YFIL - BACSU - GREMLIN Contacts

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YFIL - Uncharacterized ABC transporter ATP-binding protein YfiL

UniProt:	P94440	Sequences: MLQAENIKKAYGKKTIVKGISFSLKKGESFGLLGPNGAGKSTTISMISGLVPHDSGNITVGGYVIGKETAKAKQKIGIVPQEIALYPTLTAHENLMFWGKMYGLTHGEAKKRAAEVLEYVGLTERAKDKIETFSGGMKRRINIGAALMHKPELLIMDEPTVGIDPQSRNHILETVKQLNETGMTVIYTSHYMEEVEFLCDRIGIIDQGEMIAIGTKTDLCSRLGGDTIIQLTVSGINEAFLVAIRSLAHVNDVTVHELELKIDISAAHHEKVVTSLLAEATAHHINLLSLQVQEPNLERLFLNLTGRTLRD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	311 (243)
Sequences:	70672 (42961)
Seq/√Len:	2755.9

ECOLI - YADG METN PROV MALK FBPC POTG POTA UGPC YCJV CYSA YDCT YEHX MACB RBSA ARAG DPPF OPPF OPPD MODC DPPD DDPD SAPD DDPF MLAF FEPC TAUB YHES YTFR HISP YECC UUP SAPF GSIA FECE LSRA YPHE FHUC NIKE PHNC GLNQ LPTB CYDC MDLB MDLA YHDZ GLTL SSUB MSBA CYDD XYLG LIVG YOJI PHNK ARTP ALSA LIVF SUFC FTSE ZNUC MGLA MODF THIQ PSTB BTUD LOLD ETTA NIKD FETA YBBA CCMA PHNL YNJD YDDA YBHF YEJF YHIH YBIT
BACSU - YFIL YVRA YXLF YDBJ METN YCBN OPUCA OPUBA YHAQ YHCH OPUAA YVFR MSMX TAGH YURJ OPPD YKFD YTRB RBSA APPF OPPF APPD YFMM DPPD YKPA ECFA1 YFMF YUSV ECSA TCYN FHUC YCLP YLMA YFMR SKFE NATA SUFC YXEO YFIC YHEH BCEA YFIB GLNQ YXDL YGAD YTLC TCYC YVCR YDIF YKNV ECFA2 ARTM FTSE YKNU BMRA YWJA SUNT ALBC CYDD YHEI YKOD YTHP YVRO CYDC PSTB1 MNTB SSUB PSTB2 YJKB YKNY ZNUC YUFO YYBJ YCLH YHCG EXPZ YTRE YYDI
HALSA - Q9HMU8 BTUDA Q9HHQ5 Q9HMX3 Q9HRJ6 Q9HMW0 Q9HNZ9 Q9HR06 Q9HRH8 Q9HMT3 Q9HMX2 Q9HMG1 Q9HHM2 PHNC PSTB2 Q9HMG6 Q9HSQ7 Q9HNY3 Y2317 Q9HRZ9 Y1631 Q9HRV7 PSTB1 Q9HHR7 Q9HS04 Q9HR96 Q9HR21 Q9HQA8 Q9HT03 Q9HMC1 Q9HMW1
SULSO - Q7LX64 Q97UF2 Q97VH6 Q97YY4 Q97UY8 Q97YK2 Q97X18 Q97VC1 Q97ZC0 Q97VF5 Q97YQ7 Q97VK8 Q97UH3 Q97VK9 Q97UD4 Q97YP7 Q97YP3 Q97YP8 Q97UJ9 Q97VF4 Q97Z03 Q97U54 Q97UH4 Y2030 Y1893 Q7LY07 Q980W0 Q97V01 Q97W42 PSTB Q97V00 Q7LXM4 Q97VM2 Q97VY4 Q7LX80 Q97Z56 Q97YP4 Q97UG5 Q97Z96 Q97UC2 Q97ZU0 Q980K5 Q980E6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
28_E	201_R	3.691	1.00
75_K	152_E	3.224	1.00
6_N	19_G	3.131	1.00
3_Q	23_S	3.053	1.00
15_T	18_K	2.999	1.00
5_E	57_N	2.948	1.00
30_F	203_G	2.930	1.00
125_R	128_D	2.705	1.00
31_G	199_C	2.667	1.00
57_N	64_V	2.584	1.00
201_R	213_I	2.514	1.00
9_K	46_M	2.484	1.00
25_K	28_E	2.426	1.00
10_A	15_T	2.421	1.00
3_Q	59_T	2.368	1.00
215_T	218_D	2.354	1.00
18_K	209_E	2.325	1.00
214_G	218_D	2.234	1.00
203_G	210_M	2.208	1.00
61_G	152_E	2.173	1.00
8_K	55_S	2.142	1.00
8_K	19_G	2.131	1.00
105_T	108_E	2.109	1.00
119_Y	181_T	2.099	1.00
26_K	152_E	2.057	1.00
8_K	15_T	2.028	1.00
4_A	7_I	2.015	1.00
177_Q	180_E	1.988	1.00
112_R	150_K	1.930	1.00
5_E	59_T	1.917	1.00
112_R	115_E	1.859	1.00
