TCYL - BACSU - GREMLIN Contacts

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TCYL - L-cystine transport system permease protein TcyL

UniProt:	O34315	Sequences: MEKAFDMNMIGDFVPTLTAYLPVTLYILTLSLLFGFVLGLFLALPRIYNIPIVNQLAKVYISFFRGTPIMVQLFIVFYGIPALTGLIGIDTSKMDPFYAAVATYALSNAAAAAEIIRAGVGSVDKGQTEAAYSIGLSGSQAFRRIVLPQALVQAFPNMGNMVISSLKDTSLAFSIGVMDMSGRGQTLITSSNHSLEVYIALSIVYYAVAVLFEWFFRVAEKRIKKNQTRIVTVFDMNIH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	239 (203)
Sequences:	29707 (18136)
Seq/√Len:	1272.9

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

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
131_A	141_A	3.712	1.00
22_P	26_Y	3.502	1.00
34_F	105_A	3.346	1.00
137_S	140_Q	2.993	1.00
100_A	172_A	2.985	1.00
193_H	196_E	2.974	1.00
159_G	216_F	2.944	1.00
30_L	101_V	2.927	1.00
139_S	143_R	2.603	1.00
132_Y	141_A	2.338	1.00
45_P	57_A	2.243	1.00
214_W	218_V	2.211	1.00
140_Q	144_R	2.195	1.00
128_T	141_A	2.149	1.00
67_T	72_Q	2.128	1.00
42_L	113_A	2.125	1.00
127_Q	149_Q	2.084	1.00
128_T	132_Y	1.944	1.00
52_I	56_L	1.907	1.00
184_G	201_L	1.872	1.00
26_Y	97_F	1.866	1.00
23_V	26_Y	1.854	1.00
52_I	55_Q	1.853	1.00
43_A	116_I	1.848	1.00
182_G	186_T	1.841	1.00
42_L	109_A	1.820	1.00
136_L	140_Q	1.805	1.00
51_P	55_Q	1.767	1.00
32_L	162_V	1.738	1.00
40_L	116_I	1.717	1.00
18_T	22_P	1.716	1.00
183_R	186_T	1.683	1.00
119_G	153_Q	1.668	1.00
117_R	121_G	1.662	1.00
218_V	221_K	1.658	1.00
185_Q	188_I	1.655	1.00
51_P	54_N	1.616	1.00
210_V	214_W	1.600	1.00
184_G	188_I	1.592	1.00
37_V	41_F	1.580	1.00
19_A	22_P	1.576	1.00
76_V	103_T	1.573	1.00
38_L	109_A	1.573	1.00
180_M	183_R	1.572	1.00
182_G	185_Q	1.570	1.00
128_T	146_V	1.539	1.00
137_S	141_A	1.515	1.00
132_Y	138_G	1.508	1.00
138_G	142_F	1.507	1.00
28_L	162_V	1.503	1.00
140_Q	143_R	1.499	1.00
112_A	161_M	1.495	1.00
138_G	141_A	1.438	1.00
131_A	136_L	1.425	1.00
214_W	217_R	1.424	1.00
215_F	218_V	1.412	1.00
101_V	105_A	1.407	1.00
95_D	98_Y	1.399	1.00
46_R	58_K	1.397	1.00
184_G	187_L	1.377	1.00
34_F	101_V	1.374	1.00
16_T	19_A	1.369	1.00
47_I	121_G	1.321	1.00
206_Y	210_V	1.315	1.00
26_Y	30_L	1.308	1.00
58_K	117_R	1.298	1.00
188_I	194_S	1.297	1.00
50_I	55_Q	1.295	1.00
39_G	112_A	1.275	1.00
136_L	144_R	1.275	1.00
114_E	117_R	1.262	1.00
131_A	145_I	1.262	1.00
179_D	183_R	1.260	1.00
23_V	177_V	1.254	1.00
125_K	129_E	1.247	1.00
21_L	208_V	1.241	1.00
112_A	158_M	1.236	1.00
61_I	113_A	1.229	1.00
30_L	105_A	1.211	1.00
122_S	153_Q	1.207	1.00
35_G	108_N	1.169	1.00
36_F	158_M	1.136	1.00
185_Q	189_T	1.129	1.00
98_Y	101_V	1.127	1.00
218_V	222_R	1.120	1.00
72_Q	107_S	1.108	1.00
116_I	154_A	1.108	1.00
97_F	101_V	1.107	1.00
41_F	45_P	1.075	1.00
19_A	23_V	1.074	1.00
