QMCA - ECOLI - GREMLIN Contacts

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QMCA - Protein QmcA

UniProt:	P0AA53	Sequences: MLIFIPILIFVALVIVGAGVKIVPQGYQWTVERFGRYTKTLQPGLSLVVPFMDRIGRKINMMEQVLDIPSQEVISKDNANVTIDAVCFIQVIDAPRAAYEVSNLELAIINLTMTNIRTVLGSMELDEMLSQRDSINSRLLRIVDEATNPWGIKVTRIEIRDVRPPAELISSMNAQMKAERTKRAYILEAEGIRQAEILKAEGEKQSQILKAEGERQSAFLQAEARERSAEAEARATKMVSEAIASGDIQAVNYFVAQKYTEALQQIGSSSNSKVVMMPLEASSLMGSIAGIAELVKDSANKRTQP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13258
Length:	305 (258)
Sequences:	6082 (3471)
Seq/√Len:	216.1

ECOLI - QMCA HFLK HFLC YQIK
BACSU - YUAG
HALSA - Q9HSA8 Q9HHV6
SULSO - Q97WL9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
33_R	53_D	5.373	1.00
37_Y	40_T	4.049	1.00
93_D	96_R	3.662	1.00
201_E	205_Q	2.956	1.00
90_Q	153_K	2.676	1.00
230_E	234_R	2.657	1.00
212_E	216_Q	2.590	1.00
39_K	53_D	2.570	1.00
194_Q	197_I	2.534	1.00
195_A	199_K	2.466	1.00
223_E	227_R	2.450	1.00
217_S	221_Q	2.385	1.00
215_R	219_F	2.383	1.00
216_Q	219_F	2.355	1.00
23_V	29_W	2.287	1.00
134_S	138_R	2.257	1.00
227_R	230_E	2.254	1.00
216_Q	220_L	2.170	1.00
131_Q	134_S	2.135	1.00
258_K	261_E	2.068	1.00
199_K	203_E	2.050	1.00
6_P	10_F	2.001	1.00
24_P	27_Y	1.988	1.00
27_Y	58_K	1.968	1.00
234_R	238_M	1.947	1.00
241_E	245_S	1.931	1.00
221_Q	225_R	1.930	1.00
188_E	192_I	1.930	1.00
111_L	143_V	1.906	1.00
203_E	210_K	1.853	1.00
92_I	153_K	1.837	1.00
76_K	124_E	1.816	1.00
127_E	131_Q	1.797	1.00
214_E	218_A	1.793	1.00
33_R	38_T	1.734	1.00
220_L	223_E	1.723	1.00
252_N	256_A	1.711	1.00
239_V	242_A	1.708	1.00
219_F	223_E	1.689	1.00
138_R	141_R	1.679	1.00
96_R	100_E	1.670	1.00
137_S	141_R	1.665	1.00
208_I	212_E	1.645	1.00
28_Q	61_M	1.618	1.00
87_C	112_T	1.616	1.00
19_G	47_L	1.608	1.00
141_R	145_E	1.559	1.00
229_A	239_V	1.550	1.00
209_L	212_E	1.548	1.00
21_K	41_L	1.546	1.00
214_E	221_Q	1.540	1.00
28_Q	94_A	1.536	1.00
170_S	174_A	1.532	1.00
206_S	210_K	1.532	1.00
38_T	53_D	1.528	1.00
119_V	138_R	1.519	1.00
229_A	232_E	1.502	1.00
32_E	99_Y	1.481	1.00
186_I	190_E	1.455	1.00
192_I	196_E	1.453	1.00
234_R	237_K	1.439	1.00
29_W	55_I	1.435	1.00
201_E	204_K	1.432	1.00
122_S	138_R	1.430	1.00
218_A	221_Q	1.428	1.00
124_E	127_E	1.428	1.00
96_R	99_Y	1.423	1.00
30_T	98_A	1.400	1.00
166_A	170_S	1.388	1.00
90_Q	155_T	1.383	1.00
210_K	214_E	1.381	1.00
182_K	186_I	1.376	1.00
176_M	180_R	1.370	1.00
15_I	19_G	1.369	1.00
212_E	215_R	1.353	1.00
83_I	120_L	1.343	1.00
181_T	185_Y	1.339	1.00
120_L	128_M	1.337	1.00
236_T	240_S	1.332	1.00
