TCYK - BACSU - GREMLIN Contacts

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TCYK - L-cystine-binding protein TcyK

UniProt:	O34852	Sequences: MKTKTAFMAILFSLITVLSACGAGSQTTGAGQKKVQTITVGTGTQFPNICFIDEKGDLTGYDVELIKELDKRLPHYKFTFKTMEFSNLLVSLGQHKVDIVAHQMEKSKEREKKFLFNKVAYNHFPLKITVLQNNDTIRGIEDLKGKRVITSATSNGALVLKKWNEDNGRPFEIAYEGQGANETANQLKSGRADATISTPFAVDFQNKTSTIKEKTVGNVLSNAKVYFMFNKNEQTLSDDIDKALQEIIDDGTLKRLSLKWLGDDYSKEQY	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	270 (242)
Sequences:	21803 (16027)
Seq/√Len:	1030.2

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

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
41_G	97_V	3.846	1.00
149_I	192_A	3.725	1.00
37_T	79_T	3.716	1.00
72_R	246_E	2.975	1.00
177_G	186_Q	2.492	1.00
91_S	97_V	2.341	1.00
157_A	176_E	2.338	1.00
39_T	79_T	2.333	1.00
118_K	245_Q	2.299	1.00
106_K	226_Y	2.294	1.00
37_T	77_K	2.271	1.00
179_G	182_E	2.256	1.00
106_K	111_E	2.246	1.00
157_A	161_K	2.189	1.00
108_K	111_E	2.149	1.00
39_T	81_K	2.145	1.00
252_T	255_R	2.119	1.00
254_K	258_L	2.065	1.00
229_F	237_S	2.056	1.00
70_D	78_F	2.056	1.00
93_G	113_K	2.049	1.00
114_F	228_M	2.047	1.00
53_D	59_T	2.023	1.00
68_E	71_K	2.014	1.00
237_S	241_D	2.014	1.00
147_R	174_A	2.004	1.00
245_Q	249_D	1.981	1.00
115_L	237_S	1.962	1.00
72_R	243_A	1.929	1.00
197_S	202_V	1.903	1.00
118_K	241_D	1.895	1.00
139_G	142_D	1.878	1.00
183_T	195_T	1.863	1.00
229_F	240_I	1.828	1.00
40_V	66_I	1.786	1.00
53_D	57_D	1.726	1.00
138_R	142_D	1.725	1.00
147_R	172_E	1.703	1.00
129_T	202_V	1.692	1.00
186_Q	191_R	1.687	1.00
68_E	252_T	1.672	1.00
101_A	227_F	1.653	1.00
68_E	72_R	1.581	1.00
68_E	247_I	1.572	1.00
117_N	241_D	1.563	1.00
91_S	96_K	1.556	1.00
230_N	233_E	1.554	1.00
83_M	91_S	1.552	1.00
131_L	190_G	1.547	1.00
152_A	178_Q	1.527	1.00
234_Q	238_D	1.525	1.00
238_D	242_K	1.474	1.00
52_I	82_T	1.465	1.00
30_A	34_K	1.450	1.00
123_H	224_K	1.446	1.00
72_R	250_D	1.438	1.00
133_N	214_K	1.417	1.00
115_L	232_N	1.416	1.00
67_K	80_F	1.407	1.00
64_E	259_K	1.405	1.00
89_L	114_F	1.401	1.00
73_L	76_Y	1.379	1.00
88_L	100_V	1.372	1.00
239_D	242_K	1.364	1.00
158_L	162_K	1.350	1.00
132_Q	212_K	1.346	1.00
147_R	193_D	1.336	1.00
69_L	243_A	1.325	1.00
186_Q	192_A	1.322	1.00
63_V	67_K	1.311	1.00
51_F	59_T	1.308	1.00
178_Q	182_E	1.305	1.00
104_M	228_M	1.296	1.00
188_K	212_K	1.277	1.00
199_P	203_D	1.271	1.00
146_K	193_D	1.268	1.00
40_V	99_I	1.264	1.00
159_V	163_W	1.261	1.00
127_K	199_P	1.255	1.00
66_I	101_A	1.247	1.00
187_L	213_E	1.239	1.00
73_L	243_A	1.234	1.00
130_V	194_A	1.226	1.00
161_K	176_E	1.225	1.00
132_Q	214_K	1.197	1.00
44_T	82_T	1.196	1.00
246_E	250_D	1.191	1.00
149_I	177_G	1.190	1.00
150_T	157_A	1.189	1.00
148_V	194_A	1.180	1.00
95_H	230_N	1.180	1.00
126_L	156_G	1.160	1.00
109_E	112_K	1.160	1.00
36_Q	76_Y	1.154	1.00
243_A	246_E	1.149	1.00
90_V	93_G	1.146	1.00
128_I	194_A	1.143	1.00
164_N	171_F	1.143	1.00
83_M	97_V	1.136	1.00
177_G	183_T	1.136	1.00
185_N	188_K	1.134	1.00
100_V	104_M	1.134	1.00
248_I	253_L	1.129	1.00
31_G	35_V	1.128	1.00
21_C	24_G	1.126	1.00
61_Y	261_L	1.119	1.00
62_D	121_Y	1.115	1.00
30_A	33_K	1.109	1.00
239_D	243_A	1.104	1.00
66_I	80_F	1.095	1.00
