YXKF - BACSU - GREMLIN Contacts

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YXKF - Uncharacterized protein YxkF

UniProt:	P94359	Sequences: MKSLLAIYPGSIVSEELCIREGCLCFFDESNQRYISIPKTEISEKEVLVLQSFLTPADEGNQLSMKSPEENKWFSFLFSRGELPAYIKKRTRFVHFHLFGKIERTSFTEAVRHFWPVSFVIVWIHEDRGVIVEQESEAAAEKDELESLAKVLESDFYFSVRFYAGRFYEPDECLRKHYAREQAYFLFAEKRLPQVQSVTFEMIFPFLLLETEKEKLETLLSEEAELLFGSESELRKTIKLFIENNSNVTLTAKKLHLHRNSLQYRIDKFIERSGIDIKSYKGALLAYFICLQNESSE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	297 (250)
Sequences:	6481 (5311)
Seq/√Len:	335.9

ECOLI - CDAR
BACSU - YXKF PUCR YCGP ADER YSFB

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
165_G	177_H	5.420	1.00
244_N	254_K	5.257	1.00
233_E	236_K	3.063	1.00
279_S	282_G	3.050	1.00
270_I	276_D	2.939	1.00
257_L	261_S	2.749	1.00
236_K	240_L	2.621	1.00
251_T	262_L	2.618	1.00
257_L	262_L	2.604	1.00
238_I	269_F	2.401	1.00
53_F	56_P	2.382	1.00
243_E	254_K	2.382	1.00
240_L	244_N	2.353	1.00
93_F	97_H	2.323	1.00
163_Y	181_E	2.313	1.00
166_R	180_R	2.271	1.00
239_K	243_E	2.249	1.00
259_R	263_Q	2.248	1.00
281_K	291_L	2.246	1.00
163_Y	184_Y	2.172	1.00
244_N	251_T	2.154	1.00
219_L	223_E	2.142	1.00
250_L	253_K	2.080	1.00
275_I	282_G	1.947	1.00
87_I	91_T	1.910	1.00
270_I	277_I	1.904	1.00
128_R	182_Q	1.893	1.00
227_L	232_S	1.888	1.00
245_N	279_S	1.870	1.00
258_H	261_S	1.841	1.00
246_S	283_A	1.839	1.00
226_L	230_S	1.833	1.00
90_R	93_F	1.809	1.00
240_L	251_T	1.808	1.00
237_T	265_R	1.792	1.00
188_A	198_V	1.764	1.00
130_V	178_Y	1.763	1.00
199_T	202_M	1.723	1.00
168_Y	180_R	1.702	1.00
178_Y	182_Q	1.678	1.00
227_L	230_S	1.673	1.00
267_D	270_I	1.662	1.00
240_L	254_K	1.642	1.00
175_R	179_A	1.611	1.00
170_P	173_C	1.609	1.00
163_Y	185_F	1.609	1.00
173_C	176_K	1.594	1.00
269_F	273_S	1.591	1.00
283_A	287_Y	1.582	1.00
267_D	271_E	1.558	1.00
241_F	248_V	1.554	1.00
249_T	259_R	1.544	1.00
248_V	263_Q	1.541	1.00
242_I	283_A	1.511	1.00
273_S	282_G	1.497	1.00
249_T	263_Q	1.490	1.00
142_K	146_E	1.482	1.00
95_H	181_E	1.476	1.00
164_A	199_T	1.475	1.00
237_T	269_F	1.465	1.00
50_L	53_F	1.444	1.00
284_L	287_Y	1.442	1.00
89_K	93_F	1.427	1.00
249_T	253_K	1.418	1.00
275_I	285_L	1.402	1.00
237_T	251_T	1.390	1.00
104_R	108_T	1.388	1.00
108_T	112_R	1.381	1.00
237_T	262_L	1.381	1.00
268_K	271_E	1.370	1.00
226_L	232_S	1.368	1.00
244_N	250_L	1.341	1.00
64_S	67_S	1.341	1.00
270_I	278_K	1.339	1.00
250_L	254_K	1.332	1.00
241_F	246_S	1.331	1.00
75_S	125_H	1.330	1.00