189_S	195_V	1.836	1.00
44_I	188_T	1.822	1.00
203_G	213_I	1.814	1.00
91_A	133_F	1.810	1.00
114_A	126_A	1.798	1.00
196_E	217_T	1.789	1.00
68_E	71_K	1.749	1.00
92_H	126_A	1.741	1.00
11_Y	42_T	1.729	1.00
92_H	127_K	1.676	1.00
214_G	219_L	1.647	1.00
128_D	132_T	1.620	1.00
176_K	197_F	1.590	1.00
44_I	155_I	1.586	1.00
115_E	119_Y	1.551	1.00
6_N	21_S	1.551	1.00
119_Y	180_E	1.546	1.00
11_Y	16_I	1.544	1.00
116_V	148_M	1.530	1.00
150_K	183_M	1.521	1.00
96_M	109_A	1.520	1.00
64_V	67_K	1.520	1.00
9_K	54_D	1.504	1.00
61_G	75_K	1.472	1.00
92_H	96_M	1.455	1.00
110_K	114_A	1.454	1.00
4_A	22_F	1.448	1.00
63_Y	71_K	1.447	1.00
9_K	51_V	1.439	1.00
28_E	200_D	1.419	1.00
118_E	123_T	1.407	1.00
96_M	113_A	1.405	1.00
117_L	126_A	1.405	1.00
8_K	18_K	1.373	1.00
31_G	195_V	1.370	1.00
119_Y	177_Q	1.353	1.00
30_F	213_I	1.341	1.00
22_F	203_G	1.337	1.00
7_I	53_H	1.325	1.00
125_R	133_F	1.291	1.00
218_D	222_R	1.281	1.00
178_L	183_M	1.279	1.00
150_K	181_T	1.276	1.00
90_T	93_E	1.249	1.00
24_L	30_F	1.249	1.00
17_V	46_M	1.239	1.00
100_K	109_A	1.234	1.00
20_I	43_T	1.233	1.00
89_L	93_E	1.203	1.00
172_L	194_E	1.202	1.00
5_E	23_S	1.200	1.00
4_A	47_I	1.200	1.00
156_M	185_V	1.199	1.00
81_Q	135_G	1.193	1.00
95_L	117_L	1.192	1.00
10_A	54_D	1.185	1.00
59_T	64_V	1.183	1.00
49_G	52_P	1.153	1.00
32_L	186_I	1.145	1.00
29_S	179_N	1.138	1.00
22_F	43_T	1.136	1.00
25_K	201_R	1.128	1.00
111_K	115_E	1.118	1.00
226_D	229_I	1.116	1.00
79_V	156_M	1.110	1.00
30_F	201_R	1.109	1.00
10_A	13_K	1.103	1.00
94_N	145_A	1.101	1.00
92_H	110_K	1.094	1.00
96_M	110_K	1.081	1.00
90_T	127_K	1.078	1.00
176_K	179_N	1.076	1.00
5_E	21_S	1.075	1.00
108_E	111_K	1.074	1.00
114_A	118_E	1.064	1.00
46_M	53_H	1.063	1.00
92_H	113_A	1.060	1.00
217_T	221_S	1.053	1.00
48_S	78_I	1.047	1.00
26_K	61_G	1.041	1.00
116_V	144_G	1.040	1.00
163_I	171_I	1.039	1.00
29_S	185_V	1.037	1.00
32_L	43_T	1.036	1.00
133_F	141_I	1.031	1.00
95_L	148_M	1.017	1.00
154_L	183_M	1.015	1.00
51_V	54_D	1.012	1.00
225_G	228_I	0.994	1.00
112_R	116_V	0.994	1.00
206_D	211_I	0.993	1.00
6_N	55_S	0.992	1.00
107_G	111_K	0.988	1.00
77_G	151_P	0.986	1.00
175_V	185_V	0.970	1.00
120_V	144_G	0.970	1.00
109_A	113_A	0.970	1.00
106_H	109_A	0.966	1.00
45_S	51_V	0.954	1.00
130_I	141_I	0.952	1.00
47_I	186_I	0.951	1.00
202_I	216_K	0.951	1.00
99_G	148_M	0.948	1.00
29_S	199_C	0.945	1.00
218_D	221_S	0.945	1.00
115_E	118_E	0.942	1.00
93_E	96_M	0.942	1.00
179_N	185_V	0.939	1.00
90_T	129_K	0.937	1.00
168_R	194_E	0.934	1.00
114_A	122_L	0.934	1.00
96_M	100_K	0.932	1.00
92_H	114_A	0.932	1.00
4_A	58_I	0.932	1.00
63_Y	75_K	0.929	1.00
121_G	170_H	0.910	1.00
46_M	58_I	0.909	1.00
102_Y	149_H	0.907	1.00
10_A	18_K	0.898	1.00
