YNAA - ECOLI - GREMLIN Contacts

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YNAA - Putative uncharacterized protein YnaA

UniProt:	P77658	Sequences: MAEQTSRLAIIIDSTGAKNNADNLTSSLVKMTQAGETAANSAGKVTKATEDEKNALAKLKAAIDPVGAAIDTVGRRYSELKKFFDKGLIDKEEYEFLVRKLNETTEELSGVAQAQREAEKAGKLAAAQQEAQAQAFQRMLDKIDPLAAALRNLEQQHDELNAAFASGKINGSQFENYSRKIQETRRELTGEAQAEREAAKAHDEQVVALQRLIAQLDPVGTAFNRLVEQQKQLNEAKAKGMLSPEMYEELSGKLRAMRSELEVTQSQLSKTGMSAKQTAFAMRMLPAQMTDIVVGLSTGQSPFMVLMQQGGHSAMQETRIASLPVTAIPAGMKIPCVTAGSA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13369
Length:	342 (274)
Sequences:	14508 (12993)
Seq/√Len:	784.9

ECOLI - YNAA

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
63_I	66_V	2.251	1.00
202_H	205_Q	2.214	1.00
261_L	264_T	2.211	1.00
35_G	38_A	2.199	1.00
28_L	31_M	2.114	1.00
115_Q	118_A	2.108	1.00
275_A	278_T	2.105	1.00
101_L	104_T	2.054	1.00
42_A	45_V	2.014	1.00
108_L	111_V	1.991	1.00
49_T	52_E	1.988	1.00
254_L	257_M	1.982	1.00
240_G	243_S	1.944	1.00
14_S	17_A	1.900	1.00
21_A	24_L	1.897	1.00
195_E	198_A	1.860	1.00
136_F	139_M	1.855	1.00
181_I	184_T	1.823	1.00
56_L	59_L	1.820	1.00
209_L	212_L	1.813	1.00
143_I	146_L	1.806	1.00
268_L	271_T	1.801	1.00
122_G	125_A	1.784	1.00
282_M	285_L	1.742	1.00
157_H	161_N	1.737	1.00
129_Q	132_Q	1.726	1.00
256_A	260_E	1.695	1.00
163_A	168_K	1.674	1.00
100_K	105_T	1.653	1.00
38_A	42_A	1.605	1.00
247_Y	250_L	1.601	1.00
108_L	112_A	1.594	1.00
208_A	213_I	1.589	1.00
253_K	258_R	1.574	1.00
150_L	153_L	1.573	1.00
188_L	191_E	1.568	1.00
55_A	60_K	1.561	1.00
118_A	122_G	1.551	1.00
58_K	62_A	1.531	1.00
28_L	32_T	1.523	1.00
216_L	219_V	1.508	1.00
267_Q	272_G	1.506	1.00
174_F	177_Y	1.479	1.00
51_D	55_A	1.466	1.00
136_F	140_L	1.462	1.00
180_K	185_R	1.459	1.00
157_H	160_L	1.454	1.00
14_S	18_K	1.447	1.00
20_N	25_T	1.445	1.00
27_S	32_T	1.443	1.00
264_T	268_L	1.442	1.00
149_A	154_E	1.438	1.00
159_E	163_A	1.432	1.00
65_P	69_A	1.428	1.00
56_L	60_K	1.421	1.00
138_R	142_K	1.394	1.00
202_H	206_V	1.392	1.00
62_A	67_G	1.392	1.00
228_E	232_Q	1.388	1.00
274_S	279_A	1.380	1.00
41_S	46_T	1.366	1.00
275_A	279_A	1.360	1.00
240_G	244_P	1.358	1.00
115_Q	119_E	1.357	1.00
87_G	90_D	1.355	1.00
198_A	202_H	1.346	1.00
156_Q	161_N	1.333	1.00
182_Q	185_R	1.328	1.00
249_E	253_K	1.327	1.00
174_F	178_S	1.311	1.00
81_K	85_D	1.311	1.00
131_A	135_A	1.307	1.00
117_E	121_A	1.305	1.00
72_T	76_R	1.297	1.00
146_L	150_L	1.290	1.00
156_Q	159_E	1.287	1.00
164_F	167_G	1.282	1.00
178_S	182_Q	1.276	1.00
124_L	128_Q	1.248	1.00
153_L	157_H	1.244	1.00
107_E	112_A	1.243	1.00
147_A	151_R	1.241	1.00
254_L	258_R	1.224	1.00
242_L	246_M	1.221	1.00
260_E	265_Q	1.220	1.00
