YECS - ECOLI - GREMLIN Contacts

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YECS - Inner membrane amino-acid ABC transporter permease protein YecS

UniProt:	P0AFT2	Sequences: MQESIQLVIDSLPFLLKGAGYTLQLSIGGMFFGLLLGFILALMRLSPIWPVRWLARFYISIFRGTPLIAQLFMIYYGLPQFGIELDPIPSAMIGLSLNTAAYAAETLRAAISSIDKGQWEAAASIGMTPWQTMRRAILPQAARVALPPLSNSFISLVKDTSLAATIQVPELFRQAQLITSRTLEVFTMYLAASLIYWIMATVLSTLQNHFENQLNRQEREPK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG14037
Length:	222 (203)
Sequences:	24362 (14680)
Seq/√Len:	1030.3

ECOLI - YECS HISM GLTJ HISQ ARTQ GLNP YHDY GLTK ARTM YHDX YEHY METI CYSW CYST POTC PSTC PROW TAUC POTI YDCV POTH POTB PSTA THIP YEHW MODB SSUC YDCU PHNE YCJP YNJC UGPA YCJO UGPE MALG MALF
BACSU - TCYM ARTQ GLNP YCKA GLNM YXEN TCYL TCYB METP OPUCB OPUBD OPUBB OPUCD ARAP OPUAB YQGI SSUC AMYC YURN AMYD YQGH MDXF YTLD GANP YTEP MDXG LPLB GANQ YURM YESP YESQ YVGM ARAQ YTCP LPLC
HALSA - Q9HML6 Q9HNI9 Q9HP02 Q9HPK3 Q9HS11 Q9HMT4 Q9HR05 Q9HML7 Q9HP01 Q9HHQ6 Q9HS12 Q9HHQ7
SULSO - Q97UY9 Q97UF3 Q97YY3 Q97UZ0 Q97ZC1 Q97YY2 Q97UF4 Q97VC0 Q97ZC2 Q97Z98 Q97ZT7 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
122_A	132_T	3.324	1.00
32_F	96_S	3.243	1.00
150_S	207_Q	3.059	1.00
184_E	187_T	3.007	1.00
91_A	163_A	2.905	1.00
128_T	131_Q	2.898	1.00
20_G	24_Q	2.873	1.00
43_M	55_A	2.512	1.00
28_G	92_M	2.438	1.00
130_W	134_R	2.418	1.00
123_A	132_T	2.318	1.00
205_T	209_H	2.256	1.00
65_T	70_Q	2.210	1.00
175_A	192_A	2.170	1.00
119_W	132_T	2.146	1.00
118_Q	140_Q	2.076	1.00
40_L	104_A	2.053	1.00
50_P	54_L	2.032	1.00
40_L	100_A	2.003	1.00
50_P	53_W	1.931	1.00
119_W	123_A	1.869	1.00
41_A	107_L	1.857	1.00
44_R	56_R	1.837	1.00
173_R	177_L	1.752	1.00
36_L	100_A	1.747	1.00
30_M	153_F	1.733	1.00
49_W	53_W	1.727	1.00
21_Y	24_Q	1.723	1.00
209_H	212_N	1.699	1.00
16_L	20_G	1.641	1.00
24_Q	88_I	1.634	1.00
74_I	94_G	1.573	1.00
201_T	205_T	1.571	1.00
131_Q	135_R	1.568	1.00
205_T	208_N	1.558	1.00
129_P	133_M	1.550	1.00
38_F	107_L	1.544	1.00
45_L	112_S	1.535	1.00
86_D	89_P	1.534	1.00
174_Q	177_L	1.530	1.00
19_A	199_M	1.527	1.00
197_W	201_T	1.524	1.00
17_K	20_G	1.519	1.00
49_W	52_R	1.513	1.00
128_T	132_T	1.495	1.00
123_A	129_P	1.478	1.00
35_L	39_I	1.440	1.00
110_A	145_A	1.440	1.00
113_S	144_V	1.435	1.00
21_Y	168_V	1.426	1.00
127_M	131_Q	1.416	1.00
59_I	104_A	1.412	1.00
33_G	99_T	1.404	1.00
179_T	185_V	1.396	1.00
206_L	209_H	1.394	1.00
14_F	17_K	1.384	1.00
105_E	108_R	1.351	1.00
173_R	176_Q	1.332	1.00
25_L	163_A	1.328	1.00
48_I	53_W	1.327	1.00
119_W	137_I	1.322	1.00
108_R	112_S	1.315	1.00
131_Q	134_R	1.315	1.00
103_A	152_S	1.301	1.00
26_S	157_V	1.297	1.00
175_A	179_T	1.285	1.00
171_L	174_Q	1.273	1.00
103_A	149_L	1.272	1.00
176_Q	179_T	1.269	1.00
122_A	127_M	1.242	1.00
107_L	145_A	1.238	1.00
26_S	153_F	1.237	1.00
32_F	92_M	1.235	1.00
122_A	136_A	1.235	1.00
