GREMLIN Database
NUSA - Probable transcription termination protein NusA
UniProt: P0CW99 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 139 (136)
Sequences: 196 (145)
Seq/√Len: 12.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
41_G69_E3.1710.97
74_A100_A3.1270.97
31_D65_V3.0080.96
44_G47_I2.8950.95
30_D35_V2.8470.95
100_A127_A2.6070.92
3_I34_V2.2880.85
40_A76_G2.2210.83
108_D112_A2.0000.76
54_V67_L1.9760.75
54_V82_L1.9560.74
46_A51_G1.8760.71
30_D33_R1.8720.71
87_V108_D1.8520.70
65_V71_A1.7960.68
120_I127_A1.7820.67
57_L65_V1.7770.67
60_T68_V1.7580.66
78_V127_A1.7320.65
22_A39_T1.6680.62
63_R71_A1.6550.61
92_V100_A1.6370.60
66_V119_N1.6160.59
78_V101_Y1.5970.58
87_V112_A1.5310.55
68_V99_V1.5250.54
72_P128_A1.5220.54
48_G51_G1.5170.54
22_A42_E1.5140.54
113_I120_I1.4520.51
69_E80_N1.4310.50
66_V122_T1.4120.49
112_A138_L1.4070.48
26_D84_P1.3950.48
24_A36_Y1.3790.47
13_I36_Y1.3770.47
85_A108_D1.3450.45
32_D63_R1.3320.45
67_L127_A1.3320.45
75_E79_A1.3290.44
82_L102_A1.3140.44
103_E135_D1.3040.43
12_L112_A1.2880.42
7_D10_R1.2810.42
89_N95_N1.2750.42
45_A49_D1.2580.41
4_R98_T1.2550.41
35_V125_E1.2390.40
23_T132_D1.2190.39
32_D59_A1.2060.38
33_R66_V1.2020.38
63_R118_T1.1980.38
72_P76_G1.1930.38
13_I133_I1.1400.35
78_V110_G1.1360.35
37_V77_F1.1340.35
54_V126_L1.1300.35
54_V73_T1.1290.35
40_A70_D1.1140.34
20_T51_G1.1130.34
63_R115_A1.0880.33
85_A112_A1.0840.33
37_V80_N1.0700.32
6_S9_A1.0670.32
123_A136_I1.0610.32
3_I130_H1.0610.32
17_E24_A1.0530.31
56_A63_R1.0520.31
14_A17_E1.0510.31
47_I101_Y1.0450.31
28_L116_D1.0320.30
90_V115_A1.0240.30
22_A76_G1.0070.29
43_M54_V0.9870.28
49_D126_L0.9780.28
46_A84_P0.9770.28
74_A127_A0.9770.28
70_D126_L0.9760.28
25_V116_D0.9660.28
45_A133_I0.9650.28
26_D129_R0.9630.27
37_V137_Q0.9620.27
19_E80_N0.9550.27
43_M47_I0.9540.27
79_A119_N0.9520.27
74_A133_I0.9440.27
25_V39_T0.9280.26
57_L119_N0.9190.26
52_S92_V0.9150.26
31_D92_V0.9130.26
105_A131_F0.9120.25
25_V138_L0.9120.25
31_D34_V0.9110.25
64_S76_G0.9000.25
38_V65_V0.8970.25
8_E53_R0.8700.24
3_I59_A0.8700.24
94_E126_L0.8610.24
67_L104_V0.8580.23
13_I24_A0.8530.23
19_E38_V0.8510.23
57_L62_G0.8460.23
13_I41_G0.8360.23
32_D105_A0.8320.22
14_A136_I0.8260.22
28_L126_L0.8260.22
34_V111_V0.8240.22
67_L121_E0.8090.22
38_V79_A0.8080.22
6_S119_N0.8060.22
87_V104_V0.7930.21
27_C133_I0.7910.21
37_V50_G0.7830.21
31_D135_D0.7800.21
104_V117_G0.7740.20
43_M69_E0.7740.20
77_F126_L0.7670.20
47_I51_G0.7590.20
27_C47_I0.7580.20
64_S122_T0.7490.20
41_G54_V0.7440.20
4_R124_K0.7420.19
55_D59_A0.7390.19
10_R71_A0.7380.19
53_R94_E0.7240.19
6_S67_L0.7220.19
68_V81_A0.7200.19
10_R120_I0.7190.19
117_G124_K0.7180.19
13_I69_E0.7150.19
9_A122_T0.7150.19
92_V127_A0.7110.18
49_D52_S0.7090.18
4_R15_V0.7050.18
4_R24_A0.7020.18
48_G84_P0.6920.18
6_S28_L0.6820.18
21_D63_R0.6820.18
125_E138_L0.6800.18
37_V41_G0.6750.17
54_V75_E0.6700.17
3_I133_I0.6670.17
36_Y57_L0.6660.17
53_R133_I0.6620.17
35_V132_D0.6570.17
14_A81_A0.6540.17
113_I117_G0.6530.17
43_M133_I0.6470.17
18_T61_L0.6430.16
25_V118_T0.6410.16
58_E124_K0.6380.16
98_T133_I0.6310.16
28_L119_N0.6300.16
110_G122_T0.6280.16
44_G48_G0.6270.16
11_Q137_Q0.6250.16
11_Q32_D0.6240.16
92_V95_N0.6220.16
127_A133_I0.6210.16
64_S73_T0.6190.16
10_R15_V0.6170.16
37_V69_E0.6160.16
37_V126_L0.6070.15
6_S79_A0.6070.15
86_A127_A0.6050.15
36_Y61_L0.6040.15
94_E116_D0.6040.15
53_R62_G0.6020.15
15_V57_L0.5990.15
16_F107_E0.5990.15
85_A123_A0.5940.15
3_I103_E0.5910.15
41_G135_D0.5900.15
90_V97_T0.5850.15
57_L131_F0.5810.15
15_V23_T0.5770.15
54_V69_E0.5770.15
56_A130_H0.5750.15
47_I60_T0.5680.14
50_G54_V0.5680.14
28_L95_N0.5670.14
84_P129_R0.5650.14
81_A138_L0.5550.14
82_L111_V0.5510.14
81_A92_V0.5510.14
41_G100_A0.5500.14
58_E109_K0.5480.14
40_A67_L0.5470.14
66_V125_E0.5440.14
32_D138_L0.5360.14
96_D106_H0.5320.14
46_A117_G0.5210.13
58_E116_D0.5200.13
70_D135_D0.5190.13
5_L16_F0.5180.13
115_A136_I0.5070.13
32_D136_I0.5070.13
6_S128_A0.5070.13
22_A33_R0.5070.13
94_E103_E0.5070.13
82_L131_F0.5060.13
21_D65_V0.5050.13
24_A94_E0.5040.13
27_C135_D0.5000.13
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  
2cxcA 1 0.9712 100 0.36 Contact Map
2asbA 1 1 99.9 0.582 Contact Map
1k0rA 1 0.964 99.9 0.591 Contact Map
1hh2P 2 1 99.9 0.61 Contact Map
4mtnA 1 0.9856 99.9 0.616 Contact Map
2qndA 2 0.7482 99.1 0.768 Contact Map
3krmA 3 0.7842 98.6 0.808 Contact Map
1j4wA 1 0.7698 98.5 0.813 Contact Map
2anrA 1 0.7914 98.4 0.822 Contact Map
2jvzA 1 0.7842 98.4 0.823 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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