GREMLIN Database
YVAV - Putative HTH-type transcriptional regulator YvaV
UniProt: C0SPB8 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 177 (154)
Sequences: 673 (467)
Seq/√Len: 37.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
32_T58_M4.1581.00
48_T88_L3.8991.00
84_V88_L3.8541.00
34_G37_L3.2651.00
136_E139_E2.5601.00
139_E142_N2.4621.00
45_K81_E2.4481.00
49_L60_K2.3471.00
36_V52_L2.2850.99
45_K51_E2.2350.99
59_S65_Q2.1240.99
81_E88_L2.1150.99
58_M87_D2.0980.99
20_I37_L2.0960.99
52_L63_M1.9940.99
49_L63_M1.8840.98
20_I34_G1.8770.98
138_E142_N1.8730.98
111_V160_R1.8590.98
46_P87_D1.8560.98
99_F155_Y1.8490.98
72_D141_V1.8480.98
12_A117_M1.8300.98
39_I47_M1.7740.97
156_N160_R1.7480.97
30_P111_V1.7310.97
82_K99_F1.5800.94
116_M119_K1.5410.93
31_S35_R1.5180.93
59_S82_K1.5070.93
127_S135_P1.4500.91
29_M86_K1.4420.91
135_P139_E1.4220.90
79_V90_E1.4010.90
126_L138_E1.3920.89
110_V113_K1.3550.88
95_Y99_F1.3530.88
21_A31_S1.3440.87
79_V88_L1.3180.86
155_Y159_S1.2990.86
62_R65_Q1.2960.85
68_R77_E1.2950.85
50_T86_K1.2920.85
56_T70_M1.2710.84
94_D108_S1.2680.84
97_Q101_T1.2610.84
12_A83_G1.2410.83
11_Q124_E1.2300.82
102_L148_L1.1810.80
139_E143_E1.1800.80
49_L64_S1.1640.79
23_N96_Y1.1590.78
58_M61_T1.1580.78
15_H120_K1.1540.78
74_N112_S1.1510.78
45_K48_T1.1500.78
129_L135_P1.1380.77
32_T99_F1.1300.76
61_T65_Q1.1180.76
13_E55_A1.1180.76
103_F148_L1.1170.76
89_Y151_W1.1150.76
10_E135_P1.1090.75
75_I98_T1.0900.74
50_T53_S1.0790.73
8_I130_D1.0670.72
35_R84_V1.0580.72
19_R22_E1.0520.71
13_E140_K1.0510.71
105_A108_S1.0280.69
135_P142_N1.0250.69
86_K147_E1.0180.69
30_P35_R1.0160.68
34_G38_G1.0100.68
8_I76_A1.0090.68
21_A35_R1.0090.68
49_L114_N1.0080.68
119_K149_K1.0010.67
40_I81_E0.9930.67
68_R78_K0.9920.67
8_I134_T0.9740.65
58_M99_F0.9620.64
29_M33_V0.9580.64
115_K119_K0.9560.64
49_L96_Y0.9550.64
71_L89_Y0.9540.63
25_H141_V0.9410.62
40_I43_N0.9370.62
30_P56_T0.9370.62
9_I45_K0.9340.62
102_L106_T0.9300.61
38_G103_F0.9300.61
54_E156_N0.9150.60
74_N155_Y0.9100.60
126_L156_N0.9100.60
35_R87_D0.9070.60
54_E139_E0.9040.59
36_V66_V0.8990.59
76_A138_E0.8960.59
20_I27_F0.8920.58
139_E153_D0.8880.58
23_N49_L0.8870.58
39_I56_T0.8840.58
123_R130_D0.8810.57
134_T137_A0.8790.57
10_E45_K0.8690.56
56_T66_V0.8690.56
32_T42_M0.8560.55
56_T81_E0.8510.55
126_L149_K0.8510.55
58_M63_M0.8500.55
40_I76_A0.8430.54
50_T155_Y0.8410.54
122_N136_E0.8370.53
119_K123_R0.8360.53
16_F42_M0.8330.53
100_I103_F0.8330.53
146_K160_R0.8190.52
9_I43_N0.8170.52
8_I139_E0.8040.51
14_D136_E0.8030.50
31_S109_K0.7960.50
20_I24_M0.7890.49
