YURN - BACSU - GREMLIN Contacts

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YURN - Probable ABC transporter permease protein YurN

UniProt:	O32155	Sequences: MVNQNKIIPYLFLVPALVFLLFVYIPIFENVFLSLFQWSSFSPEKTFIGLKNYVELFHDPVFYQALTNNVLYAVISIVCQVFGGLILAAVLEDKLVRKWSPFFRTVFFLPVVISMTVIALLFDFIYNPETGLLNQLLQAIGLDQLTRAWLGDDSTAMLSVIFVSQWQSVGYIAMLYIVSIQKIPDELYEAARLDGAGKIQQFFHITVPQTKEMSFVAVVMTLTGAFTVFNEPYILTGGGPGKASEVLSTFLYKSAFTKDMMGYASAIATVVLIITLALSLMQMKFFKTGKEE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	292 (251)
Sequences:	69309 (44333)
Seq/√Len:	2798.3

ECOLI - POTH YCJO UGPA YDCU POTB THIP PSTC UGPE PSTA MALF YDCV YNJC YCJP MALG POTI CYST POTC CYSW MODB SSUC YEHY TAUC YEHW PHNE METI PROW YECS
BACSU - YURN GANP AMYD MDXF YTEP ARAP LPLB YESP MDXG AMYC GANQ YURM YTCP YESQ ARAQ YQGH YQGI LPLC YVGM SSUC YTLD OPUAB METP TCYB YXEN TCYL OPUCB OPUBD OPUBB OPUCD ARTQ
HALSA - Q9HHQ7 Q9HMT4 Q9HP01 Q9HML6 Q9HP02 Q9HS11 Q9HR05 Q9HPK3 Q9HHQ6 Q9HNI9 Q9HS12 Q9HML7
SULSO - Q97UZ0 Q97YY2 Q97UF4 Q97ZT7 Q97ZC2 Q97UF3 Q97VC0 Q97YY3 Q97ZC1 Q97UY9 Q97Z98 Q97ZT6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
200_Q	204_H	3.903	1.00
67_T	71_L	3.158	1.00
192_R	201_Q	2.976	1.00
177_I	181_Q	2.974	1.00
64_Q	67_T	2.580	1.00
65_A	250_F	2.577	1.00
93_D	188_Y	2.537	1.00
179_S	213_M	2.495	1.00
75_I	161_I	2.479	1.00
34_S	53_Y	2.462	1.00
191_A	201_Q	2.460	1.00
188_Y	206_T	2.456	1.00
79_C	165_Q	2.451	1.00
245_E	253_K	2.426	1.00
197_G	200_Q	2.392	1.00
63_Y	67_T	2.298	1.00
51_K	54_V	2.288	1.00
77_I	218_V	2.264	1.00
198_K	201_Q	2.263	1.00
54_V	58_H	2.259	1.00
176_Y	214_S	2.194	1.00
51_K	55_E	2.161	1.00
260_M	263_Y	2.102	1.00
199_I	203_F	2.100	1.00
196_A	200_Q	2.037	1.00
200_Q	203_F	1.985	1.00
85_L	202_F	1.982	1.00
172_I	217_A	1.941	1.00
96_V	99_W	1.927	1.00
180_I	210_T	1.894	1.00
187_L	209_Q	1.889	1.00
71_L	157_M	1.882	1.00
92_E	181_Q	1.858	1.00
191_A	196_A	1.830	1.00
32_F	36_F	1.821	1.00
104_R	177_I	1.816	1.00
85_L	210_T	1.787	1.00
28_F	32_F	1.747	1.00
81_V	218_V	1.743	1.00
280_L	284_K	1.704	1.00
64_Q	68_N	1.690	1.00
192_R	198_K	1.683	1.00
188_Y	201_Q	1.668	1.00
84_G	172_I	1.654	1.00
73_A	222_L	1.653	1.00
76_S	225_A	1.646	1.00
55_E	263_Y	1.608	1.00
71_L	75_I	1.599	1.00
85_L	176_Y	1.587	1.00
91_L	173_A	1.577	1.00
87_L	173_A	1.570	1.00
188_Y	192_R	1.557	1.00
157_M	244_S	1.554	1.00
250_F	254_S	1.518	1.00
96_V	100_S	1.509	1.00
10_Y	14_V	1.471	1.00
25_I	29_E	1.445	1.00
185_D	188_Y	1.434	1.00
55_E	58_H	1.432	1.00
13_L	17_L	1.427	1.00
31_V	269_T	1.422	1.00
99_W	102_F	1.417	1.00