42_A	46_T	1.216	1.00
37_T	41_S	1.209	1.00
66_V	70_I	1.207	1.00
49_T	53_K	1.207	1.00
63_I	67_G	1.204	1.00
75_R	79_E	1.204	1.00
22_D	25_T	1.196	1.00
201_A	206_V	1.191	1.00
211_R	215_Q	1.190	1.00
218_P	222_A	1.185	1.00
250_L	254_L	1.182	1.00
261_L	265_Q	1.175	1.00
135_A	140_L	1.173	1.00
57_A	61_A	1.170	1.00
13_D	18_K	1.167	1.00
113_Q	117_E	1.164	1.00
57_A	60_K	1.163	1.00
77_Y	81_K	1.162	1.00
30_K	34_A	1.161	1.00
129_Q	133_A	1.159	1.00
145_P	149_A	1.153	1.00
114_A	119_E	1.152	1.00
53_K	57_A	1.149	1.00
34_A	39_A	1.149	1.00
109_S	112_A	1.147	1.00
23_N	27_S	1.145	1.00
125_A	129_Q	1.143	1.00
128_Q	133_A	1.140	1.00
195_E	199_A	1.139	1.00
204_E	208_A	1.134	1.00
246_M	251_S	1.131	1.00
142_K	147_A	1.130	1.00
187_E	192_A	1.130	1.00
94_Y	97_L	1.126	1.00
38_A	41_S	1.119	1.00
54_N	58_K	1.115	1.00
20_N	23_N	1.113	1.00
215_Q	220_G	1.112	1.00
175_E	178_S	1.111	1.00
180_K	183_E	1.107	1.00
176_N	180_K	1.102	1.00
77_Y	80_L	1.098	1.00
143_I	147_A	1.095	1.00
16_G	20_N	1.095	1.00
217_D	220_G	1.088	1.00
161_N	165_A	1.087	1.00
257_M	261_L	1.084	1.00
163_A	166_S	1.082	1.00
227_V	230_Q	1.080	1.00
252_G	256_A	1.076	1.00
205_Q	209_L	1.071	1.00
24_L	28_L	1.070	1.00
132_Q	136_F	1.062	1.00
110_G	114_A	1.056	1.00
103_E	107_E	1.053	1.00
263_V	267_Q	1.052	1.00
234_N	237_K	1.051	1.00
194_A	199_A	1.043	1.00
201_A	204_E	1.042	1.00
86_K	90_D	1.041	1.00
84_F	87_G	1.040	1.00
268_L	272_G	1.039	1.00
205_Q	208_A	1.039	1.00
100_K	103_E	1.038	1.00
137_Q	140_L	1.038	1.00
144_D	147_A	1.037	1.00
40_N	44_K	1.037	1.00
35_G	39_A	1.030	1.00
29_V	32_T	1.021	1.00
44_K	48_A	1.019	1.00
207_V	211_R	1.014	1.00
119_E	123_K	1.011	1.00
239_K	242_L	1.011	1.00
26_S	30_K	1.008	1.00
227_V	231_K	1.008	1.00
225_R	229_Q	1.007	1.00
162_A	166_S	1.007	1.00
128_Q	131_A	1.004	1.00
99_R	103_E	0.998	1.00
208_A	211_R	0.998	1.00
66_V	69_A	0.997	1.00
193_Q	197_E	0.995	1.00
146_L	149_A	0.990	1.00
39_A	43_G	0.988	1.00
61_A	65_P	0.984	1.00
210_Q	213_I	0.983	1.00
74_G	78_S	0.982	1.00
235_E	239_K	0.981	1.00
43_G	47_K	0.981	1.00
270_K	274_S	0.979	1.00
245_E	249_E	0.977	1.00
64_D	68_A	0.974	1.00
50_E	53_K	0.969	1.00
101_L	105_T	0.969	1.00
78_S	81_K	0.967	1.00
247_Y	251_S	0.962	1.00
19_N	23_N	0.961	1.00
229_Q	232_Q	0.960	1.00
173_Q	178_S	0.960	1.00
105_T	109_S	0.960	1.00
31_M	35_G	0.959	1.00
203_D	206_V	0.959	1.00
34_A	38_A	0.954	1.00
171_G	175_E	0.952	1.00
187_E	190_G	0.950	1.00
243_S	247_Y	0.950	1.00
133_A	137_Q	0.947	1.00
114_A	117_E	0.947	1.00
183_E	187_E	0.947	1.00
27_S	30_K	0.945	1.00
142_K	145_P	0.942	1.00
258_R	262_E	0.936	1.00
43_G	46_T	0.932	1.00
102_N	105_T	0.932	1.00
224_N	227_V	0.929	1.00
21_A	25_T	0.928	1.00
118_A	121_A	0.928	1.00
