YLXH - BACSU - GREMLIN Contacts

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YLXH - Flagellum site-determining protein YlxH

UniProt:	P40742	Sequences: MQMNRYDQAATLRAKMEKRERVLPMVYSQKAKTLAVISGKGGVGKSNITLNMALALQDKGKKVLLIDLDIGMGNIDILIGNSSSATIIDVLTDRKPLLQSLSVGPKGLRYISGGTGLDVMFQLDQRKWTFFANELSHALSQFDYVLFDMGAGLSKDQLPFILSAEDILIITTPEPTAIMDAYSAVKHLVLTENKLSMKVAVNRCRDQKEGLDAFARLSRTIHMFLDVQVQFAGSVSDDVIVSKAVVEQVPFFIKSPQAKASRSVRILADALFEREETRHKEDKQTFIEKLSSFLMRRA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	298 (235)
Sequences:	15465 (9796)
Seq/√Len:	639.0

ECOLI - BCSQ MIND MRP
BACSU - YLXH SOJ MIND SALA YWQD YVEL
HALSA - Q9HHZ7 Q9HQY5 Q9HNF1 O54573 Q9HHU2 O51969 Q9HQJ7 O51991 Q9HHL5
SULSO - Q97ZW4 Q981B3 Q97VX7 Q97WA2 Q97YM8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
109_R	142_F	4.164	1.00
236_S	263_S	3.882	1.00
49_T	146_L	3.593	1.00
59_K	269_D	3.161	1.00
56_L	144_Y	2.871	1.00
48_I	264_V	2.850	1.00
250_P	253_I	2.805	1.00
61_K	144_Y	2.796	1.00
35_A	164_A	2.792	1.00
32_K	166_D	2.543	1.00
64_L	142_F	2.493	1.00
203_R	237_D	2.443	1.00
172_T	203_R	2.380	1.00
65_L	75_I	2.214	1.00
50_L	75_I	2.121	1.00
103_V	109_R	2.098	1.00
49_T	65_L	2.093	1.00
36_V	52_M	2.051	1.00
78_L	176_T	2.030	1.00
58_D	265_R	2.023	1.00
55_A	268_A	2.014	1.00
48_I	200_A	1.995	1.00
53_A	65_L	1.985	1.00
218_S	222_H	1.956	1.00
55_A	252_F	1.937	1.00
240_I	243_K	1.934	1.00
200_A	267_L	1.893	1.00
62_K	143_D	1.880	1.00
59_K	265_R	1.838	1.00
128_W	131_F	1.763	1.00
205_R	237_D	1.755	1.00
57_Q	108_L	1.698	1.00
77_I	179_M	1.654	1.00
233_G	270_A	1.651	1.00
128_W	132_A	1.648	1.00
56_L	146_L	1.644	1.00
98_L	141_Q	1.626	1.00
53_A	146_L	1.583	1.00
61_K	272_F	1.581	1.00
33_T	147_F	1.565	1.00
166_D	197_M	1.556	1.00
238_D	260_A	1.538	1.00
124_D	128_W	1.523	1.00
68_L	160_F	1.518	1.00
50_L	78_L	1.500	1.00
129_T	132_A	1.496	1.00
36_V	168_L	1.495	1.00
233_G	267_L	1.489	1.00
57_Q	107_G	1.471	1.00
52_M	271_L	1.467	1.00
68_L	147_F	1.430	1.00
35_A	149_M	1.427	1.00
214_F	217_L	1.415	1.00
96_P	99_Q	1.410	1.00
222_H	225_L	1.383	1.00
79_I	108_L	1.372	1.00
166_D	198_K	1.372	1.00
52_M	268_A	1.366	1.00
36_V	49_T	1.353	1.00
219_R	222_H	1.344	1.00
232_A	270_A	1.342	1.00
61_K	143_D	1.332	1.00
124_D	127_K	1.320	1.00
204_C	234_S	1.297	1.00
32_K	165_E	1.296	1.00
86_T	89_D	1.291	1.00
235_V	260_A	1.289	1.00
241_V	260_A	1.288	1.00