254_F	257_Q	1.292	1.00
233_A	237_K	1.281	1.00
205_Q	208_I	1.281	1.00
227_R	231_A	1.266	1.00
29_W	58_K	1.254	1.00
190_E	193_R	1.234	1.00
41_L	46_S	1.232	1.00
196_E	199_K	1.232	1.00
263_L	266_I	1.228	1.00
144_D	148_N	1.227	1.00
14_V	18_A	1.221	1.00
97_A	101_V	1.201	1.00
5_I	9_I	1.192	1.00
59_I	98_A	1.188	1.00
63_E	155_T	1.186	1.00
240_S	243_I	1.186	1.00
235_A	238_M	1.182	1.00
184_A	188_E	1.180	1.00
20_V	47_L	1.161	1.00
4_F	8_L	1.158	1.00
13_L	17_G	1.148	1.00
37_Y	95_P	1.135	1.00
21_K	48_V	1.132	1.00
28_Q	40_T	1.131	1.00
194_Q	198_L	1.129	1.00
174_A	177_K	1.127	1.00
85_A	116_I	1.114	1.00
205_Q	209_L	1.113	1.00
189_A	198_L	1.098	1.00
177_K	181_T	1.096	1.00
232_E	239_V	1.083	1.00
108_I	147_T	1.071	1.00
133_D	137_S	1.071	1.00
204_K	208_I	1.066	1.00
163_R	169_I	1.066	1.00
255_V	259_Y	1.063	1.00
229_A	236_T	1.061	1.00
31_V	53_D	1.057	1.00
49_V	53_D	1.054	1.00
202_G	206_S	1.054	1.00
19_G	48_V	1.053	1.00
213_G	217_S	1.051	1.00
12_A	16_V	1.048	1.00
10_F	14_V	1.047	1.00
256_A	259_Y	1.043	1.00
225_R	228_S	1.039	1.00
112_T	143_V	1.037	1.00
203_E	207_Q	1.035	1.00
22_I	45_L	1.034	1.00
243_I	246_G	1.032	1.00
138_R	142_I	1.032	1.00
55_I	58_K	1.028	1.00
59_I	91_V	1.026	1.00
251_V	256_A	1.024	1.00
238_M	241_E	1.024	1.00
217_S	224_A	1.011	1.00
253_Y	257_Q	1.005	1.00
261_E	264_Q	1.003	1.00
103_N	106_L	1.000	1.00
226_E	230_E	0.998	1.00
15_I	51_F	0.995	1.00
54_R	57_R	0.991	1.00
240_S	244_A	0.986	1.00
114_T	118_T	0.983	1.00
236_T	239_V	0.982	1.00
192_I	199_K	0.971	1.00
181_T	184_A	0.966	1.00
32_E	57_R	0.963	1.00
48_V	53_D	0.963	1.00
224_A	228_S	0.956	1.00
42_Q	46_S	0.955	1.00
214_E	217_S	0.954	1.00
242_A	245_S	0.953	1.00
192_I	195_A	0.952	1.00
193_R	197_I	0.951	1.00
229_A	233_A	0.949	1.00
218_A	224_A	0.949	1.00
229_A	242_A	0.946	1.00
183_R	186_I	0.946	1.00
134_S	137_S	0.943	1.00
26_G	62_M	0.936	0.99
146_A	150_W	0.934	0.99
32_E	54_R	0.931	0.99
253_Y	256_A	0.931	0.99
211_A	220_L	0.929	0.99
174_A	181_T	0.927	0.99
20_V	45_L	0.926	0.99
260_T	266_I	0.925	0.99
198_L	201_E	0.916	0.99
7_I	11_V	0.916	0.99
9_I	13_L	0.914	0.99
142_I	145_E	0.911	0.99
252_N	255_V	0.910	0.99
73_V	120_L	0.907	0.99
18_A	48_V	0.895	0.99
241_E	244_A	0.894	0.99
251_V	254_F	0.886	0.99
65_V	88_F	0.879	0.99
34_F	38_T	0.874	0.99
18_A	21_K	0.872	0.99
240_S	246_G	0.872	0.99
191_G	195_A	0.869	0.99
179_E	183_R	0.864	0.99
140_L	144_D	0.861	0.99
34_F	52_M	0.860	0.99
232_E	236_T	0.860	0.99
231_A	235_A	0.858	0.99
221_Q	224_A	0.853	0.99
89_I	152_I	0.853	0.99
49_V	52_M	0.852	0.99
94_A	101_V	0.849	0.99
