TCYB - BACSU - GREMLIN Contacts

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TCYB - L-cystine transport system permease protein TcyB

UniProt:	P42200	Sequences: MFLNNLPALTLGTAIPWDLVQQSFWPILSGGIYYTIPLTILSFIFGMILALITALARMSKVRPLRWVFSVYVSAIRGTPLLVQLFIIFYLFPAFNVTLDPFPSAVIAFSLNVGAYASEIIRASILSVPKGQWEAGYTIGMTHQKTLFRVILPQAFRVSIPPLSNTFISLIKDTSLASQILVAELFRKAQEIGARNLDQILVIYIEAAFIYWIICFLLSLVQHVIERRLDRYVAK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	234 (204)
Sequences:	38692 (24173)
Seq/√Len:	1692.4

ECOLI - YECS GLNP HISM THIP METI POTB POTC POTI POTH CYST PSTA PSTC HISQ YCJP CYSW YDCV YEHY GLTJ MODB UGPA YNJC YDCU ARTQ GLTK YCJO MALF UGPE MALG YEHW SSUC TAUC YHDY ARTM PHNE PROW YHDX
BACSU - TCYB TCYL YXEN ARTQ YCKA GLNP METP ARAP GLNM YURN YTEP YURM TCYM YQGI GANP AMYC AMYD LPLB GANQ YQGH MDXG MDXF YTLD OPUCB YVGM OPUBD OPUAB SSUC OPUCD OPUBB YESQ YESP ARAQ YTCP LPLC
HALSA - Q9HMT4 Q9HML6 Q9HP02 Q9HP01 Q9HR05 Q9HS11 Q9HHQ7 Q9HPK3 Q9HNI9 Q9HHQ6 Q9HML7 Q9HS12
SULSO - Q97UZ0 Q97ZC1 Q97YY2 Q97UY9 Q97YY3 Q97UF3 Q97ZC2 Q97UF4 Q97ZT6 Q97VC0 Q97Z98 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
33_Y	37_P	3.621	1.00
135_G	145_T	3.461	1.00
45_F	109_S	3.237	1.00
41_L	105_V	2.868	1.00
141_T	144_K	2.725	1.00
104_A	176_A	2.697	1.00
143_Q	147_F	2.533	1.00
144_K	148_R	2.458	1.00
163_S	221_Q	2.441	1.00
136_Y	145_T	2.426	1.00
123_S	157_V	2.155	1.00
219_L	223_V	2.102	1.00
197_D	201_V	1.981	1.00
131_Q	153_Q	1.963	1.00
132_W	145_T	1.958	1.00
53_T	117_S	1.951	1.00
37_P	101_F	1.926	1.00
132_W	136_Y	1.874	1.00
132_W	150_I	1.859	1.00
140_M	144_K	1.853	1.00
189_Q	192_G	1.846	1.00
34_Y	37_P	1.828	1.00
186_R	190_E	1.813	1.00
186_R	189_Q	1.811	1.00
116_A	165_T	1.806	1.00
29_S	33_Y	1.805	1.00
187_K	190_E	1.802	1.00
121_R	125_L	1.799	1.00
78_T	83_Q	1.780	1.00
56_A	68_F	1.777	1.00
53_T	113_G	1.748	1.00
39_T	166_F	1.731	1.00
62_R	65_R	1.670	1.00
142_H	145_T	1.643	1.00
54_A	120_I	1.639	1.00
144_K	147_F	1.619	1.00
30_G	33_Y	1.618	1.00
69_S	121_R	1.606	1.00
63_P	66_W	1.606	1.00
136_Y	142_H	1.598	1.00
87_I	107_A	1.597	1.00
188_A	206_A	1.597	1.00
51_L	120_I	1.593	1.00
223_V	226_R	1.576	1.00
135_G	140_M	1.550	1.00
62_R	66_W	1.540	1.00
63_P	67_V	1.538	1.00
105_V	109_S	1.537	1.00
43_F	166_F	1.531	1.00
48_I	52_I	1.530	1.00
215_F	219_L	1.512	1.00
45_F	105_V	1.483	1.00
47_M	162_L	1.464	1.00
188_A	192_G	1.444	1.00
219_L	222_H	1.435	1.00
141_T	145_T	1.429	1.00
37_P	41_L	1.425	1.00
49_L	113_G	1.412	1.00
57_R	69_S	1.409	1.00
142_H	146_L	1.399	1.00
58_M	125_L	1.381	1.00
27_I	30_G	1.379	1.00
50_A	116_A	1.316	1.00
201_V	204_I	1.296	1.00
185_F	188_A	1.284	1.00
140_M	148_R	1.268	1.00
43_F	162_L	1.266	1.00
135_G	149_V	1.261	1.00
72_V	117_S	1.259	1.00
188_A	191_I	1.258	1.00
184_L	187_K	1.256	1.00
129_K	133_E	1.222	1.00
61_V	66_W	1.215	1.00
211_W	215_F	1.197	1.00
102_P	105_V	1.195	1.00
183_E	188_A	1.173	1.00
