GREMLIN Database
COMK - Competence transcription factor
UniProt: P40396 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 192 (151)
Sequences: 266 (217)
Seq/√Len: 17.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
21_V32_S8.8551.00
78_K143_Q3.7991.00
121_T140_F3.6431.00
51_V83_V3.5731.00
113_F140_F3.3590.99
91_L106_S3.3500.99
90_F147_T2.8940.98
62_Y66_K2.7510.98
123_V140_F2.4670.96
13_E58_F2.3750.95
34_I43_V2.2870.93
20_A131_M2.1980.92
19_I109_H2.0960.90
60_S65_R2.0560.89
50_I106_S1.9600.87
61_S67_A1.9520.86
55_C65_R1.9390.86
19_I127_N1.8750.84
18_T36_E1.8640.84
97_S102_C1.8620.84
12_Y50_I1.8160.82
65_R143_Q1.8130.82
64_G68_G1.6770.76
41_F81_I1.6480.75
64_G102_C1.6480.75
107_H151_R1.6100.73
107_H148_A1.5950.73
15_N36_E1.5920.73
113_F137_Y1.5330.70
73_T83_V1.5250.69
78_K136_S1.5130.69
69_T150_L1.4760.67
62_Y128_G1.4360.64
135_I140_F1.3930.62
150_L153_K1.3780.61
102_C146_R1.3060.57
62_Y97_S1.2960.56
45_M53_R1.2790.55
85_P90_F1.2730.55
55_C143_Q1.2490.53
136_S143_Q1.2380.53
127_N135_I1.2140.51
61_S77_H1.1870.50
92_F105_I1.1860.50
74_K105_I1.1810.49
94_T143_Q1.1670.48
58_F125_F1.1670.48
43_V50_I1.1580.48
32_S47_P1.1570.48
52_D56_R1.1500.47
68_G146_R1.1470.47
54_S150_L1.1110.45
68_G107_H1.1110.45
114_K122_E1.1110.45
60_S64_G1.0690.42
113_F121_T1.0690.42
23_P121_T1.0660.42
114_K124_T1.0640.42
52_D97_S1.0560.42
140_F150_L1.0540.42
41_F117_E1.0520.41
110_V144_V1.0440.41
76_S79_P1.0390.41
53_R123_V1.0370.41
36_E50_I1.0340.40
122_E132_E1.0340.40
55_C61_S1.0270.40
12_Y15_N1.0260.40
15_N18_T1.0200.40
66_K89_I0.9900.38
68_G102_C0.9730.37
64_G146_R0.9730.37
69_T125_F0.9610.36
40_V70_Y0.9590.36
43_V125_F0.9550.36
11_S110_V0.9520.36
103_G114_K0.9320.35
31_C77_H0.9270.34
94_T102_C0.9210.34
90_F109_H0.9140.34
29_K44_N0.9120.34
57_F157_R0.9110.33
12_Y114_K0.9090.33
20_A105_I0.8990.33
62_Y110_V0.8960.33
69_T73_T0.8900.32
46_K71_E0.8840.32
58_F84_D0.8790.32
63_A67_A0.8670.31
66_K81_I0.8660.31
36_E110_V0.8420.30
64_G127_N0.8410.30
94_T139_S0.8380.30
46_K49_Q0.8300.29
72_V157_R0.8280.29
116_T122_E0.8270.29
97_S127_N0.8260.29
81_I96_S0.8200.29
40_V129_K0.8200.29
106_S146_R0.8180.29
55_C105_I0.8070.28
24_E33_K0.8040.28
43_V46_K0.7870.27
35_I95_L0.7860.27
148_A151_R0.7850.27
55_C78_K0.7810.27
82_M158_I0.7800.27
13_E54_S0.7790.27
35_I103_G0.7780.27
107_H149_W0.7760.27
102_C142_N0.7720.26
42_Y61_S0.7700.26
63_A128_G0.7670.26
19_I125_F0.7650.26
82_M142_N0.7590.26
76_S139_S0.7570.26
90_F148_A0.7560.26
55_C91_L0.7540.26
34_I74_K0.7530.26
63_A66_K0.7370.25
88_Q121_T0.7330.25