166_R	201_E	1.317	1.00
168_Y	177_H	1.316	1.00
177_H	181_E	1.311	1.00
247_N	250_L	1.279	1.00
225_E	229_G	1.276	1.00
168_Y	173_C	1.267	1.00
92_R	97_H	1.263	1.00
234_L	237_T	1.257	1.00
97_H	189_E	1.254	1.00
240_L	255_L	1.232	1.00
91_T	95_H	1.227	1.00
76_F	81_G	1.227	1.00
88_K	91_T	1.223	1.00
146_E	150_K	1.204	1.00
255_L	262_L	1.195	1.00
264_Y	268_K	1.183	1.00
39_K	43_S	1.182	1.00
234_L	269_F	1.167	1.00
242_I	246_S	1.164	1.00
97_H	128_R	1.163	1.00
234_L	272_R	1.161	1.00
268_K	272_R	1.158	1.00
223_E	226_L	1.146	1.00
132_V	174_L	1.139	1.00
75_S	79_S	1.138	1.00
43_S	53_F	1.130	1.00
221_S	225_E	1.129	1.00
245_N	280_Y	1.111	1.00
220_L	224_A	1.103	1.00
43_S	47_V	1.091	1.00
239_K	293_N	1.075	1.00
147_S	151_V	1.050	1.00
260_N	263_Q	1.047	1.00
89_K	92_R	1.039	1.00
246_S	251_T	1.039	1.00
66_K	70_E	1.037	1.00
184_Y	188_A	1.035	1.00
49_V	57_A	1.033	1.00
219_L	222_E	1.031	1.00
183_A	211_T	1.031	1.00
225_E	228_F	1.020	1.00
82_E	86_Y	1.019	1.00
71_N	75_S	1.016	1.00
163_Y	188_A	1.015	1.00
248_V	266_I	1.012	1.00
243_E	287_Y	1.010	1.00
55_T	58_D	1.008	1.00
163_Y	180_R	1.006	1.00
97_H	161_R	1.003	1.00
142_K	199_T	1.003	1.00
43_S	50_L	1.002	1.00
97_H	185_F	0.994	1.00
93_F	177_H	0.985	1.00
247_N	259_R	0.982	1.00
239_K	291_L	0.977	1.00
206_F	281_K	0.976	1.00
111_V	114_F	0.969	1.00
287_Y	291_L	0.968	1.00
248_V	260_N	0.966	1.00
65_M	68_P	0.964	1.00
87_I	93_F	0.963	1.00
259_R	287_Y	0.963	1.00
204_F	207_L	0.957	1.00
114_F	117_V	0.955	1.00
241_F	266_I	0.947	1.00
247_N	262_L	0.945	1.00
228_F	232_S	0.944	1.00
112_R	116_P	0.943	1.00
122_V	131_I	0.942	1.00
91_T	97_H	0.929	1.00
68_P	71_N	0.927	1.00
235_R	290_C	0.920	1.00
240_L	243_E	0.915	1.00
235_R	293_N	0.913	1.00
110_A	113_H	0.913	1.00
91_T	98_L	0.905	1.00
243_E	291_L	0.902	1.00
235_R	239_K	0.900	1.00
96_F	162_F	0.899	1.00
99_F	161_R	0.898	1.00
266_I	269_F	0.891	1.00
142_K	145_L	0.889	1.00
50_L	54_L	0.888	1.00
205_P	288_F	0.883	1.00
282_G	285_L	0.877	1.00
164_A	197_S	0.874	1.00
168_Y	174_L	0.874	1.00
259_R	267_D	0.867	1.00
48_L	52_S	0.867	1.00
266_I	270_I	0.866	1.00
270_I	273_S	0.862	1.00
280_Y	287_Y	0.861	1.00
47_V	51_Q	0.861	1.00
218_T	222_E	0.859	1.00
216_L	292_Q	0.856	1.00
241_F	251_T	0.846	1.00
168_Y	176_K	0.840	1.00
217_E	220_L	0.840	1.00
184_Y	200_F	0.835	1.00
143_D	147_S	0.835	1.00
184_Y	203_I	0.834	1.00
68_P	72_K	0.830	1.00
39_K	42_I	0.829	1.00
142_K	202_M	0.824	1.00
92_R	135_E	0.823	1.00
242_I	287_Y	0.821	1.00
244_N	262_L	0.819	1.00
