COMK - BACSU - GREMLIN Contacts

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COMK - Competence transcription factor

UniProt:	P40396	Sequences: MSQKTDAPLESYEVNGATIAVLPEEIDGKICSKIIEKDCVFYVNMKPLQIVDRSCRFFGSSYAGRKAGTYEVTKISHKPPIMVDPSNQIFLFPTLSSTRPQCGWISHVHVKEFKATEFDDTEVTFSNGKTMELPISYNSFENQVYRTAWLRTKFQDRIDHRVPKRQEFMLYPKEERTKMIYDFILRELGERY	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

BACSU - COMK

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_V	32_S	8.855	1.00
78_K	143_Q	3.799	1.00
121_T	140_F	3.643	1.00
51_V	83_V	3.573	1.00
113_F	140_F	3.359	0.99
91_L	106_S	3.350	0.99
90_F	147_T	2.894	0.98
62_Y	66_K	2.751	0.98
123_V	140_F	2.467	0.96
13_E	58_F	2.375	0.95
34_I	43_V	2.287	0.93
20_A	131_M	2.198	0.92
19_I	109_H	2.096	0.90
60_S	65_R	2.056	0.89
50_I	106_S	1.960	0.87
61_S	67_A	1.952	0.86
55_C	65_R	1.939	0.86
19_I	127_N	1.875	0.84
18_T	36_E	1.864	0.84
97_S	102_C	1.862	0.84
12_Y	50_I	1.816	0.82
65_R	143_Q	1.813	0.82
64_G	68_G	1.677	0.76
41_F	81_I	1.648	0.75
64_G	102_C	1.648	0.75
107_H	151_R	1.610	0.73
107_H	148_A	1.595	0.73
15_N	36_E	1.592	0.73
113_F	137_Y	1.533	0.70
73_T	83_V	1.525	0.69
78_K	136_S	1.513	0.69
69_T	150_L	1.476	0.67
62_Y	128_G	1.436	0.64
135_I	140_F	1.393	0.62
150_L	153_K	1.378	0.61
102_C	146_R	1.306	0.57
62_Y	97_S	1.296	0.56
45_M	53_R	1.279	0.55
85_P	90_F	1.273	0.55
55_C	143_Q	1.249	0.53
136_S	143_Q	1.238	0.53
127_N	135_I	1.214	0.51
61_S	77_H	1.187	0.50
92_F	105_I	1.186	0.50
74_K	105_I	1.181	0.49
94_T	143_Q	1.167	0.48
58_F	125_F	1.167	0.48
43_V	50_I	1.158	0.48
32_S	47_P	1.157	0.48
52_D	56_R	1.150	0.47
68_G	146_R	1.147	0.47
54_S	150_L	1.111	0.45
68_G	107_H	1.111	0.45
114_K	122_E	1.111	0.45
60_S	64_G	1.069	0.42
113_F	121_T	1.069	0.42
23_P	121_T	1.066	0.42
114_K	124_T	1.064	0.42
52_D	97_S	1.056	0.42
140_F	150_L	1.054	0.42
41_F	117_E	1.052	0.41
110_V	144_V	1.044	0.41
76_S	79_P	1.039	0.41
53_R	123_V	1.037	0.41
36_E	50_I	1.034	0.40
122_E	132_E	1.034	0.40
55_C	61_S	1.027	0.40
12_Y	15_N	1.026	0.40
15_N	18_T	1.020	0.40
66_K	89_I	0.990	0.38
68_G	102_C	0.973	0.37
64_G	146_R	0.973	0.37
69_T	125_F	0.961	0.36
40_V	70_Y	0.959	0.36
43_V	125_F	0.955	0.36
11_S	110_V	0.952	0.36
103_G	114_K	0.932	0.35
31_C	77_H	0.927	0.34
94_T	102_C	0.921	0.34
90_F	109_H	0.914	0.34
29_K	44_N	0.912	0.34
57_F	157_R	0.911	0.33
12_Y	114_K	0.909	0.33
20_A	105_I	0.899	0.33
62_Y	110_V	0.896	0.33
69_T	73_T	0.890	0.32
46_K	71_E	0.884	0.32
58_F	84_D	0.879	0.32
63_A	67_A	0.867	0.31
66_K	81_I	0.866	0.31
36_E	110_V	0.842	0.30
64_G	127_N	0.841	0.30
94_T	139_S	0.838	0.30
46_K	49_Q	0.830	0.29
72_V	157_R	0.828	0.29
116_T	122_E	0.827	0.29
97_S	127_N	0.826	0.29
81_I	96_S	0.820	0.29
40_V	129_K	0.820	0.29
106_S	146_R	0.818	0.29
55_C	105_I	0.807	0.28
24_E	33_K	0.804	0.28
43_V	46_K	0.787	0.27
35_I	95_L	0.786	0.27
148_A	151_R	0.785	0.27
55_C	78_K	0.781	0.27
82_M	158_I	0.780	0.27
13_E	54_S	0.779	0.27
35_I	103_G	0.778	0.27