56_L	59_V	1.067	1.00
119_G	154_A	1.055	1.00
186_T	190_S	1.055	1.00
120_V	146_V	1.049	1.00
50_I	53_V	1.046	1.00
56_L	60_Y	1.042	1.00
178_M	182_G	1.036	1.00
28_L	166_L	1.034	1.00
179_D	182_G	1.034	1.00
54_N	58_K	1.021	1.00
28_L	169_T	1.008	1.00
191_S	194_S	1.003	1.00
112_A	116_I	0.996	1.00
47_I	128_T	0.990	1.00
199_I	202_S	0.989	1.00
55_Q	59_V	0.987	1.00
115_I	157_N	0.987	1.00
27_I	172_A	0.987	1.00
15_P	19_A	0.976	1.00
16_T	183_R	0.970	1.00
184_G	197_V	0.968	1.00
211_L	215_F	0.962	1.00
217_R	220_E	0.957	1.00
31_S	165_S	0.951	1.00
94_M	98_Y	0.947	1.00
30_L	34_F	0.943	1.00
125_K	128_T	0.942	1.00
198_Y	201_L	0.940	1.00
50_I	54_N	0.932	1.00
67_T	107_S	0.931	1.00
31_S	105_A	0.930	1.00
181_S	184_G	0.930	1.00
79_G	83_L	0.923	1.00
196_E	199_I	0.920	1.00
115_I	161_M	0.917	1.00
120_V	150_A	0.916	1.00
42_L	57_A	0.903	1.00
39_G	116_I	0.902	1.00
200_A	204_V	0.901	1.00
213_E	217_R	0.898	1.00
179_D	184_G	0.893	1.00
217_R	221_K	0.891	1.00
45_P	48_Y	0.889	1.00
126_G	129_E	0.889	1.00
24_T	166_L	0.886	1.00
153_Q	157_N	0.886	1.00
198_Y	202_S	0.884	1.00
44_L	142_F	0.882	1.00
64_F	106_L	0.881	1.00
174_S	178_M	0.878	1.00
73_L	172_A	0.872	1.00
33_L	37_V	0.867	1.00
31_S	104_Y	0.864	1.00
181_S	185_Q	0.861	1.00
108_N	161_M	0.852	1.00
209_A	213_E	0.839	1.00
76_V	80_I	0.829	1.00
188_I	198_Y	0.825	1.00
49_N	52_I	0.825	1.00
142_F	147_L	0.817	1.00
123_V	150_A	0.814	1.00
43_A	120_V	0.809	1.00
97_F	177_V	0.805	1.00
47_I	120_V	0.798	1.00
130_A	133_S	0.795	1.00
73_L	103_T	0.792	1.00
164_S	168_D	0.791	1.00
39_G	113_A	0.787	1.00
142_F	146_V	0.784	1.00
72_Q	103_T	0.783	1.00
18_T	21_L	0.776	1.00
180_M	184_G	0.766	1.00
199_I	203_I	0.761	1.00
53_V	56_L	0.757	1.00
35_G	112_A	0.755	1.00
32_L	158_M	0.750	1.00
108_N	165_S	0.749	1.00
62_S	210_V	0.748	1.00
27_I	31_S	0.746	1.00
75_I	79_G	0.744	1.00
202_S	205_Y	0.744	1.00
96_P	176_G	0.742	1.00
27_I	97_F	0.741	1.00
29_T	33_L	0.741	1.00
79_G	82_A	0.739	1.00
64_F	110_A	0.733	1.00
72_Q	76_V	0.733	1.00
70_M	174_S	0.721	1.00
73_L	175_I	0.720	1.00
123_V	149_Q	0.716	1.00
32_L	165_S	0.713	1.00
166_L	208_V	0.705	1.00
55_Q	58_K	0.704	1.00
215_F	219_A	0.701	1.00
38_L	105_A	0.701	1.00
28_L	32_L	0.700	1.00
188_I	191_S	0.697	1.00
197_V	201_L	0.695	1.00
98_Y	102_A	0.685	1.00
116_I	120_V	0.684	1.00
190_S	193_H	0.680	1.00
46_R	114_E	0.676	1.00
45_P	53_V	0.674	1.00
76_V	81_P	0.674	1.00
146_V	149_Q	0.670	1.00
57_A	113_A	0.667	1.00
207_A	211_L	0.663	1.00
104_Y	165_S	0.660	1.00
43_A	47_I	0.657	1.00
69_I	168_D	0.657	1.00
169_T	172_A	0.656	1.00
81_P	84_T	0.656	1.00
187_L	191_S	0.655	1.00
22_P	25_L	0.653	1.00
60_Y	64_F	0.652	1.00
186_T	191_S	0.652	1.00
128_T	138_G	0.652	1.00
44_L	147_L	0.649	1.00
