TCYA - BACSU - GREMLIN Contacts

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TCYA - L-cystine-binding protein TcyA

UniProt:	P42199	Sequences: MKKALLALFMVVSIAALAACGAGNDNQSKDNAKDGDLWASIKKKGVLTVGTEGTYEPFTYHDKDTDKLTGYDVEVITEVAKRLGLKVDFKETQWDSMFAGLNSKRFDVVANQVGKTDREDKYDFSDKYTTSRAVVVTKKDNNDIKSEADVKGKTSAQSLTSNYNKLATNAGAKVEGVEGMAQALQMIQQGRVDMTYNDKLAVLNYLKTSGNKNVKIAFETGEPQSTYFTFRKGSGEVVDQVNKALKEMKEDGTLSKISKKWFGEDVSK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	268 (225)
Sequences:	20861 (14270)
Seq/√Len:	951.3

ECOLI - GLTI YHDW FLIY HISJ ARGT GLNH ARTJ ARTI MLTF EVGS
BACSU - TCYA GLNH YCKB TCYK TCYJ ARTP YXEM

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
46_V	88_D	3.534	1.00
50_G	106_F	3.436	1.00
156_A	192_V	3.336	1.00
82_R	247_E	2.806	1.00
48_T	88_D	2.375	1.00
164_N	176_G	2.370	1.00
115_K	119_E	2.328	1.00
126_D	246_K	2.324	1.00
177_V	186_M	2.201	1.00
62_D	65_T	2.158	1.00
115_K	227_Y	2.145	1.00
179_G	182_Q	2.115	1.00
48_T	90_K	2.109	1.00
100_G	106_F	2.102	1.00
102_N	121_K	2.095	1.00
62_D	69_T	2.087	1.00
164_N	168_T	2.072	1.00
46_V	86_K	2.025	1.00
82_R	244_A	2.008	1.00
183_A	195_T	1.996	1.00
123_D	238_V	1.984	1.00
122_Y	229_T	1.978	1.00
253_T	256_K	1.978	1.00
230_F	238_V	1.945	1.00
78_E	81_K	1.900	1.00
255_S	259_K	1.896	1.00
186_M	191_R	1.869	1.00
197_N	202_V	1.856	1.00
246_K	250_E	1.838	1.00
80_A	87_V	1.826	1.00
154_T	175_E	1.822	1.00
49_V	76_I	1.793	1.00
238_V	242_N	1.771	1.00
100_G	105_R	1.728	1.00
230_F	241_V	1.723	1.00
146_S	149_D	1.716	1.00
138_K	190_G	1.702	1.00
78_E	253_T	1.686	1.00
126_D	242_N	1.683	1.00
145_K	149_D	1.676	1.00
78_E	248_M	1.660	1.00
154_T	173_K	1.624	1.00
78_E	82_R	1.584	1.00
235_G	239_D	1.580	1.00
130_T	225_S	1.567	1.00
110_A	228_F	1.566	1.00
136_V	202_V	1.546	1.00
231_R	234_S	1.479	1.00
92_T	100_G	1.478	1.00
62_D	67_K	1.432	1.00
199_K	203_L	1.430	1.00
39_A	43_K	1.422	1.00
74_E	260_K	1.420	1.00
159_L	178_E	1.395	1.00
134_V	199_K	1.384	1.00
49_V	108_V	1.375	1.00
240_Q	243_K	1.364	1.00
97_M	109_V	1.359	1.00
153_K	193_D	1.356	1.00
125_S	242_N	1.354	1.00
73_V	77_T	1.351	1.00
186_M	192_V	1.350	1.00
82_R	251_D	1.350	1.00
239_D	243_K	1.347	1.00
151_K	171_G	1.342	1.00
165_K	169_N	1.338	1.00
61_H	91_E	1.336	1.00
60_Y	69_T	1.329	1.00
53_G	91_E	1.326	1.00
123_D	233_G	1.322	1.00
79_V	244_A	1.309	1.00
187_I	214_V	1.289	1.00
168_T	176_G	1.285	1.00
139_K	213_N	1.285	1.00
83_L	244_A	1.272	1.00
133_A	163_Y	1.268	1.00
244_A	247_E	1.257	1.00
98_F	122_Y	1.251	1.00
76_I	110_A	1.235	1.00
140_D	215_K	1.230	1.00
188_Q	213_N	1.222	1.00
113_V	229_T	1.216	1.00
85_L	240_Q	1.212	1.00
40_S	44_K	1.206	1.00
185_Q	188_Q	1.205	1.00
104_K	231_R	1.204	1.00
99_A	102_N	1.193	1.00
155_S	194_M	1.193	1.00
156_A	177_V	1.189	1.00
77_T	89_F	1.189	1.00
137_T	194_M	1.185	1.00
135_V	194_M	1.170	1.00
249_K	254_L	1.161	1.00
240_Q	244_A	1.156	1.00
39_A	42_K	1.153	1.00
139_K	215_K	1.142	1.00
123_D	235_G	1.137	1.00
185_Q	189_Q	1.136	1.00
99_A	103_S	1.130	1.00
247_E	251_D	1.125	1.00