107_H	149_W	0.776	0.27
102_C	142_N	0.772	0.26
42_Y	61_S	0.770	0.26
63_A	128_G	0.767	0.26
19_I	125_F	0.765	0.26
82_M	142_N	0.759	0.26
76_S	139_S	0.757	0.26
90_F	148_A	0.756	0.26
55_C	91_L	0.754	0.26
34_I	74_K	0.753	0.26
63_A	66_K	0.737	0.25
88_Q	121_T	0.733	0.25
20_A	43_V	0.730	0.24
90_F	107_H	0.724	0.24
123_V	134_P	0.720	0.24
73_T	103_G	0.718	0.24
92_F	110_V	0.716	0.24
126_S	130_T	0.710	0.24
63_A	149_W	0.704	0.23
25_E	130_T	0.702	0.23
39_C	115_A	0.698	0.23
34_I	44_N	0.693	0.23
51_V	115_A	0.693	0.23
13_E	110_V	0.691	0.23
49_Q	130_T	0.690	0.23
39_C	124_T	0.687	0.23
58_F	139_S	0.685	0.22
111_K	114_K	0.684	0.22
136_S	154_F	0.683	0.22
18_T	83_V	0.680	0.22
103_G	126_S	0.670	0.22
11_S	38_D	0.669	0.22
75_I	79_P	0.668	0.22
65_R	78_K	0.663	0.22
82_M	150_L	0.659	0.21
127_N	133_L	0.654	0.21
34_I	67_A	0.653	0.21
64_G	157_R	0.652	0.21
110_V	128_G	0.651	0.21
111_K	123_V	0.647	0.21
73_T	150_L	0.646	0.21
70_Y	73_T	0.644	0.21
34_I	49_Q	0.644	0.21
45_M	123_V	0.642	0.21
30_I	140_F	0.641	0.21
84_D	87_N	0.639	0.21
51_V	147_T	0.639	0.21
35_I	117_E	0.637	0.21
84_D	125_F	0.637	0.21
29_K	42_Y	0.636	0.20
48_L	138_N	0.634	0.20
111_K	124_T	0.626	0.20
27_D	83_V	0.625	0.20
39_C	72_V	0.623	0.20
78_K	139_S	0.623	0.20
93_P	104_W	0.620	0.20
32_S	69_T	0.614	0.20
89_I	102_C	0.610	0.19
110_V	159_D	0.609	0.19
19_I	126_S	0.609	0.19
14_V	89_I	0.608	0.19
107_H	147_T	0.606	0.19
20_A	101_Q	0.604	0.19
124_T	127_N	0.600	0.19
84_D	139_S	0.598	0.19
120_D	130_T	0.598	0.19
21_V	34_I	0.598	0.19
125_F	136_S	0.594	0.19
45_M	131_M	0.592	0.19
77_H	142_N	0.589	0.19
71_E	149_W	0.588	0.19
14_V	154_F	0.573	0.18
56_R	99_R	0.570	0.18
122_E	154_F	0.569	0.18
59_G	157_R	0.569	0.18
13_E	50_I	0.562	0.18
21_V	47_P	0.561	0.18
24_E	110_V	0.560	0.18
89_I	157_R	0.560	0.18
25_E	112_E	0.555	0.17
23_P	101_Q	0.555	0.17
23_P	111_K	0.552	0.17
42_Y	117_E	0.551	0.17
54_S	57_F	0.551	0.17
58_F	106_S	0.549	0.17
26_I	44_N	0.547	0.17
90_F	146_R	0.547	0.17
55_C	81_I	0.545	0.17
52_D	128_G	0.545	0.17
99_R	118_F	0.543	0.17
23_P	62_Y	0.543	0.17
50_I	102_C	0.537	0.17
125_F	143_Q	0.537	0.17
105_I	126_S	0.535	0.17
20_A	93_P	0.533	0.17
52_D	112_E	0.530	0.17
110_V	134_P	0.528	0.17
49_Q	57_F	0.528	0.17
32_S	63_A	0.527	0.16
93_P	102_C	0.525	0.16
48_L	52_D	0.524	0.16
21_V	100_P	0.524	0.16
70_Y	130_T	0.524	0.16
38_D	61_S	0.524	0.16
10_E	39_C	0.521	0.16
56_R	68_G	0.515	0.16
38_D	50_I	0.515	0.16
82_M	90_F	0.514	0.16
52_D	72_V	0.514	0.16
91_L	103_G	0.509	0.16
61_S	68_G	0.507	0.16
34_I	157_R	0.507	0.16
36_E	51_V	0.505	0.16
22_L	35_I	0.505	0.16
35_I	128_G	0.504	0.16
65_R	147_T	0.502	0.16
76_S	123_V	0.500	0.16

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

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling
Upload PDB model overlay contacts on the model

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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