172_I	221_T	1.409	1.00
216_V	220_M	1.378	1.00
50_L	54_V	1.378	1.00
49_G	52_N	1.376	1.00
238_G	243_A	1.371	1.00
72_Y	246_V	1.365	1.00
231_E	235_L	1.358	1.00
180_I	206_T	1.350	1.00
88_A	176_Y	1.343	1.00
92_E	177_I	1.338	1.00
95_L	100_S	1.324	1.00
80_Q	221_T	1.321	1.00
207_V	214_S	1.320	1.00
10_Y	13_L	1.315	1.00
61_V	64_Q	1.305	1.00
176_Y	217_A	1.298	1.00
29_E	33_L	1.287	1.00
82_F	86_I	1.285	1.00
254_S	258_K	1.284	1.00
239_G	243_A	1.275	1.00
185_D	189_E	1.270	1.00
126_Y	159_S	1.258	1.00
229_F	233_Y	1.251	1.00
236_T	244_S	1.240	1.00
93_D	185_D	1.232	1.00
191_A	205_I	1.218	1.00
186_E	189_E	1.218	1.00
229_F	252_Y	1.215	1.00
163_V	235_L	1.213	1.00
69_N	247_L	1.211	1.00
89_A	180_I	1.206	1.00
254_S	260_M	1.197	1.00
85_L	214_S	1.194	1.00
102_F	105_T	1.175	1.00
37_Q	40_S	1.174	1.00
78_V	82_F	1.169	1.00
156_A	244_S	1.169	1.00
183_I	209_Q	1.166	1.00
245_E	250_F	1.165	1.00
75_I	78_V	1.155	1.00
40_S	47_F	1.133	1.00
211_K	215_F	1.125	1.00
81_V	214_S	1.118	1.00
197_G	201_Q	1.111	1.00
68_N	71_L	1.110	1.00
30_N	269_T	1.080	1.00
253_K	257_T	1.070	1.00
161_I	165_Q	1.057	1.00
176_Y	213_M	1.053	1.00
124_F	128_P	1.049	1.00
102_F	106_V	1.041	1.00
188_Y	198_K	1.039	1.00
246_V	249_T	1.036	1.00
175_L	217_A	1.031	1.00
79_C	161_I	1.027	1.00
160_V	232_P	1.025	1.00
169_V	173_A	1.022	1.00
75_I	79_C	1.014	1.00
209_Q	212_E	1.006	1.00
245_E	249_T	1.006	1.00
57_F	63_Y	1.003	1.00
76_S	80_Q	1.003	1.00
250_F	267_I	1.002	1.00
89_A	202_F	1.001	1.00
92_E	180_I	0.999	1.00
281_M	285_F	0.995	1.00
157_M	161_I	0.991	1.00
89_A	198_K	0.989	1.00
76_S	164_S	0.984	1.00
228_V	231_E	0.982	1.00
232_P	246_V	0.980	1.00
86_I	90_V	0.972	1.00
9_P	13_L	0.969	1.00
29_E	32_F	0.969	1.00
53_Y	269_T	0.958	1.00
14_V	17_L	0.957	1.00
158_L	162_F	0.955	1.00
100_S	181_Q	0.951	1.00
66_L	247_L	0.948	1.00
255_A	264_A	0.945	1.00
196_A	201_Q	0.940	1.00
233_Y	249_T	0.938	1.00
70_V	74_V	0.935	1.00
14_V	18_V	0.932	1.00
78_V	218_V	0.927	1.00
201_Q	204_H	0.927	1.00
71_L	158_L	0.926	1.00
228_V	232_P	0.920	1.00
76_S	161_I	0.917	1.00
33_L	36_F	0.917	1.00
68_N	157_M	0.916	1.00
55_E	59_D	0.901	1.00
38_W	42_S	0.900	1.00
88_A	92_E	0.898	1.00
122_F	235_L	0.890	1.00
20_L	24_Y	0.890	1.00
238_G	244_S	0.887	1.00
72_Y	157_M	0.875	1.00
122_F	163_V	0.874	1.00
62_F	267_I	0.872	1.00
74_V	78_V	0.869	1.00
164_S	225_A	0.866	1.00
36_F	40_S	0.866	1.00
90_V	96_V	0.865	1.00
108_F	174_M	0.860	1.00
142_L	158_L	0.856	1.00
176_Y	210_T	0.855	1.00
101_P	104_R	0.853	1.00
71_L	74_V	0.852	1.00
115_M	167_Q	0.852	1.00
172_I	176_Y	0.847	1.00
33_L	265_S	0.847	1.00
