COMFC - BACSU - GREMLIN Contacts

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COMFC - ComF operon protein 3

UniProt:	P39147	Sequences: MICLLCDSQFSQDVTWRALFLLKPDEKVCYSCRSKLKKITGHICPLCGRPQSVHAVCRDCEVWRTRIRDSLLLRQNRSVYTYNDMMKETLSRFKFRGDAEIINAFKSDFSSTFSKVYPDKHFVLVPIPLSKEREEERGFNQAHLLAECLDRPSHHPLIRLNNEKQSKKKKTERLLSECIFDTKNNSAEGMNIILIDDLYTTGATLHFAARCLLEKGKAASVSSFTLIRS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	229 (188)
Sequences:	3996 (3346)
Seq/√Len:	244.0

ECOLI - GNTX
BACSU - COMFC

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
205_L	223_S	4.121	1.00
127_I	208_A	3.567	1.00
157_L	208_A	3.320	1.00
165_Q	176_S	3.193	1.00
74_R	213_L	2.938	1.00
169_K	172_E	2.812	1.00
80_Y	86_M	2.706	1.00
199_Y	225_T	2.693	1.00
78_S	225_T	2.634	1.00
182_T	211_C	2.584	1.00
191_N	220_S	2.535	1.00
121_H	193_I	2.112	1.00
129_L	141_Q	2.081	1.00
170_K	174_L	1.999	1.00
124_L	193_I	1.993	1.00
207_F	210_R	1.984	1.00
95_F	166_S	1.951	1.00
160_L	181_D	1.937	1.00
153_S	156_P	1.907	1.00
106_K	110_S	1.857	1.00
194_L	208_A	1.835	1.00
93_F	102_I	1.828	1.00
143_H	147_E	1.828	1.00
125_V	156_P	1.814	1.00
132_E	161_N	1.773	1.00
123_V	192_I	1.746	1.00
74_R	220_S	1.716	1.00
213_L	221_V	1.715	1.00
92_R	98_D	1.671	1.00
158_I	181_D	1.667	1.00
191_N	222_S	1.663	1.00
168_K	176_S	1.661	1.00
193_I	224_F	1.645	1.00
124_L	150_D	1.644	1.00
131_K	135_E	1.612	1.00
46_L	56_V	1.594	1.00
84_D	87_K	1.556	1.00
129_L	133_R	1.534	1.00
105_F	226_L	1.526	1.00
212_L	218_A	1.519	1.00
123_V	153_S	1.517	1.00
133_R	159_R	1.486	1.00
124_L	149_L	1.484	1.00
205_L	225_T	1.480	1.00
129_L	140_N	1.468	1.00
203_A	207_F	1.460	1.00
109_F	226_L	1.452	1.00
89_T	105_F	1.402	1.00
144_L	147_E	1.390	1.00
99_A	144_L	1.380	1.00
211_C	214_E	1.379	1.00
162_N	179_I	1.370	1.00
122_F	191_N	1.362	1.00
75_Q	222_S	1.361	1.00
82_Y	91_S	1.344	1.00
86_M	227_I	1.344	1.00
87_K	91_S	1.312	1.00
129_L	134_E	1.306	1.00
142_A	146_A	1.298	1.00
130_S	161_N	1.287	1.00
192_I	218_A	1.269	1.00
76_N	223_S	1.267	1.00
158_I	183_K	1.260	1.00
109_F	224_F	1.248	1.00
133_R	136_E	1.233	1.00
110_S	152_P	1.200	1.00
103_N	148_C	1.200	1.00
106_K	148_C	1.200	1.00
76_N	225_T	1.195	1.00
122_F	193_I	1.193	1.00
191_N	219_A	1.171	1.00
199_Y	205_L	1.166	1.00
126_P	143_H	1.162	1.00
73_L	209_A	1.151	1.00
66_R	206_H	1.143	1.00
93_F	145_L	1.132	1.00
127_I	204_T	1.131	1.00
187_A	190_M	1.126	1.00
93_F	101_I	1.118	1.00
102_I	144_L	1.117	1.00
218_A	221_V	1.116	1.00
107_S	152_P	1.114	1.00
189_G	218_A	1.100	1.00
159_R	162_N	1.096	1.00
113_F	224_F	1.095	1.00
