GREMLIN Database
ComGF - Putative Competence protein ComGF
PFAM: PF15980 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 99 (92)
Sequences: 816 (681)
Seq/√Len: 71.0
META: 0.322

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
60_R68_H4.7781.00
55_Y60_R4.2111.00
55_Y68_H3.7401.00
17_W21_L3.2381.00
53_E62_R2.8031.00
19_L23_Q2.6171.00
70_P73_Q2.3591.00
58_K68_H2.2521.00
53_E60_R2.2191.00
21_L66_K2.1971.00
61_R69_E2.0871.00
76_K92_T1.7371.00
52_Y71_L1.6280.99
20_F72_L1.5940.99
83_E86_G1.5720.99
48_K64_N1.5200.99
50_I63_V1.4860.99
92_T98_E1.4720.99
41_L87_L1.4390.99
18_E25_E1.4310.99
55_Y58_K1.4230.98
17_W91_V1.4100.98
40_K51_T1.2630.97
75_V91_V1.2050.96
80_F89_I1.2040.96
27_E61_R1.1960.96
14_Q69_E1.1780.95
34_V44_K1.1280.94
86_G90_K1.0950.93
59_I63_V1.0610.92
39_N79_S1.0600.92
42_Y45_K1.0600.92
81_E88_T1.0580.92
50_I54_K1.0480.91
43_L46_D1.0460.91
25_E93_F1.0260.90
20_F61_R1.0250.90
54_K75_V1.0190.90
15_I25_E1.0080.89
79_S90_K1.0050.89
53_E56_G0.9980.89
57_N94_E0.9890.89
35_K94_E0.9830.88
18_E71_L0.9770.88
17_W93_F0.9760.88
48_K79_S0.9740.88
58_K73_Q0.9520.87
30_E45_K0.9480.86
75_V78_V0.9360.86
18_E21_L0.9340.86
72_L87_L0.9230.85
29_R87_L0.9100.84
16_E23_Q0.9090.84
23_Q69_E0.9000.83
54_K57_N0.8970.83
16_E73_Q0.8960.83
53_E68_H0.8900.83
36_V85_N0.8880.83
72_L91_V0.8870.82
13_E93_F0.8860.82
50_I61_R0.8850.82
15_I18_E0.8840.82
20_F27_E0.8830.82
27_E47_G0.8610.81
11_Q16_E0.8560.80
73_Q93_F0.8370.79
27_E69_E0.8330.78
77_S92_T0.8280.78
23_Q31_S0.8230.77
42_Y47_G0.8200.77
22_Q89_I0.8170.77
16_E52_Y0.8010.76
15_I19_L0.7740.73
39_N54_K0.7560.71
90_K98_E0.7540.71
38_G77_S0.7540.71
74_N94_E0.7520.71
7_Q11_Q0.7510.71
58_K70_P0.7340.69
82_Q92_T0.7320.69
51_T65_G0.7180.67
41_L53_E0.7130.67
17_W20_F0.7100.66
31_S43_L0.7060.66
32_K41_L0.7040.66
77_S98_E0.7000.65
10_Q89_I0.6990.65
69_E73_Q0.6940.65
46_D56_G0.6930.65
40_K43_L0.6910.64
49_T77_S0.6900.64
23_Q27_E0.6870.64
22_Q61_R0.6800.63
24_L52_Y0.6640.61
19_L89_I0.6590.61
23_Q72_L0.6380.58
25_E30_E0.6310.57
37_E56_G0.6310.57
57_N68_H0.6300.57
37_E40_K0.6260.57
31_S49_T0.6260.57
27_E93_F0.6260.57
37_E54_K0.6030.54
51_T62_R0.6030.54
44_K85_N0.6020.54
49_T79_S0.5960.53
14_Q22_Q0.5840.52
13_E16_E0.5790.51
61_R70_P0.5770.51
26_K30_E0.5750.51
62_R68_H0.5650.49
76_K79_S0.5590.49
63_V69_E0.5580.48
85_N88_T0.5550.48
41_L78_V0.5540.48
7_Q12_D0.5520.48
21_L25_E0.5510.48
30_E71_L0.5460.47
22_Q25_E0.5440.47
12_D74_N0.5420.47
17_W70_P0.5400.46
82_Q87_L0.5310.45
25_E29_R0.5240.44
60_R63_V0.5230.44
20_F23_Q0.5200.44
78_V89_I0.5200.44
8_Y13_E0.5160.43
91_V95_N0.5140.43
86_G91_V0.5140.43
37_E48_K0.5130.43
35_K59_I0.5120.43
57_N92_T0.5100.43
72_L75_V0.5080.42
13_E95_N0.5060.42
20_F59_I0.5040.42
46_D98_E0.5030.42
76_K96_G0.5000.41
38_G51_T0.5000.41
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  
3ci0J 1 0.8788 46 0.822 Contact Map
3njeA 1 0.9293 24.8 0.846 Contact Map
2retB 2 0.9596 16.3 0.858 Contact Map
4xohC 2 0.3131 4.4 0.89 Contact Map
2xcmC 1 0.7778 3.3 0.897 Contact Map
2kmwA 1 0.7778 2.6 0.903 Contact Map
2zd7A 2 0.8788 2.5 0.903 Contact Map
4uuyA 2 0.8283 2.3 0.905 Contact Map
1ejfA 1 0.7677 2.1 0.908 Contact Map
3opbA 2 0.2626 1.9 0.91 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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