203_E	206_S	0.845	0.99
231_A	239_V	0.838	0.99
119_V	122_S	0.838	0.99
77_D	126_D	0.833	0.99
104_L	152_I	0.825	0.99
166_A	169_I	0.824	0.99
123_M	131_Q	0.810	0.99
117_R	121_G	0.808	0.99
26_G	61_M	0.806	0.98
145_E	148_N	0.806	0.98
207_Q	210_K	0.804	0.98
26_G	60_N	0.803	0.98
123_M	135_I	0.800	0.98
75_S	81_V	0.800	0.98
5_I	8_L	0.800	0.98
176_M	179_E	0.799	0.98
215_R	224_A	0.793	0.98
232_E	242_A	0.789	0.98
63_E	88_F	0.786	0.98
237_K	240_S	0.786	0.98
200_A	204_K	0.785	0.98
21_K	29_W	0.783	0.98
87_C	154_V	0.779	0.98
95_P	99_Y	0.777	0.98
251_V	255_V	0.776	0.98
174_A	178_A	0.776	0.98
139_L	143_V	0.767	0.98
200_A	209_L	0.761	0.98
98_A	101_V	0.760	0.98
59_I	94_A	0.759	0.98
118_T	142_I	0.753	0.98
169_I	173_N	0.753	0.98
237_K	241_E	0.751	0.98
252_N	259_Y	0.748	0.98
33_R	49_V	0.747	0.98
146_A	149_P	0.747	0.98
19_G	49_V	0.744	0.97
31_V	55_I	0.743	0.97
231_A	234_R	0.742	0.97
97_A	100_E	0.742	0.97
179_E	182_K	0.738	0.97
15_I	49_V	0.736	0.97
242_A	246_G	0.734	0.97
111_L	146_A	0.729	0.97
72_E	82_T	0.728	0.97
147_T	154_V	0.725	0.97
94_A	97_A	0.721	0.97
94_A	98_A	0.717	0.97
215_R	220_L	0.716	0.97
225_R	229_A	0.714	0.97
79_A	164_P	0.714	0.97
222_A	226_E	0.711	0.97
11_V	15_I	0.709	0.97
67_D	84_D	0.709	0.97
28_Q	42_Q	0.702	0.96
235_A	239_V	0.700	0.96
28_Q	32_E	0.694	0.96
229_A	240_S	0.692	0.96
136_N	156_R	0.690	0.96
87_C	168_L	0.688	0.96
115_N	146_A	0.687	0.96
115_N	142_I	0.681	0.96
197_I	201_E	0.678	0.96
175_Q	179_E	0.676	0.96
127_E	130_S	0.672	0.95
262_A	265_Q	0.667	0.95
116_I	139_L	0.665	0.95
108_I	152_I	0.664	0.95
75_S	125_L	0.664	0.95
67_D	160_R	0.661	0.95
220_L	224_A	0.660	0.95
127_E	134_S	0.658	0.95
231_A	242_A	0.657	0.95
256_A	260_T	0.656	0.95
180_R	183_R	0.655	0.95
39_K	46_S	0.653	0.95
8_L	12_A	0.649	0.94
229_A	235_A	0.649	0.94
190_E	194_Q	0.648	0.94
31_V	39_K	0.646	0.94
231_A	236_T	0.644	0.94
225_R	232_E	0.642	0.94
85_A	112_T	0.641	0.94
237_K	242_A	0.639	0.94
16_V	20_V	0.636	0.94
67_D	70_S	0.635	0.94
167_E	170_S	0.634	0.94
75_S	128_M	0.632	0.94
215_R	228_S	0.626	0.93
125_L	162_V	0.625	0.93
239_V	246_G	0.624	0.93
48_V	55_I	0.622	0.93
229_A	237_K	0.618	0.93
18_A	22_I	0.614	0.93
41_L	48_V	0.614	0.93
74_I	80_N	0.613	0.93
107_A	150_W	0.609	0.92
27_Y	60_N	0.606	0.92
171_S	174_A	0.605	0.92
260_T	265_Q	0.600	0.92
239_V	243_I	0.600	0.92
144_D	154_V	0.600	0.92
118_T	122_S	0.595	0.92
6_P	9_I	0.594	0.91
136_N	158_E	0.594	0.91
82_T	87_C	0.593	0.91
223_E	226_E	0.590	0.91
23_V	44_G	0.590	0.91
206_S	214_E	0.590	0.91
188_E	191_G	0.588	0.91
220_L	227_R	0.588	0.91