106_K	149_L	1.090	1.00
91_S	95_F	1.087	1.00
208_A	211_C	1.074	1.00
123_V	189_G	1.068	1.00
142_A	195_I	1.066	1.00
146_A	149_L	1.062	1.00
209_A	213_L	1.055	1.00
182_T	215_K	1.052	1.00
207_F	211_C	1.045	1.00
133_R	164_K	1.039	1.00
76_N	199_Y	1.037	1.00
142_A	145_L	1.035	1.00
178_C	207_F	1.016	1.00
124_L	146_A	1.011	1.00
134_E	143_H	1.003	1.00
163_E	168_K	1.000	1.00
130_S	133_R	0.986	1.00
122_F	190_M	0.984	1.00
49_R	59_D	0.980	1.00
109_F	145_L	0.971	1.00
92_R	96_R	0.965	1.00
93_F	105_F	0.961	1.00
90_L	226_L	0.956	1.00
148_C	152_P	0.936	1.00
73_L	223_S	0.935	1.00
177_E	207_F	0.931	1.00
149_L	195_I	0.918	1.00
101_I	104_A	0.918	1.00
129_L	159_R	0.910	1.00
93_F	144_L	0.906	1.00
133_R	141_Q	0.899	1.00
80_Y	226_L	0.878	0.99
187_A	218_A	0.877	0.99
166_S	198_L	0.875	0.99
174_L	206_H	0.869	0.99
131_K	134_E	0.869	0.99
206_H	209_A	0.859	0.99
91_S	96_R	0.849	0.99
132_E	136_E	0.847	0.99
216_G	219_A	0.846	0.99
165_Q	198_L	0.845	0.99
143_H	154_H	0.844	0.99
146_A	150_D	0.840	0.99
132_E	135_E	0.838	0.99
176_S	179_I	0.837	0.99
146_A	195_I	0.830	0.99
159_R	180_F	0.830	0.99
88_E	92_R	0.824	0.99
80_Y	108_D	0.816	0.99
212_L	216_G	0.812	0.99
73_L	76_N	0.809	0.99
123_V	190_M	0.806	0.99
145_L	226_L	0.803	0.99
126_P	140_N	0.800	0.99
129_L	142_A	0.799	0.99
93_F	139_F	0.798	0.99
195_I	224_F	0.797	0.99
209_A	223_S	0.797	0.99
179_I	207_F	0.796	0.99
213_L	218_A	0.793	0.99
121_H	191_N	0.792	0.99
73_L	205_L	0.785	0.99
121_H	222_S	0.779	0.99
209_A	221_V	0.776	0.99
89_T	101_I	0.775	0.99
90_L	227_I	0.774	0.99
157_L	212_L	0.774	0.99
35_K	41_G	0.773	0.99
211_C	215_K	0.772	0.99
82_Y	87_K	0.769	0.99
98_D	101_I	0.753	0.98
57_C	60_C	0.753	0.98
95_F	141_Q	0.752	0.98
77_R	222_S	0.752	0.98
171_T	175_L	0.750	0.98
148_C	151_R	0.747	0.98
102_I	106_K	0.745	0.98
35_K	64_R	0.743	0.98
193_I	222_S	0.742	0.98
162_N	176_S	0.737	0.98
163_E	167_K	0.735	0.98
35_K	40_T	0.733	0.98
178_C	211_C	0.730	0.98
106_K	152_P	0.728	0.98
47_C	60_C	0.727	0.98
95_F	164_K	0.726	0.98
78_S	228_R	0.722	0.98
182_T	185_N	0.720	0.98
155_H	183_K	0.719	0.98
82_Y	227_I	0.714	0.98
180_F	208_A	0.709	0.98
215_K	218_A	0.703	0.98
109_F	149_L	0.700	0.97
146_A	151_R	0.697	0.97
130_S	162_N	0.692	0.97
101_I	105_F	0.689	0.97
95_F	133_R	0.687	0.97
58_R	62_V	0.681	0.97
79_V	112_T	0.674	0.97
93_F	226_L	0.673	0.97
43_I	77_R	0.672	0.97
187_A	192_I	0.669	0.97
108_D	111_S	0.667	0.97
77_R	112_T	0.667	0.97
95_F	139_F	0.663	0.97
37_K	40_T	0.657	0.96
77_R	116_V	0.655	0.96
45_P	51_Q	0.655	0.96
174_L	203_A	0.654	0.96
124_L	195_I	0.654	0.96