194_R	197_D	1.171	1.00
200_L	204_I	1.168	1.00
25_W	29_S	1.160	1.00
99_D	102_P	1.151	1.00
214_C	218_S	1.151	1.00
220_V	223_V	1.150	1.00
189_Q	193_A	1.147	1.00
204_I	207_A	1.147	1.00
61_V	65_R	1.146	1.00
183_E	186_R	1.142	1.00
95_N	98_L	1.139	1.00
183_E	187_K	1.123	1.00
192_G	199_I	1.123	1.00
30_G	34_Y	1.119	1.00
35_T	170_I	1.110	1.00
32_I	213_I	1.107	1.00
41_L	109_S	1.098	1.00
61_V	64_L	1.069	1.00
185_F	189_Q	1.067	1.00
67_V	70_V	1.062	1.00
34_Y	181_V	1.057	1.00
44_I	162_L	1.046	1.00
67_V	71_Y	1.043	1.00
190_E	194_R	1.042	1.00
39_T	170_I	1.040	1.00
130_G	133_E	1.026	1.00
101_F	105_V	1.021	1.00
65_R	69_S	1.021	1.00
42_S	108_F	1.013	1.00
108_F	169_L	1.012	1.00
223_V	227_R	1.006	1.00
129_K	132_W	1.006	1.00
134_A	137_T	0.995	1.00
42_S	169_L	0.992	1.00
42_S	109_S	0.989	1.00
118_E	121_R	0.987	1.00
203_Y	207_A	0.983	1.00
26_P	30_G	0.977	1.00
184_L	188_A	0.972	1.00
218_S	222_H	0.965	1.00
222_H	225_E	0.956	1.00
49_L	109_S	0.945	1.00
46_G	112_V	0.944	1.00
54_A	124_I	0.943	1.00
127_V	153_Q	0.938	1.00
83_Q	111_N	0.938	1.00
124_I	154_A	0.933	1.00
190_E	193_A	0.930	1.00
116_A	120_I	0.929	1.00
203_Y	206_A	0.925	1.00
126_S	157_V	0.924	1.00
44_I	48_I	0.912	1.00
60_K	63_P	0.910	1.00
157_V	161_P	0.909	1.00
64_L	67_V	0.905	1.00
120_I	158_S	0.904	1.00
124_I	150_I	0.903	1.00
216_L	220_V	0.897	1.00
116_A	162_L	0.895	1.00
205_E	209_I	0.892	1.00
50_A	117_S	0.891	1.00
29_S	32_I	0.887	1.00
185_F	190_E	0.886	1.00
66_W	70_V	0.882	1.00
41_L	45_F	0.875	1.00
187_K	191_I	0.872	1.00
57_R	117_S	0.871	1.00
38_L	176_A	0.867	1.00
183_E	189_Q	0.864	1.00
119_I	161_P	0.861	1.00
146_L	150_I	0.856	1.00
52_I	56_A	0.854	1.00
39_T	173_T	0.853	1.00
84_L	176_A	0.848	1.00
112_V	165_T	0.845	1.00
182_A	186_R	0.844	1.00
199_I	202_I	0.843	1.00
120_I	154_A	0.840	1.00
200_L	203_Y	0.837	1.00
40_I	44_I	0.826	1.00
55_L	146_L	0.820	1.00
217_L	221_Q	0.814	1.00
38_L	104_A	0.812	1.00
50_A	120_I	0.808	1.00
73_S	118_E	0.799	1.00
37_P	40_I	0.796	1.00
222_H	226_R	0.793	1.00
55_L	124_I	0.787	1.00
38_L	101_F	0.787	1.00
66_W	69_S	0.786	1.00
207_A	210_Y	0.784	1.00
204_I	208_F	0.783	1.00
46_G	116_A	0.782	1.00
195_N	199_I	0.781	1.00
58_M	132_W	0.776	1.00
146_L	151_L	0.773	1.00
112_V	169_L	0.767	1.00
107_A	175_L	0.764	1.00
80_L	172_D	0.750	1.00
86_I	90_L	0.749	1.00
210_Y	214_C	0.745	1.00
188_A	202_I	0.735	1.00
123_S	158_S	0.729	1.00
43_F	169_L	0.725	1.00
59_S	132_W	0.725	1.00
186_R	191_I	0.723	1.00
78_T	111_N	0.721	1.00
184_L	189_Q	0.720	1.00
51_L	154_A	0.719	1.00
56_A	59_S	0.716	1.00
154_A	157_V	0.716	1.00
212_I	216_L	0.714	1.00
68_F	117_S	0.710	1.00
83_Q	87_I	0.709	1.00
58_M	124_I	0.708	1.00
34_Y	101_F	0.707	1.00
185_F	191_I	0.705	1.00
100_P	180_L	0.705	1.00
150_I	153_Q	0.703	1.00
221_Q	225_E	0.699	1.00
183_E	190_E	0.695	1.00
39_T	43_F	0.692	1.00
127_V	154_A	0.690	1.00
178_Q	182_A	0.689	1.00
202_I	206_A	0.682	1.00
102_P	106_I	0.682	1.00