167_I	188_L	1.287	1.00
68_L	87_I	1.283	1.00
168_L	200_A	1.279	1.00
119_V	122_Q	1.279	1.00
37_I	184_A	1.275	1.00
95_K	99_Q	1.269	1.00
44_G	202_N	1.267	1.00
258_A	261_S	1.264	1.00
53_A	75_I	1.249	1.00
262_R	265_R	1.246	1.00
173_P	201_V	1.245	1.00
50_L	79_I	1.237	1.00
48_I	202_N	1.224	1.00
73_G	76_D	1.222	1.00
74_N	180_D	1.217	1.00
240_I	255_S	1.215	1.00
130_F	134_E	1.211	1.00
129_T	133_N	1.196	1.00
249_V	254_K	1.194	1.00
222_H	234_S	1.193	1.00
81_N	110_Y	1.182	1.00
119_V	123_L	1.178	1.00
201_V	218_S	1.174	1.00
239_V	243_K	1.174	1.00
219_R	223_M	1.158	1.00
59_K	272_F	1.144	1.00
238_D	258_A	1.134	1.00
115_T	183_S	1.126	1.00
120_M	123_L	1.117	1.00
53_A	108_L	1.112	1.00
220_T	223_M	1.110	1.00
55_A	265_R	1.101	1.00
231_F	234_S	1.090	1.00
64_L	101_L	1.089	1.00
48_I	52_M	1.086	1.00
56_L	63_V	1.080	1.00
46_S	75_I	1.080	1.00
174_E	177_A	1.078	1.00
85_A	89_D	1.076	1.00
202_N	264_V	1.066	1.00
97_L	111_I	1.062	1.00
46_S	78_L	1.055	1.00
110_Y	115_T	1.050	1.00
56_L	268_A	1.049	1.00
126_R	130_F	1.043	1.00
213_A	217_L	1.042	1.00
37_I	149_M	1.038	1.00
34_L	144_Y	1.033	1.00
31_A	139_L	1.032	1.00
64_L	145_V	1.017	1.00
269_D	273_E	1.009	1.00
36_V	48_I	1.007	1.00
99_Q	102_S	1.002	1.00
243_K	247_E	0.999	1.00
263_S	266_I	0.998	1.00
206_D	215_A	0.995	1.00
109_R	140_S	0.995	1.00
176_T	245_V	0.993	1.00
174_E	242_S	0.991	1.00
126_R	129_T	0.989	1.00
144_Y	272_F	0.989	1.00
266_I	269_D	0.987	1.00
266_I	270_A	0.986	1.00
149_M	160_F	0.986	1.00
265_R	269_D	0.984	1.00
259_K	262_R	0.979	1.00
256_P	261_S	0.977	1.00
166_D	195_L	0.971	1.00
249_V	253_I	0.967	1.00
218_S	225_L	0.966	1.00
101_L	109_R	0.964	1.00
51_N	54_L	0.962	1.00
47_N	241_V	0.956	1.00
74_N	176_T	0.951	1.00
55_A	59_K	0.941	1.00
235_V	263_S	0.940	1.00
85_A	95_K	0.936	1.00
79_I	110_Y	0.934	1.00
221_I	225_L	0.933	1.00
90_V	100_S	0.923	1.00
73_G	113_G	0.923	1.00
54_L	58_D	0.912	1.00
51_N	252_F	0.911	1.00
98_L	102_S	0.909	1.00
34_L	271_L	0.885	1.00
201_V	204_C	0.885	1.00
62_K	141_Q	0.880	1.00
127_K	130_F	0.880	1.00
70_I	156_D	0.874	1.00
267_L	271_L	0.869	1.00
219_R	225_L	0.859	1.00
170_I	202_N	0.859	1.00
100_S	111_I	0.859	1.00
33_T	145_V	0.858	1.00
206_D	209_E	0.851	1.00
186_K	189_V	0.849	1.00
220_T	225_L	0.849	1.00
36_V	146_L	0.848	1.00
34_L	166_D	0.845	1.00
66_I	147_F	0.841	1.00
252_F	265_R	0.841	1.00
189_V	193_N	0.836	1.00