250_F	253_K	0.843	1.00
72_Y	164_S	0.836	1.00
39_S	42_S	0.835	1.00
66_L	70_V	0.834	1.00
179_S	210_T	0.833	1.00
211_K	214_S	0.832	1.00
163_V	231_E	0.831	1.00
79_C	82_F	0.828	1.00
98_K	101_P	0.826	1.00
13_L	16_A	0.825	1.00
88_A	173_A	0.825	1.00
210_T	213_M	0.822	1.00
80_Q	84_G	0.821	1.00
56_L	270_V	0.820	1.00
91_L	104_R	0.811	1.00
84_G	173_A	0.811	1.00
35_L	48_I	0.811	1.00
281_M	284_K	0.807	1.00
201_Q	206_T	0.803	1.00
123_D	127_N	0.798	1.00
203_F	207_V	0.797	1.00
202_F	207_V	0.796	1.00
196_A	204_H	0.794	1.00
221_T	225_A	0.793	1.00
254_S	267_I	0.787	1.00
88_A	180_I	0.785	1.00
277_A	281_M	0.784	1.00
254_S	263_Y	0.783	1.00
275_T	279_S	0.780	1.00
52_N	262_G	0.777	1.00
95_L	99_W	0.777	1.00
141_G	144_Q	0.770	1.00
158_L	161_I	0.769	1.00
11_L	15_P	0.766	1.00
34_S	38_W	0.764	1.00
59_D	63_Y	0.763	1.00
119_A	230_N	0.762	1.00
30_N	265_S	0.762	1.00
12_F	16_A	0.759	1.00
33_L	37_Q	0.757	1.00
80_Q	168_S	0.754	1.00
67_T	70_V	0.754	1.00
239_G	245_E	0.753	1.00
263_Y	267_I	0.752	1.00
198_K	202_F	0.747	1.00
48_I	51_K	0.743	1.00
282_Q	285_F	0.738	1.00
11_L	14_V	0.737	1.00
75_I	165_Q	0.735	1.00
187_L	205_I	0.733	1.00
119_A	234_I	0.728	1.00
81_V	176_Y	0.725	1.00
252_Y	256_F	0.724	1.00
202_F	206_T	0.723	1.00
65_A	68_N	0.717	1.00
65_A	247_L	0.714	1.00
77_I	222_L	0.712	1.00
84_G	176_Y	0.711	1.00
52_N	55_E	0.710	1.00
80_Q	172_I	0.709	1.00
60_P	64_Q	0.708	1.00
50_L	53_Y	0.708	1.00
25_I	28_F	0.706	1.00
183_I	210_T	0.705	1.00
108_F	111_V	0.705	1.00
36_F	45_K	0.705	1.00
118_I	166_W	0.701	1.00
37_Q	47_F	0.701	1.00
156_A	159_S	0.701	1.00
265_S	269_T	0.701	1.00
228_V	246_V	0.695	1.00
55_E	260_M	0.694	1.00
247_L	271_V	0.694	1.00
249_T	253_K	0.690	1.00
190_A	194_D	0.686	1.00
115_M	230_N	0.685	1.00
95_L	98_K	0.684	1.00
80_Q	225_A	0.681	1.00
40_S	46_T	0.681	1.00
30_N	268_A	0.679	1.00
168_S	221_T	0.679	1.00
251_L	267_I	0.676	1.00
214_S	217_A	0.669	1.00
211_K	285_F	0.668	1.00
124_F	127_N	0.668	1.00
73_A	77_I	0.666	1.00
185_D	192_R	0.663	1.00
248_S	271_V	0.662	1.00
265_S	268_A	0.662	1.00
35_L	49_G	0.661	1.00
54_V	57_F	0.661	1.00
37_Q	46_T	0.661	1.00
91_L	103_F	0.661	1.00
168_S	224_G	0.660	1.00
94_K	100_S	0.659	1.00
26_P	30_N	0.658	1.00
176_Y	180_I	0.658	1.00
91_L	177_I	0.657	1.00
206_T	209_Q	0.656	1.00
159_S	163_V	0.655	1.00
190_A	193_L	0.652	1.00
239_G	244_S	0.644	1.00
40_S	43_P	0.643	1.00
213_M	217_A	0.641	1.00
63_Y	66_L	0.637	1.00
87_L	169_V	0.635	1.00
83_G	165_Q	0.632	1.00
160_V	236_T	0.629	1.00
19_F	23_V	0.626	1.00
77_I	81_V	0.624	1.00
214_S	218_V	0.623	1.00
87_L	107_F	0.619	1.00
56_L	263_Y	0.618	1.00