38_K	41_G	0.654	0.96
47_C	57_C	0.650	0.96
127_I	180_F	0.649	0.96
90_L	198_L	0.648	0.96
104_A	108_D	0.645	0.96
157_L	194_L	0.644	0.96
97_G	138_G	0.641	0.96
97_G	100_E	0.639	0.96
88_E	96_R	0.639	0.96
110_S	149_L	0.638	0.96
190_M	219_A	0.637	0.96
44_C	47_C	0.636	0.96
73_L	206_H	0.636	0.96
46_L	64_R	0.629	0.95
58_R	61_E	0.627	0.95
107_S	148_C	0.624	0.95
168_K	201_T	0.624	0.95
99_A	139_F	0.623	0.95
40_T	64_R	0.619	0.95
93_F	141_Q	0.617	0.95
143_H	155_H	0.615	0.95
188_E	216_G	0.613	0.95
35_K	38_K	0.612	0.95
190_M	218_A	0.610	0.94
182_T	187_A	0.609	0.94
74_R	206_H	0.606	0.94
187_A	219_A	0.604	0.94
77_R	81_T	0.601	0.94
93_F	106_K	0.595	0.94
41_G	45_P	0.594	0.94
194_L	209_A	0.591	0.94
79_V	109_F	0.590	0.93
159_R	179_I	0.589	0.93
194_L	205_L	0.589	0.93
49_R	199_Y	0.582	0.93
164_K	167_K	0.575	0.93
82_Y	95_F	0.573	0.92
154_H	158_I	0.572	0.92
43_I	48_G	0.572	0.92
81_T	228_R	0.571	0.92
165_Q	180_F	0.569	0.92
126_P	153_S	0.566	0.92
155_H	158_I	0.563	0.92
41_G	64_R	0.562	0.92
156_P	187_A	0.552	0.91
91_S	166_S	0.547	0.91
187_A	215_K	0.545	0.90
127_I	157_L	0.543	0.90
216_G	221_V	0.541	0.90
168_K	172_E	0.540	0.90
110_S	224_F	0.539	0.90
86_M	90_L	0.538	0.90
176_S	207_F	0.537	0.90
61_E	64_R	0.535	0.90
156_P	160_L	0.535	0.90
153_S	186_S	0.535	0.90
142_A	149_L	0.534	0.90
74_R	222_S	0.532	0.89
174_L	198_L	0.532	0.89
134_E	140_N	0.532	0.89
66_R	73_L	0.532	0.89
114_S	117_Y	0.530	0.89
93_F	140_N	0.530	0.89
56_V	64_R	0.530	0.89
137_R	140_N	0.529	0.89
45_P	56_V	0.529	0.89
80_Y	227_I	0.528	0.89
164_K	168_K	0.528	0.89
113_F	117_Y	0.527	0.89
95_F	180_F	0.524	0.89
186_S	189_G	0.520	0.88
43_I	81_T	0.520	0.88
89_T	198_L	0.519	0.88
162_N	180_F	0.516	0.88
171_T	174_L	0.516	0.88
140_N	143_H	0.514	0.88
199_Y	228_R	0.514	0.88
130_S	141_Q	0.513	0.88
36_L	80_Y	0.512	0.88
194_L	223_S	0.512	0.88
113_F	149_L	0.510	0.87
172_E	175_L	0.508	0.87
123_V	156_P	0.508	0.87
160_L	183_K	0.507	0.87
194_L	218_A	0.507	0.87
165_Q	170_K	0.500	0.86
65_T	206_H	0.500	0.86

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
1zn8A	2	0.6812	99.8	0.655	Contact Map
1vchA	5	0.6594	99.8	0.672	Contact Map
2dy0A	2	0.6725	99.8	0.672	Contact Map
1wd5A	1	0.5328	99.8	0.68	Contact Map
1ecfA	4	0.9127	99.8	0.681	Contact Map
1y0bA	2	0.6638	99.8	0.682	Contact Map
1g2qA	2	0.6943	99.8	0.686	Contact Map
1l1qA	2	0.6638	99.8	0.686	Contact Map
4lzaA	2	0.655	99.8	0.687	Contact Map
1yfzA	3	0.5502	99.7	0.692	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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