206_D	230_Q	0.898	1.00
79_V	143_I	0.896	1.00
179_N	200_D	0.895	1.00
105_T	109_A	0.893	1.00
99_G	109_A	0.890	1.00
88_T	131_E	0.889	1.00
156_M	175_V	0.886	1.00
49_G	72_A	0.886	1.00
154_L	185_V	0.884	1.00
211_I	225_G	0.884	1.00
229_I	233_V	0.878	1.00
43_T	205_I	0.875	1.00
26_K	182_G	0.874	1.00
48_S	155_I	0.868	1.00
168_R	191_Y	0.863	1.00
226_D	230_Q	0.859	1.00
169_N	173_E	0.856	1.00
32_L	203_G	0.853	1.00
89_L	94_N	0.849	1.00
20_I	210_M	0.848	1.00
77_G	146_A	0.844	1.00
4_A	43_T	0.841	1.00
106_H	110_K	0.832	1.00
25_K	184_T	0.829	1.00
9_K	42_T	0.828	1.00
116_V	120_V	0.827	1.00
91_A	141_I	0.827	1.00
104_L	108_E	0.827	1.00
98_W	145_A	0.824	1.00
7_I	46_M	0.815	1.00
45_S	50_L	0.814	1.00
110_K	126_A	0.812	1.00
158_E	190_H	0.807	1.00
223_L	227_T	0.807	1.00
38_A	205_I	0.806	1.00
174_T	177_Q	0.803	1.00
85_L	138_K	0.801	1.00
133_F	137_M	0.794	1.00
79_V	146_A	0.793	1.00
125_R	137_M	0.790	1.00
46_M	51_V	0.790	1.00
94_N	130_I	0.781	1.00
110_K	113_A	0.781	1.00
69_T	73_K	0.780	1.00
89_L	97_F	0.777	1.00
17_V	20_I	0.776	1.00
19_G	209_E	0.776	1.00
176_K	198_L	0.775	1.00
17_V	43_T	0.772	1.00
63_Y	68_E	0.771	1.00
129_K	132_T	0.771	1.00
90_T	94_N	0.769	1.00
216_K	220_C	0.769	1.00
69_T	72_A	0.765	1.00
35_P	206_D	0.765	1.00
19_G	55_S	0.765	1.00
121_G	177_Q	0.761	1.00
2_L	153_L	0.760	1.00
173_E	176_K	0.756	1.00
155_I	186_I	0.756	1.00
160_T	171_I	0.755	1.00
29_S	176_K	0.753	1.00
227_T	231_L	0.752	1.00
24_L	184_T	0.750	1.00
116_V	119_Y	0.747	1.00
24_L	153_L	0.745	1.00
29_S	198_L	0.738	1.00
30_F	186_I	0.734	1.00
88_T	93_E	0.731	1.00
99_G	103_G	0.726	1.00
2_L	47_I	0.721	1.00
212_A	222_R	0.720	1.00
173_E	177_Q	0.717	1.00
104_L	109_A	0.715	1.00
113_A	116_V	0.713	1.00
173_E	197_F	0.711	1.00
100_K	106_H	0.711	1.00
108_E	112_R	0.710	1.00
10_A	16_I	0.709	1.00
194_E	198_L	0.708	1.00
33_L	195_V	0.705	1.00
118_E	124_E	0.704	1.00
47_I	58_I	0.699	1.00
192_M	220_C	0.696	1.00
99_G	104_L	0.696	1.00
53_H	66_G	0.694	1.00
187_Y	199_C	0.688	1.00
9_K	17_V	0.687	1.00
123_T	126_A	0.686	1.00
135_G	140_R	0.684	1.00
76_I	153_L	0.682	1.00
204_I	219_L	0.682	1.00
187_Y	198_L	0.680	1.00
230_Q	233_V	0.679	1.00
98_W	149_H	0.675	1.00
210_M	213_I	0.674	1.00
152_E	183_M	0.671	1.00
6_N	9_K	0.670	1.00
196_E	216_K	0.667	1.00
114_A	124_E	0.666	1.00
11_Y	51_V	0.665	1.00
95_L	113_A	0.660	1.00
199_C	202_I	0.658	1.00
33_L	204_I	0.658	1.00
219_L	228_I	0.657	1.00
153_L	184_T	0.656	1.00
57_N	66_G	0.655	1.00
16_I	42_T	0.654	1.00
241_L	244_I	0.654	1.00
15_T	19_G	0.652	1.00
116_V	147_L	0.651	1.00
172_L	197_F	0.650	1.00
24_L	186_I	0.649	1.00
153_L	186_I	0.649	1.00
237_N	240_F	0.643	1.00
113_A	126_A	0.639	1.00
111_K	114_A	0.638	1.00
77_G	149_H	0.632	1.00