239_K	290_C	0.812	1.00
51_Q	54_L	0.810	1.00
56_P	59_E	0.810	1.00
64_S	68_P	0.808	1.00
150_K	154_S	0.806	1.00
238_I	242_I	0.799	1.00
281_K	285_L	0.785	1.00
220_L	223_E	0.778	1.00
217_E	223_E	0.778	1.00
43_S	51_Q	0.776	1.00
218_T	223_E	0.776	1.00
223_E	285_L	0.776	1.00
99_F	189_E	0.775	1.00
277_I	283_A	0.773	1.00
276_D	282_G	0.765	1.00
105_T	108_T	0.755	1.00
205_P	285_L	0.753	1.00
284_L	288_F	0.751	1.00
181_E	184_Y	0.751	1.00
125_H	130_V	0.749	1.00
256_H	264_Y	0.744	0.99
92_R	167_F	0.740	0.99
95_H	178_Y	0.739	0.99
83_L	86_Y	0.739	0.99
217_E	221_S	0.738	0.99
90_R	97_H	0.738	0.99
144_E	152_L	0.733	0.99
92_R	98_L	0.732	0.99
44_E	48_L	0.731	0.99
130_V	182_Q	0.727	0.99
218_T	221_S	0.724	0.99
278_K	283_A	0.719	0.99
237_T	257_L	0.718	0.99
277_I	282_G	0.717	0.99
247_N	263_Q	0.716	0.99
80_R	175_R	0.715	0.99
165_G	181_E	0.712	0.99
229_G	232_S	0.711	0.99
281_K	284_L	0.708	0.99
45_K	48_L	0.707	0.99
276_D	279_S	0.706	0.99
228_F	231_E	0.702	0.99
227_L	231_E	0.699	0.99
51_Q	55_T	0.697	0.99
51_Q	56_P	0.695	0.99
110_A	114_F	0.695	0.99
280_Y	283_A	0.694	0.99
50_L	56_P	0.694	0.99
41_E	45_K	0.690	0.99
69_E	72_K	0.688	0.99
146_E	149_A	0.687	0.99
208_L	219_L	0.681	0.99
205_P	284_L	0.679	0.99
280_Y	284_L	0.677	0.99
94_V	98_L	0.675	0.99
256_H	259_R	0.673	0.99
284_L	291_L	0.672	0.99
107_F	110_A	0.671	0.99
43_S	52_S	0.671	0.99
209_L	292_Q	0.669	0.99
236_K	239_K	0.669	0.99
245_N	283_A	0.669	0.99
150_K	153_E	0.667	0.99
273_S	286_A	0.666	0.99
149_A	162_F	0.663	0.99
91_T	96_F	0.663	0.99
216_L	219_L	0.661	0.99
209_L	288_F	0.659	0.99
207_L	211_T	0.659	0.99
206_F	291_L	0.657	0.99
179_A	182_Q	0.648	0.99
211_T	215_K	0.648	0.99
243_E	281_K	0.644	0.99
93_F	99_F	0.644	0.99
179_A	183_A	0.644	0.99
148_L	152_L	0.643	0.98
180_R	200_F	0.642	0.98
264_Y	271_E	0.642	0.98
107_F	111_V	0.639	0.98
58_D	64_S	0.639	0.98
94_V	164_A	0.636	0.98
91_T	94_V	0.631	0.98
45_K	49_V	0.630	0.98
53_F	57_A	0.628	0.98
42_I	46_E	0.627	0.98
117_V	120_V	0.625	0.98
88_K	93_F	0.624	0.98
151_V	155_D	0.622	0.98
176_K	180_R	0.622	0.98
103_E	106_S	0.622	0.98
109_E	112_R	0.622	0.98
46_E	49_V	0.621	0.98
162_F	197_S	0.620	0.98
45_K	56_P	0.619	0.98
106_S	110_A	0.619	0.98
161_R	189_E	0.619	0.98
200_F	207_L	0.618	0.98
248_V	258_H	0.618	0.98
213_K	217_E	0.618	0.98
204_F	285_L	0.615	0.98
94_V	133_E	0.614	0.98
113_H	117_V	0.612	0.98
216_L	220_L	0.610	0.98
49_V	58_D	0.608	0.98
110_A	115_W	0.608	0.98
45_K	55_T	0.604	0.98
43_S	56_P	0.603	0.98