235_G	238_V	1.122	1.00
72_D	128_Y	1.122	1.00
154_T	193_D	1.120	1.00
244_A	248_M	1.115	1.00
157_Q	164_N	1.114	1.00
178_E	182_Q	1.088	1.00
137_T	217_A	1.055	1.00
204_N	208_T	1.052	1.00
71_Y	258_S	1.049	1.00
45_G	85_L	1.045	1.00
93_Q	96_S	1.038	1.00
69_T	74_E	1.030	1.00
134_V	216_I	1.029	1.00
243_K	247_E	1.025	1.00
74_E	261_W	1.021	1.00
123_D	232_K	1.020	1.00
77_T	81_K	1.012	1.00
109_V	113_V	1.009	1.00
187_I	192_V	1.007	1.00
75_V	254_L	1.005	1.00
177_V	183_A	1.003	1.00
253_T	257_I	1.002	1.00
74_E	77_T	0.999	1.00
76_I	89_F	0.998	1.00
71_Y	257_I	0.998	1.00
36_D	236_E	0.997	1.00
187_I	195_T	0.991	1.00
159_L	176_G	0.984	1.00
236_E	240_Q	0.981	1.00
158_S	161_S	0.980	1.00
125_S	241_V	0.978	1.00
38_W	41_I	0.971	1.00
188_Q	209_S	0.966	1.00
182_Q	185_Q	0.965	1.00
92_T	106_F	0.965	1.00
61_H	66_D	0.964	1.00
44_K	48_T	0.964	1.00
126_D	249_K	0.963	1.00
108_V	230_F	0.952	1.00
37_L	40_S	0.952	1.00
68_L	73_V	0.945	1.00
53_G	68_L	0.945	1.00
71_Y	262_F	0.939	1.00
56_E	60_Y	0.935	1.00
49_V	87_V	0.930	1.00
79_V	241_V	0.929	1.00
124_F	229_T	0.927	1.00
165_K	168_T	0.927	1.00
181_A	185_Q	0.926	1.00
117_D	120_D	0.926	1.00
76_I	87_V	0.921	1.00
108_V	241_V	0.918	1.00
131_S	200_L	0.915	1.00
248_M	253_T	0.911	1.00
98_F	113_V	0.908	1.00
156_A	183_A	0.888	1.00
166_L	169_N	0.887	1.00
75_V	248_M	0.868	1.00
148_A	151_K	0.866	1.00
180_M	197_N	0.863	1.00
82_R	253_T	0.863	1.00
132_R	199_K	0.860	1.00
242_N	246_K	0.860	1.00
67_K	77_T	0.858	1.00
119_E	232_K	0.857	1.00
136_V	214_V	0.849	1.00
78_E	244_A	0.846	1.00
254_L	258_S	0.845	1.00
61_H	68_L	0.845	1.00
255_S	258_S	0.837	1.00
144_I	149_D	0.829	1.00
47_L	108_V	0.826	1.00
242_N	245_L	0.825	1.00
36_D	40_S	0.823	1.00
96_S	100_G	0.823	1.00
41_I	85_L	0.818	1.00
36_D	39_A	0.817	1.00
51_T	89_F	0.816	1.00
137_T	215_K	0.812	1.00
256_K	260_K	0.810	1.00
41_I	44_K	0.809	1.00
48_T	107_D	0.806	1.00
256_K	259_K	0.801	1.00
76_I	228_F	0.796	1.00
38_W	42_K	0.794	1.00
47_L	85_L	0.793	1.00
258_S	262_F	0.792	1.00
108_V	228_F	0.790	1.00
114_G	224_Q	0.788	1.00
150_V	194_M	0.786	1.00
76_I	108_V	0.786	1.00
58_F	129_T	0.780	1.00
83_L	240_Q	0.778	1.00
247_E	250_E	0.768	1.00
47_L	80_A	0.762	1.00
60_Y	261_W	0.755	1.00
102_N	122_Y	0.754	1.00
236_E	239_D	0.753	1.00
248_M	251_D	0.752	1.00
82_R	248_M	0.747	1.00
71_Y	254_L	0.747	1.00
132_R	220_T	0.745	1.00
175_E	186_M	0.745	1.00
79_V	83_L	0.743	1.00
243_K	246_K	0.742	1.00
182_Q	186_M	0.738	1.00
125_S	228_F	0.738	1.00
51_T	73_V	0.730	1.00
203_L	207_K	0.729	1.00
109_V	229_T	0.726	1.00
90_K	105_R	0.726	1.00
79_V	110_A	0.726	1.00
94_W	97_M	0.722	1.00
135_V	196_Y	0.716	1.00
46_V	85_L	0.712	1.00
130_T	223_P	0.711	1.00
204_N	207_K	0.711	1.00
77_T	87_V	0.708	1.00
131_S	199_K	0.707	1.00
98_F	102_N	0.703	1.00
246_K	249_K	0.702	1.00
41_I	45_G	0.696	1.00
96_S	99_A	0.692	1.00
184_L	188_Q	0.690	1.00
42_K	45_G	0.689	1.00
248_M	254_L	0.685	1.00
168_T	174_V	0.684	1.00
248_M	252_G	0.678	1.00
51_T	111_N	0.676	1.00
239_D	242_N	0.675	1.00