131_F	134_E	0.832	1.00
125_Q	128_W	0.828	1.00
58_D	252_F	0.825	1.00
33_T	139_L	0.824	1.00
260_A	263_S	0.814	1.00
66_I	145_V	0.812	1.00
37_I	157_Q	0.808	1.00
95_K	98_L	0.808	1.00
93_D	96_P	0.807	1.00
247_E	254_K	0.807	1.00
51_N	250_P	0.806	1.00
251_F	261_S	0.804	1.00
214_F	218_S	0.804	1.00
88_I	92_T	0.796	1.00
95_K	100_S	0.789	1.00
58_D	253_I	0.788	1.00
169_I	185_V	0.785	1.00
40_K	45_K	0.785	1.00
213_A	216_R	0.784	1.00
104_G	110_Y	0.783	1.00
208_K	214_F	0.782	1.00
51_N	264_V	0.780	1.00
160_F	164_A	0.779	1.00
39_G	187_H	0.776	1.00
127_K	131_F	0.773	1.00
47_N	245_V	0.773	1.00
169_I	181_A	0.772	1.00
131_F	135_L	0.770	1.00
43_V	177_A	0.769	1.00
31_A	145_V	0.769	1.00
173_P	204_C	0.766	1.00
198_K	231_F	0.765	1.00
218_S	234_S	0.764	1.00
238_D	259_K	0.763	1.00
132_A	135_L	0.759	1.00
54_L	252_F	0.758	1.00
168_L	271_L	0.757	1.00
33_T	165_E	0.753	1.00
220_T	224_F	0.753	1.00
55_A	264_V	0.751	1.00
99_Q	103_V	0.750	1.00
128_W	134_E	0.749	1.00
76_D	114_G	0.745	1.00
172_T	177_A	0.741	1.00
54_L	108_L	0.735	1.00
87_I	111_I	0.734	1.00
87_I	90_V	0.733	1.00
45_K	151_A	0.733	1.00
62_K	109_R	0.729	1.00
255_S	258_A	0.727	1.00
149_M	157_Q	0.722	1.00
109_R	112_S	0.721	1.00
48_I	170_I	0.714	1.00
217_L	221_I	0.711	1.00
105_P	253_I	0.709	1.00
63_V	143_D	0.705	1.00
77_I	175_P	0.702	1.00
32_K	144_Y	0.699	1.00
129_T	135_L	0.693	1.00
221_I	224_F	0.693	1.00
125_Q	129_T	0.690	1.00
63_V	108_L	0.690	1.00
71_G	154_S	0.689	1.00
68_L	156_D	0.689	1.00
158_L	187_H	0.687	1.00
259_K	263_S	0.687	1.00
124_D	132_A	0.686	1.00
262_R	266_I	0.686	1.00
142_F	145_V	0.682	1.00
154_S	157_Q	0.678	1.00
236_S	259_K	0.678	1.00
139_L	165_E	0.676	1.00
123_L	126_R	0.673	1.00
54_L	253_I	0.671	1.00
101_L	142_F	0.670	1.00
98_L	101_L	0.669	1.00
55_A	261_S	0.669	1.00
216_R	219_R	0.668	1.00
128_W	135_L	0.666	1.00
270_A	274_R	0.661	1.00
86_T	114_G	0.661	1.00
75_I	110_Y	0.659	1.00
31_A	141_Q	0.659	1.00
74_N	179_M	0.655	1.00
76_D	112_S	0.655	1.00
218_S	221_I	0.653	1.00
65_L	79_I	0.652	1.00
73_G	114_G	0.646	1.00
244_A	251_F	0.645	1.00
218_S	224_F	0.643	1.00
252_F	261_S	0.642	1.00
38_S	43_V	0.640	1.00
55_A	58_D	0.639	1.00
60_G	107_G	0.634	1.00
35_A	160_F	0.634	1.00
261_S	265_R	0.631	1.00
244_A	254_K	0.630	1.00
52_M	267_L	0.625	1.00
205_R	214_F	0.625	1.00
209_E	215_A	0.622	1.00
146_L	271_L	0.622	1.00
40_K	43_V	0.622	1.00
49_T	75_I	0.621	1.00