182_Q	186_L	0.600	0.98
147_S	150_K	0.599	0.98
237_T	264_Y	0.597	0.98
237_T	255_L	0.594	0.97
149_A	153_E	0.593	0.97
203_I	207_L	0.593	0.97
259_R	262_L	0.591	0.97
230_S	268_K	0.591	0.97
203_I	206_F	0.587	0.97
62_Q	65_M	0.586	0.97
89_K	97_H	0.585	0.97
165_G	168_Y	0.583	0.97
143_D	146_E	0.580	0.97
88_K	92_R	0.580	0.97
77_L	171_D	0.577	0.97
124_I	129_G	0.576	0.97
58_D	63_L	0.575	0.97
123_W	129_G	0.572	0.97
124_I	128_R	0.569	0.97
87_I	92_R	0.569	0.97
93_F	96_F	0.567	0.97
124_I	127_D	0.567	0.97
256_H	261_S	0.567	0.97
54_L	58_D	0.566	0.97
269_F	286_A	0.564	0.97
45_K	53_F	0.564	0.97
153_E	196_Q	0.563	0.97
183_A	186_L	0.562	0.96
198_V	205_P	0.562	0.96
108_T	114_F	0.562	0.96
260_N	287_Y	0.560	0.96
282_G	286_A	0.560	0.96
89_K	98_L	0.554	0.96
248_V	259_R	0.553	0.96
93_F	181_E	0.551	0.96
169_E	173_C	0.550	0.96
95_H	182_Q	0.548	0.96
242_I	290_C	0.548	0.96
288_F	291_L	0.546	0.96
95_H	130_V	0.546	0.96
87_I	97_H	0.545	0.96
226_L	234_L	0.544	0.96
193_P	196_Q	0.544	0.96
223_E	282_G	0.544	0.96
144_E	148_L	0.544	0.96
137_E	140_A	0.543	0.96
123_W	127_D	0.542	0.96
123_W	126_E	0.540	0.96
87_I	98_L	0.538	0.96
48_L	51_Q	0.535	0.95
43_S	46_E	0.529	0.95
147_S	152_L	0.528	0.95
154_S	157_Y	0.528	0.95
107_F	115_W	0.528	0.95
106_S	109_E	0.527	0.95
40_T	44_E	0.527	0.95
54_L	59_E	0.526	0.95
251_T	259_R	0.525	0.95
85_A	172_E	0.525	0.95
116_P	119_F	0.523	0.95
106_S	113_H	0.523	0.95
187_F	191_R	0.523	0.95
142_K	147_S	0.522	0.95
246_S	278_K	0.522	0.95
43_S	48_L	0.521	0.95
277_I	286_A	0.521	0.95
188_A	192_L	0.521	0.95
198_V	203_I	0.518	0.95
75_S	123_W	0.517	0.94
223_E	275_I	0.517	0.94
109_E	113_H	0.516	0.94
248_V	251_T	0.515	0.94
258_H	264_Y	0.513	0.94
149_A	197_S	0.512	0.94
171_D	174_L	0.511	0.94
93_F	98_L	0.509	0.94
275_I	286_A	0.509	0.94
260_N	280_Y	0.508	0.94
260_N	292_Q	0.507	0.94
264_Y	273_S	0.506	0.94
115_W	118_S	0.505	0.94
226_L	233_E	0.504	0.94
42_I	45_K	0.504	0.94
104_R	118_S	0.500	0.93

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
3onqA	5	0.8081	100	0.406	Contact Map
3hvaA	1	0.4276	94.9	0.894	Contact Map
1al3A	1	0	94.7	0.895	Contact Map
4urgA	1	0.4613	94.3	0.896	Contact Map
4eu0A	1	0.5993	94.3	0.897	Contact Map
3hhgA	3	0.2323	94.2	0.897	Contact Map
3mz1A	2	0	94.1	0.897	Contact Map
1etoA	2	0.2525	94.1	0.897	Contact Map
3fzvA	4	0.2121	94.1	0.898	Contact Map
2esnA	3	0.2458	93.9	0.898	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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