175_A	188_M	1.229	1.00
70_Q	98_N	1.227	1.00
129_P	132_T	1.220	1.00
28_G	96_S	1.187	1.00
48_I	51_V	1.173	1.00
89_P	92_M	1.160	1.00
39_I	43_M	1.160	1.00
88_I	92_M	1.130	1.00
40_L	55_A	1.129	1.00
26_S	160_T	1.125	1.00
177_L	181_R	1.124	1.00
52_R	56_R	1.115	1.00
37_G	103_A	1.114	1.00
24_Q	28_G	1.114	1.00
92_M	96_S	1.103	1.00
209_H	213_Q	1.101	1.00
53_W	57_F	1.094	1.00
116_K	120_E	1.091	1.00
54_L	58_Y	1.085	1.00
54_L	57_F	1.077	1.00
110_A	144_V	1.066	1.00
62_F	97_L	1.055	1.00
111_I	137_I	1.052	1.00
179_T	189_Y	1.047	1.00
14_F	174_Q	1.044	1.00
71_L	163_A	1.037	1.00
170_E	174_Q	1.037	1.00
17_K	21_Y	1.036	1.00
65_T	98_N	1.033	1.00
106_T	152_S	1.031	1.00
71_L	94_G	1.018	1.00
56_R	108_R	1.018	1.00
29_G	96_S	1.016	1.00
208_N	211_E	1.005	1.00
13_P	17_K	1.001	1.00
169_P	173_R	0.994	1.00
30_M	156_L	0.989	1.00
34_L	149_L	0.982	1.00
87_P	167_Q	0.967	1.00
175_A	178_I	0.966	1.00
106_T	148_P	0.965	1.00
176_Q	180_S	0.961	1.00
202_V	206_L	0.942	1.00
42_L	133_M	0.940	1.00
43_M	46_S	0.938	1.00
28_G	32_F	0.936	1.00
70_Q	74_I	0.933	1.00
208_N	212_N	0.933	1.00
114_I	141_A	0.925	1.00
133_M	138_L	0.923	1.00
41_A	111_I	0.923	1.00
127_M	135_R	0.920	1.00
67_L	159_D	0.917	1.00
60_S	201_T	0.915	1.00
155_S	159_D	0.913	1.00
116_K	119_W	0.910	1.00
45_L	111_I	0.904	1.00
157_V	199_M	0.900	1.00
187_T	190_L	0.897	1.00
182_T	185_V	0.891	1.00
55_A	104_A	0.878	1.00
67_L	98_N	0.872	1.00
88_I	168_V	0.867	1.00
44_R	105_E	0.861	1.00
165_T	169_P	0.861	1.00
31_F	35_L	0.861	1.00
43_M	51_V	0.855	1.00
111_I	141_A	0.853	1.00
74_I	90_S	0.853	1.00
29_G	156_L	0.850	1.00
77_G	81_F	0.847	1.00
191_A	195_I	0.838	1.00
163_A	168_V	0.833	1.00
22_T	157_V	0.825	1.00
206_L	210_F	0.824	1.00
157_V	203_L	0.822	1.00
144_V	148_P	0.817	1.00
190_L	193_S	0.816	1.00
57_F	60_S	0.816	1.00
133_M	137_I	0.816	1.00
99_T	152_S	0.815	1.00
85_L	89_P	0.814	1.00
70_Q	94_G	0.811	1.00
62_F	101_A	0.808	1.00
36_L	96_S	0.807	1.00
33_G	103_A	0.804	1.00
114_I	144_V	0.801	1.00
201_T	204_S	0.796	1.00
71_L	162_L	0.789	1.00
48_I	54_L	0.788	1.00
170_E	173_R	0.784	1.00
27_I	31_F	0.783	1.00
161_S	196_Y	0.777	1.00
107_L	111_I	0.775	1.00
82_G	85_L	0.772	1.00
68_I	165_T	0.772	1.00
32_F	35_L	0.767	1.00
53_W	56_R	0.764	1.00
73_M	77_G	0.761	1.00
119_W	129_P	0.758	1.00
48_I	52_R	0.758	1.00
103_A	107_L	0.756	1.00
45_L	119_W	0.753	1.00
99_T	156_L	0.752	1.00
58_Y	100_A	0.752	1.00
47_P	52_R	0.749	1.00
44_R	59_I	0.746	1.00
73_M	190_L	0.745	1.00
189_Y	193_S	0.745	1.00
29_G	95_L	0.743	1.00
19_A	195_I	0.742	1.00
38_F	138_L	0.740	1.00
117_G	120_E	0.732	1.00
89_P	93_I	0.730	1.00
190_L	194_L	0.729	1.00
178_I	188_M	0.723	1.00
203_L	207_Q	0.720	1.00
46_S	55_A	0.718	1.00
28_G	88_I	0.717	1.00
37_G	107_L	0.709	1.00
87_P	90_S	0.709	1.00
72_F	76_Y	0.708	1.00
204_S	208_N	0.701	1.00
71_L	166_I	0.695	1.00
18_G	174_Q	0.692	1.00
181_R	184_E	0.688	1.00
13_P	16_L	0.687	1.00