35_R112_S0.7870.49
99_F148_L0.7870.49
125_L141_V0.7820.49
89_Y93_Q0.7820.49
103_F158_L0.7800.48
47_M126_L0.7740.48
57_G78_K0.7700.47
29_M41_Y0.7660.47
16_F106_T0.7650.47
141_V156_N0.7590.47
79_V87_D0.7580.46
20_I38_G0.7580.46
48_T155_Y0.7530.46
53_S67_V0.7510.46
71_L87_D0.7500.46
23_N114_N0.7470.45
16_F91_V0.7460.45
17_I45_K0.7450.45
63_M114_N0.7420.45
46_P88_L0.7340.44
115_K123_R0.7300.44
22_E40_I0.7250.44
16_F25_H0.7230.43
53_S76_A0.7230.43
117_M120_K0.7180.43
37_L66_V0.7000.41
8_I44_R0.7000.41
67_V96_Y0.6990.41
20_I33_V0.6990.41
124_E127_S0.6940.41
62_R114_N0.6910.41
19_R114_N0.6880.40
23_N95_Y0.6840.40
96_Y110_V0.6770.39
45_K143_E0.6770.39
21_A27_F0.6720.39
13_E42_M0.6710.39
143_E153_D0.6690.39
19_R68_R0.6640.38
62_R70_M0.6600.38
116_M139_E0.6540.37
13_E144_L0.6530.37
18_E57_G0.6510.37
9_I149_K0.6460.37
130_D136_E0.6400.36
41_Y95_Y0.6400.36
13_E43_N0.6340.36
47_M51_E0.6330.36
42_M144_L0.6330.36
60_K113_K0.6310.36
58_M66_V0.6300.35
26_A63_M0.6290.35
111_V122_N0.6230.35
92_E157_W0.6200.35
89_Y98_T0.6180.34
65_Q88_L0.6180.34
129_L138_E0.6170.34
37_L75_I0.6140.34
154_Y157_W0.6120.34
31_S96_Y0.6110.34
51_E55_A0.6050.33
122_N164_F0.6040.33
92_E101_T0.6030.33
38_G91_V0.6030.33
122_N153_D0.6010.33
72_D81_E0.5960.33
154_Y158_L0.5940.33
39_I52_L0.5940.33
81_E122_N0.5910.32
30_P73_A0.5900.32
108_S123_R0.5900.32
160_R164_F0.5870.32
58_M103_F0.5860.32
10_E55_A0.5800.32
63_M107_W0.5770.31
136_E142_N0.5750.31
16_F29_M0.5730.31
130_D137_A0.5700.31
10_E88_L0.5670.31
156_N163_E0.5630.30
129_L143_E0.5590.30
39_I113_K0.5550.30
14_D18_E0.5530.29
75_I89_Y0.5490.29
137_A142_N0.5480.29
55_A118_H0.5440.29
29_M57_G0.5410.29
142_N149_K0.5390.28
30_P65_Q0.5380.28
62_R106_T0.5360.28
32_T62_R0.5360.28
14_D57_G0.5320.28
11_Q116_M0.5280.28
23_N110_V0.5270.28
116_M127_S0.5200.27
71_L76_A0.5190.27
33_V69_E0.5160.27
21_A109_K0.5160.27
30_P33_V0.5150.27
112_S128_V0.5140.27
97_Q104_S0.5120.27
52_L76_A0.5120.27
48_T58_M0.5080.26
50_T62_R0.5070.26
116_M136_E0.5060.26
25_H110_V0.5050.26
26_A148_L0.5020.26
34_G103_F0.5000.26
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  
4nb5A 4 0.8362 99.6 0.702 Contact Map
1ku9A 2 0.8531 99.3 0.749 Contact Map
3qphA 2 0.8531 98.9 0.785 Contact Map
3deuA 2 0.7458 98.8 0.79 Contact Map
3kp7A 2 0.7571 98.8 0.791 Contact Map
4l9nA 2 0.7797 98.8 0.793 Contact Map
3g3zA 2 0.8023 98.8 0.794 Contact Map
3fm5A 4 0.7853 98.8 0.794 Contact Map
4yifA 2 0.774 98.8 0.796 Contact Map
3oopA 2 0.7514 98.7 0.796 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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