257_Q	262_R	0.617	1.00
182_Y	186_K	0.614	1.00
208_K	239_V	0.613	1.00
85_A	100_S	0.611	1.00
215_A	219_R	0.610	1.00
68_L	128_W	0.609	1.00
85_A	99_Q	0.605	1.00
201_V	221_I	0.602	1.00
198_K	232_A	0.601	1.00
205_R	239_V	0.598	1.00
54_L	250_P	0.596	1.00
243_K	254_K	0.594	1.00
48_I	235_V	0.594	1.00
183_S	186_K	0.590	1.00
90_V	111_I	0.588	1.00
223_M	226_D	0.585	1.00
35_A	167_I	0.585	1.00
270_A	273_E	0.580	1.00
97_L	101_L	0.579	1.00
241_V	245_V	0.574	1.00
166_D	196_S	0.574	1.00
33_T	164_A	0.572	1.00
175_P	179_M	0.571	1.00
71_G	151_A	0.571	1.00
109_R	141_Q	0.570	1.00
94_R	98_L	0.568	1.00
201_V	234_S	0.568	1.00
199_V	225_L	0.566	1.00
235_V	267_L	0.562	1.00
40_K	176_T	0.560	1.00
39_G	184_A	0.560	1.00
239_V	242_S	0.560	1.00
63_V	146_L	0.559	1.00
231_F	270_A	0.558	1.00
161_I	192_E	0.558	1.00
63_V	144_Y	0.557	1.00
244_A	250_P	0.553	1.00
101_L	111_I	0.553	1.00
222_H	232_A	0.553	1.00
256_P	262_R	0.552	1.00
139_L	145_V	0.550	1.00
175_P	246_V	0.550	1.00
32_K	197_M	0.547	1.00
124_D	156_D	0.545	1.00
147_F	160_F	0.543	1.00
65_L	110_Y	0.537	0.99
104_G	107_G	0.536	0.99
120_M	124_D	0.536	0.99
50_L	65_L	0.536	0.99
111_I	115_T	0.532	0.99
74_N	77_I	0.531	0.99
89_D	94_R	0.530	0.99
121_F	155_K	0.528	0.99
77_I	176_T	0.528	0.99
155_K	158_L	0.526	0.99
31_A	62_K	0.525	0.99
122_Q	128_W	0.524	0.99
122_Q	125_Q	0.522	0.99
123_L	127_K	0.519	0.99
129_T	163_S	0.518	0.99
62_K	142_F	0.517	0.99
97_L	100_S	0.515	0.99
38_S	45_K	0.515	0.99
153_L	187_H	0.515	0.99
240_I	258_A	0.513	0.99
244_A	249_V	0.513	0.99
251_F	260_A	0.509	0.99
188_L	194_K	0.508	0.99
251_F	254_K	0.508	0.99
37_I	161_I	0.507	0.99
216_R	220_T	0.507	0.99
56_L	272_F	0.506	0.99
182_Y	226_D	0.506	0.99
59_K	268_A	0.505	0.99
51_N	251_F	0.504	0.99
35_A	147_F	0.504	0.99
32_K	61_K	0.503	0.99
155_K	159_P	0.503	0.99
197_M	231_F	0.500	0.99

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
4rz3A	2	0.8154	100	0.302	Contact Map
1hyqA	1	0.7752	100	0.348	Contact Map
4pfsA	1	0.7785	100	0.363	Contact Map
1g3qA	1	0.7886	100	0.376	Contact Map
3ea0A	2	0.7819	100	0.385	Contact Map
1wcv1	2	0.7953	100	0.386	Contact Map
3pg5A	2	0.7248	100	0.387	Contact Map
3fwyA	2	0.8389	100	0.395	Contact Map
3q9lA	2	0.8188	100	0.402	Contact Map
2ynmA	2	0.8356	100	0.406	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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