163_A	170_E	0.686	1.00
174_Q	178_I	0.686	1.00
137_I	140_Q	0.685	1.00
19_A	171_L	0.685	1.00
87_P	168_V	0.684	1.00
28_G	31_F	0.684	1.00
56_R	60_S	0.682	1.00
25_L	88_I	0.681	1.00
26_S	30_M	0.680	1.00
117_G	121_A	0.674	1.00
172_F	176_Q	0.670	1.00
98_N	159_D	0.668	1.00
148_P	151_N	0.658	1.00
47_P	50_P	0.658	1.00
21_Y	88_I	0.656	1.00
46_S	129_P	0.654	1.00
41_A	45_L	0.654	1.00
198_I	202_V	0.650	1.00
91_A	166_I	0.650	1.00
58_Y	62_F	0.650	1.00
40_L	43_M	0.649	1.00
51_V	54_L	0.649	1.00
60_S	197_W	0.645	1.00
62_F	70_Q	0.644	1.00
44_R	52_R	0.643	1.00
23_L	27_I	0.642	1.00
58_Y	101_A	0.641	1.00
75_Y	90_S	0.641	1.00
189_Y	192_A	0.637	1.00
40_L	44_R	0.636	1.00
96_S	100_A	0.631	1.00
162_L	167_Q	0.628	1.00
95_L	163_A	0.628	1.00
116_K	123_A	0.625	1.00
37_G	104_A	0.624	1.00
95_L	156_L	0.623	1.00
25_L	91_A	0.619	1.00
114_I	137_I	0.618	1.00
25_L	29_G	0.613	1.00
172_F	175_A	0.608	1.00
171_L	175_A	0.606	1.00
77_G	80_Q	0.601	1.00
26_S	29_G	0.595	1.00
37_G	41_A	0.595	1.00
157_V	200_A	0.594	1.00
16_L	19_A	0.593	1.00
169_P	174_Q	0.591	1.00
197_W	200_A	0.589	1.00
95_L	160_T	0.588	1.00
74_I	78_L	0.587	1.00
153_F	203_L	0.587	1.00
57_F	61_I	0.584	1.00
61_I	65_T	0.583	1.00
30_M	34_L	0.576	1.00
34_L	107_L	0.572	1.00
210_F	214_L	0.572	1.00
20_G	23_L	0.570	1.00
164_A	173_R	0.569	1.00
43_M	54_L	0.567	1.00
114_I	140_Q	0.563	1.00
186_F	190_L	0.560	1.00
170_E	175_A	0.560	1.00
24_Q	89_P	0.559	1.00
91_A	168_V	0.557	1.00
86_D	90_S	0.556	1.00
35_L	38_F	0.556	1.00
44_R	104_A	0.555	1.00
161_S	164_A	0.553	1.00
200_A	204_S	0.553	1.00
45_L	48_I	0.551	1.00
67_L	95_L	0.551	1.00
121_A	124_S	0.551	1.00
75_Y	166_I	0.550	1.00
127_M	132_T	0.549	1.00
99_T	159_D	0.545	1.00
177_L	180_S	0.545	1.00
152_S	155_S	0.544	1.00
122_A	125_I	0.544	1.00
170_E	180_S	0.542	1.00
147_P	211_E	0.541	1.00
128_T	135_R	0.538	1.00
22_T	196_Y	0.537	1.00
162_L	165_T	0.536	1.00
47_P	129_P	0.534	1.00
115_D	144_V	0.534	1.00
36_L	39_I	0.531	1.00
146_L	210_F	0.527	1.00
207_Q	210_F	0.526	1.00
202_V	209_H	0.526	1.00
99_T	103_A	0.523	1.00
193_S	196_Y	0.522	1.00
79_P	82_G	0.518	1.00
164_A	167_Q	0.515	1.00
172_F	189_Y	0.511	1.00
46_S	52_R	0.511	1.00
202_V	205_T	0.511	1.00
146_L	214_L	0.511	1.00
172_F	177_L	0.508	1.00
143_R	214_L	0.507	1.00
183_L	186_F	0.504	1.00
30_M	103_A	0.502	1.00
172_F	192_A	0.501	1.00
194_L	198_I	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
4ymuD	2	0.9685	100	0.339	Contact Map
2onkC	2	0.955	100	0.398	Contact Map
3d31C	2	0.9279	100	0.41	Contact Map
3tuiA	2	0.9414	100	0.421	Contact Map
3rlfF	1	0.9234	99.9	0.436	Contact Map
4tquM	1	0.964	99.9	0.443	Contact Map
3rlfG	1	0.991	99.9	0.468	Contact Map
4tquN	1	0.9324	99.9	0.51	Contact Map
3w9iA	3	0.7703	32.8	0.928	Contact Map
4dx5A	3	0.8198	21.6	0.935	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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