72_E	80_N	0.587	0.91
184_A	191_G	0.582	0.91
92_I	148_N	0.582	0.91
230_E	236_T	0.582	0.91
86_V	158_E	0.581	0.91
164_P	168_L	0.581	0.91
175_Q	180_R	0.579	0.90
185_Y	188_E	0.579	0.90
243_I	251_V	0.577	0.90
106_L	110_N	0.577	0.90
15_I	48_V	0.577	0.90
135_I	159_I	0.574	0.90
64_Q	105_E	0.573	0.90
232_E	235_A	0.571	0.90
230_E	242_A	0.570	0.90
25_Q	43_P	0.570	0.90
222_A	228_S	0.568	0.90
236_T	243_I	0.568	0.90
23_V	55_I	0.567	0.89
211_A	224_A	0.567	0.89
97_A	104_L	0.566	0.89
33_R	52_M	0.565	0.89
251_V	257_Q	0.563	0.89
237_K	245_S	0.562	0.89
79_A	168_L	0.561	0.89
236_T	246_G	0.561	0.89
231_A	238_M	0.560	0.89
251_V	259_Y	0.559	0.89
103_N	107_A	0.558	0.89
199_K	202_G	0.558	0.89
258_K	262_A	0.557	0.89
172_M	175_Q	0.556	0.89
123_M	127_E	0.554	0.88
130_S	160_R	0.553	0.88
219_F	222_A	0.551	0.88
111_L	150_W	0.550	0.88
86_V	160_R	0.548	0.88
179_E	187_L	0.548	0.88
238_M	242_A	0.546	0.88
110_N	143_V	0.546	0.88
254_F	258_K	0.545	0.88
224_A	253_Y	0.544	0.87
117_R	132_R	0.542	0.87
259_Y	262_A	0.541	0.87
196_E	200_A	0.538	0.87
10_F	13_L	0.538	0.87
101_V	107_A	0.537	0.87
218_A	225_R	0.537	0.87
8_L	15_I	0.533	0.86
189_A	193_R	0.532	0.86
173_N	176_M	0.532	0.86
31_V	48_V	0.532	0.86
84_D	160_R	0.532	0.86
219_F	227_R	0.531	0.86
252_N	257_Q	0.530	0.86
213_G	218_A	0.530	0.86
111_L	114_T	0.529	0.86
262_A	266_I	0.528	0.86
173_N	180_R	0.528	0.86
91_V	104_L	0.525	0.86
125_L	180_R	0.525	0.86
123_M	138_R	0.523	0.85
254_F	259_Y	0.522	0.85
181_T	188_E	0.522	0.85
30_T	40_T	0.521	0.85
167_E	181_T	0.519	0.85
16_V	19_G	0.519	0.85
48_V	52_M	0.515	0.84
23_V	58_K	0.515	0.84
236_T	254_F	0.515	0.84
21_K	39_K	0.514	0.84
132_R	173_N	0.513	0.84
252_N	265_Q	0.511	0.84
143_V	146_A	0.510	0.84
208_I	224_A	0.507	0.84
123_M	134_S	0.507	0.84
107_A	111_L	0.506	0.83
174_A	188_E	0.505	0.83
12_A	15_I	0.505	0.83
236_T	242_A	0.504	0.83
255_V	258_K	0.503	0.83
39_K	95_P	0.502	0.83
215_R	218_A	0.502	0.83
144_D	153_K	0.501	0.83
258_K	263_L	0.501	0.83
25_Q	78_N	0.500	0.83

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
3bk6A	3	0.5574	100	0.544	Contact Map
4fvgA	2	0.3574	99.9	0.585	Contact Map
1winA	1	0.4393	99.9	0.605	Contact Map
2rpbA	1	0.3705	99.8	0.667	Contact Map
2zuoA	7	0.9705	97.1	0.878	Contact Map
2marA	1	0.4	23.3	0.95	Contact Map
3v6iB	1	0.2918	17.1	0.953	Contact Map
4efaG	1	0.3115	13.6	0.955	Contact Map
2dm9A	2	0.2295	13.6	0.955	Contact Map
3ioxA	1	0.4754	9.5	0.958	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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