191_I	195_N	0.681	1.00
43_F	116_A	0.673	1.00
53_T	68_F	0.670	1.00
207_A	211_W	0.669	1.00
119_I	165_T	0.669	1.00
132_W	142_H	0.667	1.00
184_L	190_E	0.666	1.00
206_A	210_Y	0.666	1.00
140_M	145_T	0.664	1.00
27_I	187_K	0.663	1.00
202_I	205_E	0.657	1.00
100_P	103_S	0.650	1.00
54_A	117_S	0.649	1.00
99_D	103_S	0.647	1.00
70_V	73_S	0.647	1.00
90_L	94_F	0.642	1.00
113_G	117_S	0.641	1.00
75_I	110_L	0.640	1.00
199_I	203_Y	0.640	1.00
183_E	191_I	0.633	1.00
191_I	194_R	0.633	1.00
213_I	217_L	0.632	1.00
38_L	42_S	0.632	1.00
220_V	224_I	0.629	1.00
84_L	107_A	0.624	1.00
33_Y	36_I	0.621	1.00
41_L	44_I	0.619	1.00
45_F	48_I	0.618	1.00
73_S	215_F	0.618	1.00
120_I	124_I	0.617	1.00
80_L	111_N	0.614	1.00
168_S	172_D	0.613	1.00
120_I	161_P	0.612	1.00
184_L	191_I	0.611	1.00
71_Y	75_I	0.611	1.00
54_A	58_M	0.610	1.00
98_L	102_P	0.610	1.00
215_F	218_S	0.609	1.00
216_L	219_L	0.609	1.00
155_F	159_I	0.608	1.00
104_A	108_F	0.606	1.00
56_A	60_K	0.606	1.00
186_R	192_G	0.601	1.00
147_F	151_L	0.596	1.00
101_F	181_V	0.594	1.00
104_A	181_V	0.591	1.00
128_P	131_Q	0.591	1.00
192_G	203_Y	0.590	1.00
41_L	101_F	0.586	1.00
61_V	67_V	0.585	1.00
42_S	105_V	0.584	1.00
49_L	52_I	0.580	1.00
69_S	73_S	0.579	1.00
208_F	212_I	0.577	1.00
188_A	195_N	0.577	1.00
87_I	90_L	0.576	1.00
184_L	192_G	0.575	1.00
129_K	136_Y	0.575	1.00
51_L	158_S	0.573	1.00
75_I	114_A	0.572	1.00
192_G	195_N	0.567	1.00
207_A	214_C	0.566	1.00
147_F	150_I	0.564	1.00
36_I	40_I	0.563	1.00
108_F	176_A	0.561	1.00
200_L	206_A	0.556	1.00
30_G	37_P	0.553	1.00
59_S	63_P	0.551	1.00
46_G	109_S	0.547	1.00
98_L	103_S	0.546	1.00
204_I	210_Y	0.545	1.00
100_P	181_V	0.540	1.00
86_I	204_I	0.540	1.00
38_L	105_V	0.540	1.00
31_G	187_K	0.540	1.00
200_L	207_A	0.538	1.00
194_R	199_I	0.537	1.00
37_P	102_P	0.535	1.00
48_I	51_L	0.533	1.00
145_T	148_R	0.532	1.00
60_K	64_L	0.532	1.00
84_L	179_I	0.531	1.00
190_E	195_N	0.531	1.00
81_L	178_Q	0.530	1.00
55_L	151_L	0.530	1.00
71_Y	113_G	0.528	1.00
187_K	194_R	0.527	1.00
131_Q	149_V	0.526	1.00
202_I	207_A	0.525	1.00
116_A	161_P	0.524	1.00
151_L	158_S	0.524	1.00
90_L	93_A	0.522	1.00
161_P	164_N	0.519	1.00
83_Q	107_A	0.519	1.00
188_A	193_A	0.515	1.00
60_K	65_R	0.515	1.00
57_R	118_E	0.514	1.00
87_I	103_S	0.506	1.00
183_E	192_G	0.504	1.00
205_E	208_F	0.504	1.00
38_L	108_F	0.501	1.00
43_F	47_M	0.501	1.00
187_K	192_G	0.500	1.00
193_A	197_D	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
2onkC	2	0.9402	100	0.347	Contact Map
4ymuD	2	0.9188	100	0.361	Contact Map
3d31C	2	0.9444	100	0.362	Contact Map
3rlfF	1	0.9359	100	0.386	Contact Map
3tuiA	2	0.8932	100	0.404	Contact Map
4tquM	1	0.9615	100	0.407	Contact Map
3rlfG	1	0.9957	99.9	0.426	Contact Map
4tquN	1	0.9444	99.9	0.45	Contact Map
4mrsA	2	0.406	9.2	0.944	Contact Map
3w9iA	3	0.8034	7.8	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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