184_T	188_L	0.926	1.00
190_G	194_A	0.921	1.00
197_E	201_A	0.921	1.00
48_A	51_D	0.920	1.00
226_L	229_Q	0.918	1.00
277_Q	281_A	0.917	1.00
52_E	56_L	0.916	1.00
93_E	96_F	0.916	1.00
236_A	240_G	0.914	1.00
41_S	44_K	0.911	1.00
45_V	49_T	0.910	1.00
244_P	248_E	0.910	1.00
79_E	83_F	0.907	1.00
134_Q	138_R	0.904	1.00
223_F	226_L	0.901	1.00
158_D	161_N	0.899	1.00
36_E	39_A	0.895	1.00
55_A	58_K	0.891	1.00
214_A	218_P	0.889	1.00
34_A	37_T	0.888	1.00
179_R	183_E	0.887	1.00
50_E	54_N	0.884	1.00
17_A	21_A	0.883	1.00
255_R	258_R	0.876	1.00
209_L	213_I	0.874	1.00
104_T	108_L	0.874	1.00
116_R	119_E	0.872	1.00
264_T	267_Q	0.872	1.00
32_T	36_E	0.871	1.00
259_S	263_V	0.870	1.00
22_D	26_S	0.864	1.00
151_R	154_E	0.863	1.00
76_R	79_E	0.862	1.00
107_E	110_G	0.860	1.00
47_K	51_D	0.858	1.00
62_A	66_V	0.858	1.00
76_R	81_K	0.857	1.00
135_A	138_R	0.857	1.00
91_K	95_E	0.857	1.00
70_I	73_V	0.853	1.00
237_K	241_M	0.853	1.00
272_G	276_K	0.851	1.00
93_E	98_V	0.851	1.00
276_K	279_A	0.847	1.00
62_A	65_P	0.845	1.00
33_Q	37_T	0.844	1.00
217_D	221_T	0.842	1.00
271_T	275_A	0.841	1.00
69_A	74_G	0.839	1.00
45_V	48_A	0.837	1.00
246_M	249_E	0.833	1.00
260_E	263_V	0.831	1.00
251_S	255_R	0.830	1.00
194_A	197_E	0.829	1.00
60_K	64_D	0.828	1.00
233_L	236_A	0.826	1.00
188_L	192_A	0.824	1.00
199_A	203_D	0.824	1.00
216_L	220_G	0.820	1.00
224_N	228_E	0.819	1.00
181_I	185_R	0.818	1.00
200_K	204_E	0.810	1.00
198_A	201_A	0.810	1.00
142_K	146_L	0.809	1.00
73_V	76_R	0.807	1.00
83_F	86_K	0.807	1.00
234_N	238_A	0.807	1.00
173_Q	176_N	0.807	1.00
120_K	124_L	0.806	1.00
164_F	168_K	0.805	1.00
165_A	169_I	0.805	1.00
206_V	210_Q	0.803	1.00
213_I	217_D	0.803	1.00
64_D	67_G	0.801	1.00
215_Q	218_P	0.795	1.00
189_T	193_Q	0.787	1.00
121_A	126_A	0.784	1.00
177_Y	181_I	0.784	1.00
278_T	282_M	0.784	1.00
253_K	256_A	0.783	1.00
237_K	240_G	0.783	1.00
281_A	284_M	0.781	1.00
262_E	265_Q	0.781	1.00
102_N	106_E	0.779	1.00
109_S	113_Q	0.777	1.00
185_R	189_T	0.777	1.00
67_G	71_D	0.776	1.00
267_Q	270_K	0.773	1.00
196_R	199_A	0.770	1.00
189_T	192_A	0.766	1.00
186_R	190_G	0.766	1.00
130_E	134_Q	0.763	1.00
18_K	22_D	0.760	1.00
222_A	225_R	0.759	1.00
116_R	120_K	0.757	1.00
140_L	144_D	0.755	1.00
165_A	168_K	0.755	1.00
149_A	152_N	0.755	1.00
80_L	83_F	0.754	1.00
98_V	102_N	0.752	1.00
172_S	176_N	0.747	1.00
175_E	179_R	0.744	1.00
219_V	222_A	0.744	1.00
193_Q	196_R	0.743	1.00
177_Y	180_K	0.743	1.00
160_L	164_F	0.740	1.00
182_Q	186_R	0.740	1.00
73_V	77_Y	0.736	1.00
15_T	19_N	0.735	1.00
166_S	170_N	0.734	1.00
96_F	100_K	0.732	1.00
127_A	131_A	0.732	1.00
106_E	110_G	0.731	1.00
69_A	72_T	0.728	1.00
12_I	16_G	0.727	1.00
48_A	53_K	0.727	1.00