49_N	54_N	0.647	1.00
170_S	173_F	0.647	1.00
59_V	62_S	0.645	1.00
21_L	204_V	0.642	1.00
46_R	113_A	0.636	1.00
123_V	153_Q	0.633	1.00
30_L	97_F	0.633	1.00
216_F	220_E	0.631	1.00
96_P	99_A	0.629	1.00
197_V	200_A	0.628	1.00
186_T	189_T	0.626	1.00
28_L	31_S	0.621	1.00
201_L	205_Y	0.620	1.00
42_L	45_P	0.618	1.00
181_S	187_L	0.618	1.00
123_V	146_V	0.612	1.00
104_Y	172_A	0.608	1.00
172_A	177_V	0.608	1.00
30_L	33_L	0.607	1.00
76_V	99_A	0.603	1.00
48_Y	138_G	0.602	1.00
78_Y	81_P	0.599	1.00
75_I	199_I	0.590	1.00
34_F	37_V	0.590	1.00
157_N	160_N	0.590	1.00
20_Y	183_R	0.589	1.00
58_K	62_S	0.588	1.00
26_Y	29_T	0.586	1.00
73_L	171_L	0.584	1.00
212_F	216_F	0.583	1.00
23_V	97_F	0.583	1.00
60_Y	109_A	0.582	1.00
187_L	190_S	0.580	1.00
26_Y	98_Y	0.578	1.00
62_S	114_E	0.577	1.00
195_L	199_I	0.575	1.00
181_S	186_T	0.573	1.00
95_D	99_A	0.572	1.00
48_Y	51_P	0.572	1.00
25_L	29_T	0.571	1.00
210_V	213_E	0.569	1.00
185_Q	190_S	0.569	1.00
64_F	72_Q	0.569	1.00
69_I	107_S	0.566	1.00
182_G	188_I	0.562	1.00
77_F	99_A	0.561	1.00
77_F	81_P	0.560	1.00
50_I	56_L	0.560	1.00
192_N	195_L	0.559	1.00
187_L	197_V	0.557	1.00
32_L	37_V	0.556	1.00
32_L	112_A	0.554	1.00
31_S	101_V	0.545	1.00
46_R	54_N	0.544	1.00
49_N	53_V	0.544	1.00
100_A	177_V	0.541	1.00
94_M	99_A	0.539	1.00
208_V	212_F	0.539	1.00
179_D	186_T	0.538	1.00
81_P	94_M	0.538	1.00
184_G	190_S	0.538	1.00
206_Y	213_E	0.538	1.00
107_S	168_D	0.537	1.00
93_K	96_P	0.537	1.00
46_R	49_N	0.535	1.00
48_Y	57_A	0.534	1.00
136_L	141_A	0.532	1.00
96_P	177_V	0.532	1.00
63_F	67_T	0.531	1.00
37_V	40_L	0.531	1.00
185_Q	192_N	0.527	1.00
48_Y	128_T	0.526	1.00
183_R	187_L	0.526	1.00
211_L	214_W	0.526	1.00
109_A	113_A	0.525	1.00
36_F	116_I	0.524	1.00
80_I	84_T	0.524	1.00
27_I	100_A	0.516	1.00
198_Y	204_V	0.514	1.00
203_I	207_A	0.512	1.00
189_T	192_N	0.512	1.00
100_A	104_Y	0.512	1.00
151_L	155_F	0.512	1.00
185_Q	191_S	0.510	1.00
125_K	132_Y	0.509	1.00
170_S	205_Y	0.507	1.00
179_D	187_L	0.506	1.00
43_A	113_A	0.506	1.00
53_V	57_A	0.505	1.00
80_I	94_M	0.505	1.00
178_M	183_R	0.504	1.00
108_N	168_D	0.504	1.00
105_A	109_A	0.502	1.00
119_G	123_V	0.501	1.00
76_V	79_G	0.501	1.00
179_D	185_Q	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	0.8996	100	0.408	Contact Map
2onkC	2	0.9163	100	0.416	Contact Map
3d31C	2	0.8996	100	0.429	Contact Map
3rlfF	1	0.8954	100	0.437	Contact Map
4tquM	1	0.9289	100	0.451	Contact Map
3rlfG	1	0.9498	99.9	0.469	Contact Map
3tuiA	2	0.8745	99.9	0.47	Contact Map
4tquN	1	0.8787	99.9	0.505	Contact Map
4mt1A	3	0.7657	22.7	0.938	Contact Map
4dx5A	3	0.7908	20.1	0.939	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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