99_W	103_F	0.617	1.00
271_V	275_T	0.614	1.00
33_L	38_W	0.613	1.00
69_N	226_F	0.611	1.00
47_F	51_K	0.610	1.00
72_Y	161_I	0.608	1.00
107_F	170_G	0.605	1.00
69_N	248_S	0.604	1.00
236_T	245_E	0.602	1.00
230_N	234_I	0.597	1.00
262_G	265_S	0.596	1.00
159_S	235_L	0.595	1.00
49_G	53_Y	0.595	1.00
20_L	23_V	0.592	1.00
61_V	250_F	0.592	1.00
68_N	244_S	0.592	1.00
15_P	18_V	0.591	1.00
90_V	94_K	0.589	1.00
47_F	50_L	0.589	1.00
72_Y	160_V	0.588	1.00
276_L	280_L	0.588	1.00
104_R	174_M	0.588	1.00
73_A	225_A	0.587	1.00
80_Q	165_Q	0.587	1.00
127_N	143_D	0.586	1.00
232_P	249_T	0.583	1.00
263_Y	266_A	0.582	1.00
105_T	109_L	0.580	1.00
140_I	143_D	0.579	1.00
116_T	234_I	0.579	1.00
98_K	102_F	0.577	1.00
39_S	43_P	0.576	1.00
261_M	265_S	0.576	1.00
56_L	267_I	0.576	1.00
34_S	269_T	0.572	1.00
72_Y	76_S	0.571	1.00
175_L	213_M	0.570	1.00
111_V	170_G	0.570	1.00
101_P	105_T	0.568	1.00
24_Y	28_F	0.568	1.00
60_P	63_Y	0.568	1.00
53_Y	266_A	0.567	1.00
61_V	245_E	0.565	1.00
203_F	206_T	0.564	1.00
36_F	47_F	0.563	1.00
111_V	171_Y	0.563	1.00
89_A	206_T	0.560	1.00
12_F	15_P	0.559	1.00
223_T	227_T	0.559	1.00
274_I	277_A	0.556	1.00
224_G	227_T	0.555	1.00
249_T	252_Y	0.550	1.00
261_M	264_A	0.550	1.00
279_S	283_M	0.550	1.00
164_S	228_V	0.548	1.00
81_V	85_L	0.547	1.00
122_F	125_I	0.546	1.00
34_S	266_A	0.546	1.00
215_F	218_V	0.545	1.00
17_L	21_L	0.543	1.00
218_V	221_T	0.542	1.00
83_G	169_V	0.542	1.00
57_F	60_P	0.541	1.00
38_W	45_K	0.540	1.00
201_Q	205_I	0.539	1.00
110_P	170_G	0.537	1.00
280_L	283_M	0.532	1.00
106_V	110_P	0.530	1.00
77_I	225_A	0.529	1.00
230_N	233_Y	0.529	1.00
76_S	165_Q	0.527	1.00
36_F	46_T	0.527	1.00
87_L	90_V	0.527	1.00
123_D	143_D	0.526	1.00
73_A	226_F	0.526	1.00
167_Q	231_E	0.525	1.00
88_A	177_I	0.524	1.00
160_V	164_S	0.523	1.00
119_A	123_D	0.518	1.00
21_L	25_I	0.516	1.00
225_A	228_V	0.516	1.00
68_N	246_V	0.514	1.00
81_V	86_I	0.512	1.00
197_G	203_F	0.512	1.00
183_I	188_Y	0.507	1.00
26_P	31_V	0.504	1.00
104_R	181_Q	0.504	1.00
277_A	280_L	0.503	1.00
17_L	20_L	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
4tquM	1	0.9486	100	0.288	Contact Map
2onkC	2	0.8459	100	0.315	Contact Map
3d31C	2	0.8493	100	0.338	Contact Map
3rlfF	1	0.9349	100	0.34	Contact Map
3rlfG	1	0.9075	100	0.373	Contact Map
4tquN	1	0.8836	100	0.38	Contact Map
4ymuD	2	0.7363	99.9	0.503	Contact Map
3tuiA	2	0.7192	99.9	0.519	Contact Map
2m20A	2	0.1233	17.5	0.944	Contact Map
2mfrA	1	0.161	16.5	0.945	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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