GREMLIN Database
NUSB - N utilization substance protein B
UniProt: P0A780 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10666
Length: 139 (129)
Sequences: 3301 (2357)
Seq/√Len: 207.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
54_G90_Y3.7911.00
63_D86_R3.6941.00
58_N61_Y3.1861.00
98_V103_A2.6171.00
99_P102_V2.5581.00
89_L130_A2.5121.00
70_L77_L2.4831.00
50_E95_R2.2891.00
69_Y133_V2.2041.00
13_A51_L2.1471.00
11_E113_S2.1231.00
88_A107_A2.1151.00
64_G68_P2.1021.00
81_E115_G1.8901.00
65_L93_S1.7941.00
21_Q82_K1.7541.00
49_R53_A1.7461.00
18_Y22_L1.7421.00
58_N94_K1.7411.00
15_Q114_F1.6971.00
84_V111_A1.6751.00
13_A52_L1.6681.00
62_L89_L1.6621.00
81_E119_S1.6511.00
79_Q82_K1.6441.00
78_G81_E1.6041.00
68_P133_V1.6001.00
51_L90_Y1.5311.00
105_N112_K1.5261.00
67_K74_L1.5111.00
92_L103_A1.5041.00
14_V87_I1.4821.00
65_L130_A1.4791.00
100_Y131_A1.4681.00
64_G67_K1.4511.00
47_Y98_V1.4361.00
14_V83_A1.3471.00
105_N109_E1.3201.00
66_M89_L1.3071.00
111_A123_V1.3031.00
109_E112_K1.2761.00
53_A57_T1.2531.00
84_V107_A1.2431.00
70_L73_L1.2431.00
13_A55_V1.2041.00
55_V90_Y1.2031.00
61_Y64_G1.1921.00
69_Y130_A1.1871.00
62_L94_K1.1771.00
47_Y51_L1.1761.00
16_A34_F1.1201.00
104_I131_A1.1191.00
90_Y95_R1.1151.00
108_I120_H1.1051.00
17_L87_I1.0981.00
92_L131_A1.0871.00
59_T86_R1.0551.00
11_E15_Q1.0491.00
85_L123_V1.0461.00
128_D132_P1.0311.00
28_A53_A1.0191.00
20_W56_A1.0171.00
84_V123_V1.0111.00
87_I110_L1.0001.00
111_A120_H0.9901.00
16_A48_F0.9661.00
59_T63_D0.9661.00
71_S129_K0.9530.99
129_K132_P0.9490.99
67_K75_E0.9470.99
18_Y79_Q0.9360.99
17_L83_A0.9290.99
69_Y129_K0.9260.99
11_E114_F0.9230.99
21_Q86_R0.9160.99
108_I112_K0.9130.99
70_L126_V0.9120.99
104_I108_I0.9090.99
61_Y94_K0.9090.99
44_D48_F0.9080.99
125_G128_D0.8980.99
74_L82_K0.8860.99
51_L87_I0.8810.99
50_E90_Y0.8750.99
115_G119_S0.8720.99
14_V18_Y0.8720.99
9_A13_A0.8590.99
81_E116_A0.8560.99
66_M70_L0.8530.99
71_S122_F0.8520.99
11_E110_L0.8490.99
61_Y93_S0.8430.99
116_A120_H0.8420.99
45_V49_R0.8400.99
77_L81_E0.8360.99
104_I128_D0.8350.99
18_Y80_V0.8280.99
116_A119_S0.8140.98
31_E49_R0.8060.98
14_V80_V0.8030.98
51_L55_V0.8020.98
26_D29_D0.8020.98
14_V84_V0.7840.98
32_Y36_A0.7780.98
16_A52_L0.7720.98
30_V34_F0.7710.98
102_V106_E0.7580.97
55_V59_T0.7580.97
82_K86_R0.7550.97
58_N93_S0.7490.97
108_I124_N0.7460.97
108_I123_V0.7400.97
101_K128_D0.7370.97
65_L68_P0.7370.97
72_R128_D0.7310.97
9_A48_F0.7140.96
14_V114_F0.7110.96
19_S23_S0.7050.96
74_L77_L0.6960.96
19_S33_Q0.6930.96
65_L89_L0.6830.95
45_V48_F0.6830.95
60_A64_G0.6820.95
30_V33_Q0.6790.95
29_D32_Y0.6780.95
108_I111_A0.6720.95
7_R113_S0.6650.95
61_Y65_L0.6620.94
67_K73_L0.6600.94
46_L50_E0.6600.94
65_L69_Y0.6590.94
29_D33_Q0.6560.94
88_A91_E0.6490.94
69_Y126_V0.6460.94
7_R110_L0.6450.94
20_W59_T0.6430.94
20_W30_V0.6420.93
95_R103_A0.6410.93
59_T62_L0.6410.93
5_A8_R0.6390.93
70_L74_L0.6340.93
35_L45_V0.6340.93
31_E35_L0.6330.93
63_D82_K0.6310.93
98_V102_V0.6310.93
13_A48_F0.6280.93
17_L21_Q0.6260.93
21_Q83_A0.6210.92
56_A59_T0.6190.92
17_L55_V0.6160.92
88_A103_A0.6140.92
50_E57_T0.6070.91
129_K133_V0.6040.91
22_L79_Q0.6030.91
24_Q56_A0.5940.91
55_V87_I0.5880.90
80_V83_A0.5840.90
78_G128_D0.5800.90
7_R109_E0.5800.90
31_E36_A0.5790.89
21_Q120_H0.5740.89
34_F48_F0.5740.89
48_F51_L0.5680.89
12_C15_Q0.5660.88
96_S100_Y0.5650.88
54_G57_T0.5620.88
73_L76_E0.5610.88
80_V115_G0.5610.88
51_L95_R0.5590.88
9_A47_Y0.5560.88
58_N62_L0.5560.88
62_L66_M0.5560.88
38_Q41_K0.5550.87
55_V62_L0.5500.87
109_E113_S0.5460.87
27_I56_A0.5450.86
65_L133_V0.5450.86
66_M77_L0.5430.86
62_L90_Y0.5420.86
79_Q83_A0.5390.86
65_L85_L0.5340.85
76_E115_G0.5320.85
19_S22_L0.5300.85
37_E41_K0.5240.84
117_E120_H0.5170.83
78_G119_S0.5170.83
101_K108_I0.5150.83
8_R12_C0.5150.83
40_V44_D0.5140.83
115_G120_H0.5070.82
92_L100_Y0.5060.82
47_Y87_I0.5040.82
53_A56_A0.5000.81
76_E116_A0.5000.81
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  
1q8cA 1 0.8777 100 0.197 Contact Map
3d3bA 1 1 100 0.2 Contact Map
3r2dA 1 0.9784 100 0.227 Contact Map
1tzvA 1 0.9856 100 0.234 Contact Map
1eyvA 2 0.9281 100 0.258 Contact Map
1sqgA 1 0.9353 100 0.36 Contact Map
2yxlA 1 0.9712 99.9 0.391 Contact Map
2zc2A 1 0.5036 27 0.925 Contact Map
2chpA 6 0.964 10.5 0.938 Contact Map
2i5uA 1 0.5108 10.5 0.938 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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