101_L	106_F	0.674	1.00
35_G	40_S	0.670	1.00
138_K	213_N	0.669	1.00
125_S	230_F	0.667	1.00
75_V	245_L	0.665	1.00
101_L	231_R	0.664	1.00
203_L	216_I	0.662	1.00
78_E	257_I	0.656	1.00
234_S	237_V	0.654	1.00
115_K	127_K	0.653	1.00
52_E	94_W	0.649	1.00
209_S	213_N	0.648	1.00
69_T	261_W	0.646	1.00
102_N	231_R	0.640	1.00
90_K	106_F	0.640	1.00
49_V	89_F	0.639	1.00
143_D	215_K	0.638	1.00
101_L	122_Y	0.637	1.00
134_V	202_V	0.633	1.00
73_V	89_F	0.631	1.00
118_R	124_F	0.629	1.00
175_E	192_V	0.619	1.00
104_K	233_G	0.618	1.00
228_F	241_V	0.617	1.00
123_D	234_S	0.614	1.00
53_G	61_H	0.613	1.00
76_I	80_A	0.611	1.00
133_A	196_Y	0.610	1.00
124_F	227_Y	0.607	1.00
127_K	130_T	0.600	1.00
202_V	206_L	0.599	1.00
197_N	201_A	0.598	1.00
167_A	174_V	0.598	1.00
156_A	186_M	0.595	1.00
125_S	245_L	0.594	1.00
80_A	85_L	0.594	1.00
50_G	97_M	0.593	1.00
56_E	208_T	0.592	1.00
151_K	170_A	0.592	1.00
92_T	97_M	0.591	1.00
132_R	223_P	0.591	1.00
53_G	59_T	0.590	1.00
252_G	255_S	0.589	1.00
158_S	180_M	0.588	1.00
101_L	109_V	0.585	1.00
40_S	43_K	0.584	1.00
52_E	59_T	0.584	1.00
132_R	222_E	0.584	1.00
82_R	240_Q	0.583	1.00
248_M	257_I	0.582	1.00
51_T	68_L	0.580	1.00
114_G	118_R	0.578	1.00
134_V	218_F	0.578	1.00
143_D	153_K	0.578	1.00
83_L	237_V	0.577	1.00
184_L	214_V	0.575	1.00
55_Y	94_W	0.574	1.00
52_E	158_S	0.573	1.00
170_A	174_V	0.572	1.00
136_V	184_L	0.569	1.00
74_E	257_I	0.566	1.00
80_A	83_L	0.565	1.00
42_K	240_Q	0.560	1.00
188_Q	214_V	0.560	1.00
131_S	226_T	0.559	1.00
37_L	231_R	0.557	1.00
177_V	192_V	0.556	1.00
135_V	150_V	0.555	1.00
167_A	196_Y	0.553	1.00
140_D	190_G	0.553	1.00
252_G	256_K	0.553	1.00
55_Y	112_Q	0.553	1.00
155_S	167_A	0.553	1.00
72_D	112_Q	0.552	1.00
59_T	111_N	0.552	1.00
154_T	192_V	0.552	1.00
214_V	217_A	0.549	1.00
50_G	109_V	0.549	1.00
162_N	224_Q	0.545	1.00
136_V	206_L	0.545	1.00
129_T	226_T	0.544	1.00
35_G	39_A	0.542	1.00
119_E	123_D	0.542	1.00
188_Q	211_N	0.537	1.00
44_K	107_D	0.537	1.00
113_V	122_Y	0.535	1.00
159_L	164_N	0.535	1.00
125_S	238_V	0.534	1.00
126_D	245_L	0.532	1.00
52_E	111_N	0.531	1.00
115_K	124_F	0.530	1.00
79_V	228_F	0.527	1.00
90_K	100_G	0.520	1.00
114_G	162_N	0.520	1.00
220_T	223_P	0.518	1.00
157_Q	167_A	0.518	1.00
94_W	113_V	0.517	1.00
199_K	220_T	0.516	1.00
175_E	191_R	0.515	1.00
57_P	60_Y	0.515	1.00
38_W	85_L	0.507	1.00
65_T	69_T	0.506	1.00
205_Y	208_T	0.505	1.00
186_M	189_Q	0.505	1.00
81_K	253_T	0.504	1.00
157_Q	176_G	0.503	1.00
157_Q	174_V	0.503	1.00
37_L	41_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
2ylnA	1	0.8769	100	0.262	Contact Map
1xt8A	1	0.8694	100	0.291	Contact Map
2yjpA	1	0.8582	100	0.296	Contact Map
4ohnA	1	0.8731	100	0.308	Contact Map
2ieeA	1	0.8657	100	0.318	Contact Map
1pb7A	1	0.9254	100	0.318	Contact Map
3hv1A	2	0.8918	100	0.32	Contact Map
2vhaA	2	0.8806	100	0.326	Contact Map
4powA	1	0.8321	100	0.326	Contact Map
3kbrA	4	0.8321	100	0.33	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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