.5070.18
11_I18_A0.5060.18
38_N52_E0.5040.18
59_Q67_A0.5030.18
38_N130_L0.5000.18
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  
3nr7A 2 0.5912 99.9 0.557 Contact Map
2l93A 1 0.3431 99.7 0.648 Contact Map
1hnrA 1 0.3431 99.7 0.655 Contact Map
4icgB 2 0.3212 99.5 0.706 Contact Map
1ov9A 2 0.3504 99.4 0.714 Contact Map
2l92A 1 0.2701 99.3 0.736 Contact Map
2levA 1 0.3869 99.2 0.748 Contact Map
2jr1A 1 0.5109 99.1 0.756 Contact Map
3bpjA 2 0.2993 45.9 0.93 Contact Map
4c8hA 3 0.3212 25.3 0.939 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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