20_A43_V0.7300.24
90_F107_H0.7240.24
123_V134_P0.7200.24
73_T103_G0.7180.24
92_F110_V0.7160.24
126_S130_T0.7100.24
63_A149_W0.7040.23
25_E130_T0.7020.23
39_C115_A0.6980.23
34_I44_N0.6930.23
51_V115_A0.6930.23
13_E110_V0.6910.23
49_Q130_T0.6900.23
39_C124_T0.6870.23
58_F139_S0.6850.22
111_K114_K0.6840.22
136_S154_F0.6830.22
18_T83_V0.6800.22
103_G126_S0.6700.22
11_S38_D0.6690.22
75_I79_P0.6680.22
65_R78_K0.6630.22
82_M150_L0.6590.21
127_N133_L0.6540.21
34_I67_A0.6530.21
64_G157_R0.6520.21
110_V128_G0.6510.21
111_K123_V0.6470.21
73_T150_L0.6460.21
70_Y73_T0.6440.21
34_I49_Q0.6440.21
45_M123_V0.6420.21
30_I140_F0.6410.21
84_D87_N0.6390.21
51_V147_T0.6390.21
35_I117_E0.6370.21
84_D125_F0.6370.21
29_K42_Y0.6360.20
48_L138_N0.6340.20
111_K124_T0.6260.20
27_D83_V0.6250.20
39_C72_V0.6230.20
78_K139_S0.6230.20
93_P104_W0.6200.20
32_S69_T0.6140.20
89_I102_C0.6100.19
110_V159_D0.6090.19
19_I126_S0.6090.19
14_V89_I0.6080.19
107_H147_T0.6060.19
20_A101_Q0.6040.19
124_T127_N0.6000.19
84_D139_S0.5980.19
120_D130_T0.5980.19
21_V34_I0.5980.19
125_F136_S0.5940.19
45_M131_M0.5920.19
77_H142_N0.5890.19
71_E149_W0.5880.19
14_V154_F0.5730.18
56_R99_R0.5700.18
122_E154_F0.5690.18
59_G157_R0.5690.18
13_E50_I0.5620.18
21_V47_P0.5610.18
24_E110_V0.5600.18
89_I157_R0.5600.18
25_E112_E0.5550.17
23_P101_Q0.5550.17
23_P111_K0.5520.17
42_Y117_E0.5510.17
54_S57_F0.5510.17
58_F106_S0.5490.17
26_I44_N0.5470.17
90_F146_R0.5470.17
55_C81_I0.5450.17
52_D128_G0.5450.17
99_R118_F0.5430.17
23_P62_Y0.5430.17
50_I102_C0.5370.17
125_F143_Q0.5370.17
105_I126_S0.5350.17
20_A93_P0.5330.17
52_D112_E0.5300.17
110_V134_P0.5280.17
49_Q57_F0.5280.17
32_S63_A0.5270.16
93_P102_C0.5250.16
48_L52_D0.5240.16
21_V100_P0.5240.16
70_Y130_T0.5240.16
38_D61_S0.5240.16
10_E39_C0.5210.16
56_R68_G0.5150.16
38_D50_I0.5150.16
82_M90_F0.5140.16
52_D72_V0.5140.16
91_L103_G0.5090.16
61_S68_G0.5070.16
34_I157_R0.5070.16
36_E51_V0.5050.16
22_L35_I0.5050.16
35_I128_G0.5040.16
65_R147_T0.5020.16
76_S123_V0.5000.16
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  
3d6wA 3 0.5677 5.8 0.961 Contact Map
1c6vX 1 0.2188 4.3 0.963 Contact Map
2mblA 1 0.349 2.3 0.968 Contact Map
2r2qA 1 0.4844 2 0.969 Contact Map
2dfsA 2 0.4479 2 0.969 Contact Map
3synE 1 0.0833 1.9 0.969 Contact Map
1oaoA 2 0.4271 1.9 0.97 Contact Map
3pz7A 1 0.1719 1.9 0.97 Contact Map
2auwA 2 0.4583 1.9 0.97 Contact Map
2al3A 1 0.3177 1.8 0.97 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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