29_S	187_Y	0.632	1.00
28_E	213_I	0.630	1.00
115_E	150_K	0.626	1.00
207_Q	230_Q	0.624	1.00
60_V	75_K	0.620	1.00
160_T	194_E	0.619	1.00
10_A	55_S	0.618	1.00
68_E	72_A	0.616	1.00
46_M	54_D	0.616	1.00
110_K	127_K	0.611	1.00
59_T	62_G	0.611	1.00
2_L	60_V	0.611	1.00
199_C	216_K	0.609	1.00
111_K	118_E	0.608	1.00
196_E	220_C	0.608	1.00
228_I	232_T	0.606	1.00
97_F	101_M	0.606	1.00
27_G	184_T	0.604	1.00
228_I	231_L	0.603	1.00
60_V	153_L	0.602	1.00
212_A	219_L	0.601	1.00
230_Q	234_S	0.601	1.00
128_D	133_F	0.596	1.00
240_F	243_A	0.596	1.00
23_S	213_I	0.596	1.00
170_H	173_E	0.592	1.00
61_G	153_L	0.591	1.00
49_G	66_G	0.590	1.00
204_I	223_L	0.587	1.00
52_P	66_G	0.587	1.00
71_K	74_Q	0.581	1.00
83_I	138_K	0.579	1.00
223_L	226_D	0.578	1.00
7_I	58_I	0.576	1.00
206_D	225_G	0.576	1.00
195_V	202_I	0.576	1.00
29_S	200_D	0.574	1.00
206_D	209_E	0.573	1.00
240_F	244_I	0.572	1.00
147_L	183_M	0.571	1.00
49_G	69_T	0.571	1.00
86_Y	89_L	0.570	1.00
121_G	124_E	0.563	1.00
38_A	207_Q	0.559	1.00
45_S	78_I	0.557	1.00
139_R	162_G	0.557	1.00
229_I	232_T	0.556	1.00
117_L	122_L	0.554	1.00
36_N	158_E	0.554	1.00
41_S	45_S	0.553	1.00
57_N	67_K	0.553	1.00
189_S	194_E	0.552	1.00
220_C	223_L	0.550	1.00
211_I	226_D	0.549	1.00
218_D	224_G	0.549	1.00
175_V	187_Y	0.546	1.00
50_L	80_P	0.542	1.00
193_E	197_F	0.542	1.00
225_G	229_I	0.542	1.00
234_S	237_N	0.540	1.00
32_L	205_I	0.540	1.00
224_G	229_I	0.540	1.00
26_K	184_T	0.540	1.00
48_S	76_I	0.539	1.00
143_I	171_I	0.535	1.00
36_N	167_S	0.532	1.00
97_F	100_K	0.527	1.00
79_V	142_N	0.527	1.00
226_D	233_V	0.527	1.00
91_A	95_L	0.524	1.00
86_Y	94_N	0.524	1.00
87_P	138_K	0.521	1.00
47_I	155_I	0.521	1.00
66_G	69_T	0.521	1.00
85_L	130_I	0.520	1.00
122_L	125_R	0.519	1.00
4_A	46_M	0.518	1.00
72_A	76_I	0.518	1.00
3_Q	62_G	0.516	1.00
61_G	65_I	0.516	1.00
87_P	131_E	0.516	1.00
134_S	137_M	0.515	1.00
195_V	199_C	0.515	1.00
107_G	110_K	0.514	1.00
65_I	76_I	0.512	1.00
85_L	141_I	0.511	1.00
82_E	138_K	0.511	1.00
70_A	73_K	0.509	1.00
212_A	223_L	0.507	1.00
62_G	65_I	0.505	1.00
216_K	226_D	0.505	1.00
33_L	192_M	0.503	1.00
104_L	112_R	0.502	1.00
9_K	16_I	0.502	1.00
117_L	125_R	0.502	1.00
239_A	242_V	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
4yerA	2	0.8907	100	0.112	Contact Map
3tuiC	2	0.9936	100	0.166	Contact Map
4rvcA	4	0.7685	100	0.186	Contact Map
1vplA	2	0.7621	100	0.188	Contact Map
4u00A	1	0.7621	100	0.192	Contact Map
4ymuJ	2	0.7588	100	0.194	Contact Map
2oljA	2	0.7588	100	0.195	Contact Map
1b0uA	2	0.7749	100	0.197	Contact Map
1v43A	2	0.9614	100	0.199	Contact Map
4mkiB	2	0.8682	100	0.201	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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