82_K	86_K	0.726	1.00
13_D	16_G	0.724	1.00
88_L	91_K	0.721	1.00
167_G	170_N	0.720	1.00
203_D	207_V	0.720	1.00
255_R	259_S	0.719	1.00
123_K	126_A	0.716	1.00
139_M	143_I	0.711	1.00
269_S	272_G	0.710	1.00
141_D	145_P	0.710	1.00
36_E	40_N	0.703	1.00
90_D	93_E	0.702	1.00
269_S	273_M	0.700	1.00
266_S	270_K	0.699	1.00
94_Y	98_V	0.697	1.00
279_A	283_R	0.697	1.00
26_S	29_V	0.693	1.00
122_G	126_A	0.692	1.00
265_Q	269_S	0.689	1.00
112_A	116_R	0.688	1.00
97_L	101_L	0.682	1.00
191_E	195_E	0.679	1.00
225_R	228_E	0.677	1.00
59_L	63_I	0.672	1.00
92_E	95_E	0.669	1.00
111_V	115_Q	0.667	1.00
21_A	28_L	0.667	1.00
273_M	277_Q	0.665	1.00
130_E	133_A	0.662	1.00
180_K	184_T	0.662	1.00
212_L	216_L	0.662	1.00
25_T	29_V	0.661	1.00
246_M	250_L	0.657	1.00
137_Q	141_D	0.657	1.00
184_T	187_E	0.653	1.00
114_A	118_A	0.652	1.00
144_D	148_A	0.652	1.00
125_A	128_Q	0.651	1.00
229_Q	233_L	0.647	1.00
28_L	35_G	0.642	1.00
49_T	56_L	0.642	1.00
90_D	94_Y	0.640	1.00
74_G	77_Y	0.640	1.00
225_R	230_Q	0.638	1.00
148_A	152_N	0.638	1.00
241_M	245_E	0.635	1.00
151_R	155_Q	0.628	1.00
46_T	50_E	0.625	1.00
15_T	18_K	0.622	1.00
230_Q	234_N	0.620	1.00
219_V	223_F	0.618	1.00
126_A	130_E	0.610	1.00
243_S	246_M	0.608	1.00
81_K	84_F	0.607	1.00
85_D	89_I	0.607	1.00
162_A	165_A	0.606	1.00
89_I	93_E	0.600	1.00
111_V	114_A	0.598	1.00
113_Q	116_R	0.595	1.00
262_E	266_S	0.594	1.00
132_Q	135_A	0.590	1.00
92_E	96_F	0.584	1.00
52_E	55_A	0.583	1.00
85_D	88_L	0.580	1.00
120_K	123_K	0.573	1.00
248_E	251_S	0.566	1.00
236_A	239_K	0.565	1.00
150_L	154_E	0.560	1.00
212_L	215_Q	0.559	1.00
196_R	200_K	0.556	1.00
154_E	158_D	0.556	1.00
101_L	108_L	0.555	1.00
158_D	162_A	0.555	1.00
239_K	244_P	0.549	1.00
163_A	167_G	0.549	1.00
40_N	43_G	0.549	1.00
29_V	33_Q	0.547	1.00
134_Q	137_Q	0.542	1.00
152_N	156_Q	0.541	1.00
268_L	275_A	0.537	1.00
91_K	94_Y	0.535	1.00
54_N	57_A	0.533	1.00
16_G	19_N	0.533	1.00
226_L	230_Q	0.531	1.00
108_L	115_Q	0.526	1.00
266_S	269_S	0.523	1.00
241_M	244_P	0.516	1.00
274_S	277_Q	0.511	1.00
257_M	260_E	0.510	1.00
33_Q	36_E	0.510	1.00
230_Q	233_L	0.502	1.00
192_A	195_E	0.501	1.00
231_K	235_E	0.500	1.00

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
1i84S	2	0.2427	99.5	0.584	Contact Map
1c1gA	2	0.8304	99.3	0.62	Contact Map
4uxvA	1	0.9357	98.1	0.756	Contact Map
4iloA	3	0.5848	97.6	0.78	Contact Map
2dfsA	2	0.4094	97.6	0.78	Contact Map
3na7A	1	0.6023	97.6	0.781	Contact Map
4cgkA	3	0.7222	97.1	0.8	Contact Map
4rsiB	1	0.4561	96.8	0.807	Contact Map
1u4qA	1	0.8947	96.6	0.812	Contact Map
4d1eA	2	0.9503	96.5	0.814	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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