243_A	247_I	1.091	1.00
187_L	195_T	1.086	1.00
61_Y	256_L	1.082	1.00
130_V	216_V	1.075	1.00
185_N	189_S	1.075	1.00
57_D	67_K	1.066	1.00
187_L	192_A	1.064	1.00
66_I	78_F	1.046	1.00
61_Y	257_S	1.044	1.00
127_K	215_T	1.041	1.00
27_T	235_T	1.036	1.00
115_L	231_K	1.031	1.00
67_K	71_K	1.026	1.00
84_E	87_N	1.025	1.00
151_S	154_S	1.021	1.00
90_V	94_Q	1.019	1.00
65_L	247_I	1.012	1.00
65_L	253_L	1.009	1.00
35_V	39_T	1.005	1.00
115_L	234_Q	1.000	1.00
242_K	246_E	0.991	1.00
40_V	78_F	0.990	1.00
29_G	32_Q	0.989	1.00
99_I	240_I	0.985	1.00
64_E	260_W	0.979	1.00
64_E	67_K	0.973	1.00
59_T	64_E	0.965	1.00
235_T	239_D	0.959	1.00
149_I	183_T	0.956	1.00
76_Y	239_D	0.956	1.00
152_A	176_E	0.956	1.00
99_I	229_F	0.952	1.00
252_T	256_L	0.951	1.00
204_F	208_T	0.940	1.00
174_A	177_G	0.938	1.00
188_K	209_S	0.936	1.00
117_N	240_I	0.936	1.00
247_I	252_T	0.935	1.00
108_K	112_K	0.931	1.00
158_L	161_K	0.931	1.00
69_L	240_I	0.927	1.00
107_S	110_R	0.921	1.00
234_Q	237_S	0.919	1.00
52_I	56_G	0.915	1.00
89_L	104_M	0.914	1.00
93_G	114_F	0.907	1.00
61_Y	253_L	0.903	1.00
255_R	258_L	0.901	1.00
58_L	63_V	0.901	1.00
72_R	252_T	0.897	1.00
118_K	248_I	0.896	1.00
14_L	17_V	0.888	1.00
182_E	185_N	0.888	1.00
241_D	245_Q	0.881	1.00
257_S	261_L	0.871	1.00
116_F	228_M	0.865	1.00
28_T	31_G	0.861	1.00
253_L	257_S	0.860	1.00
241_D	244_L	0.860	1.00
165_E	171_F	0.860	1.00
66_I	227_F	0.858	1.00
17_V	20_A	0.854	1.00
87_N	91_S	0.851	1.00
159_V	162_K	0.850	1.00
85_F	88_L	0.847	1.00
124_F	200_F	0.837	1.00
100_V	228_M	0.833	1.00
18_L	21_C	0.832	1.00
99_I	227_F	0.830	1.00
32_Q	36_Q	0.829	1.00
105_E	223_A	0.827	1.00
44_T	58_L	0.824	1.00
128_I	196_I	0.820	1.00
255_R	259_K	0.820	1.00
47_P	51_F	0.814	1.00
32_Q	35_V	0.814	1.00
38_I	99_I	0.812	1.00
66_I	99_I	0.811	1.00
181_N	185_N	0.800	1.00
174_A	186_Q	0.797	1.00
111_E	231_K	0.796	1.00
125_P	199_P	0.796	1.00
180_A	197_S	0.795	1.00
42_T	63_V	0.794	1.00
52_I	58_L	0.794	1.00
42_T	102_H	0.793	1.00
246_E	249_D	0.792	1.00
27_T	30_A	0.791	1.00
67_K	78_F	0.788	1.00
29_G	33_K	0.787	1.00
247_I	250_D	0.787	1.00
42_T	80_F	0.786	1.00
235_T	238_D	0.783	1.00
33_K	36_Q	0.780	1.00
38_I	76_Y	0.778	1.00
27_T	31_G	0.775	1.00
73_L	239_D	0.773	1.00
19_S	22_G	0.771	1.00
13_S	16_T	0.767	1.00
110_R	116_F	0.765	1.00
32_Q	76_Y	0.764	1.00
106_K	119_V	0.764	1.00
72_R	247_I	0.762	1.00
69_L	73_L	0.759	1.00
141_E	144_K	0.753	1.00
51_F	260_W	0.753	1.00
49_I	122_N	0.751	1.00
68_E	243_A	0.750	1.00
130_V	214_K	0.746	1.00
38_I	70_D	0.745	1.00
70_D	74_P	0.742	1.00
81_K	96_K	0.741	1.00
143_L	194_A	0.738	1.00
92_L	100_V	0.735	1.00
117_N	229_F	0.732	1.00
89_L	93_G	0.729	1.00
127_K	217_G	0.727	1.00
129_T	213_E	0.727	1.00
227_F	240_I	0.726	1.00
254_K	257_S	0.723	1.00
124_F	199_P	0.710	1.00
37_T	76_Y	0.709	1.00
20_A	23_A	0.706	1.00
247_I	253_L	0.702	1.00
162_K	165_E	0.700	1.00
83_M	88_L	0.700	1.00
203_D	207_K	0.698	1.00
209_S	212_K	0.697	1.00
65_L	244_L	0.696	1.00
95_H	232_N	0.693	1.00
69_L	101_A	0.693	1.00
68_E	256_L	0.688	1.00
184_A	188_K	0.686	1.00
247_I	251_G	0.685	1.00
203_D	215_T	0.684	1.00
39_T	98_D	0.684	1.00
242_K	245_Q	0.682	1.00
147_R	192_A	0.678	1.00
149_I	186_Q	0.676	1.00
40_V	80_F	0.670	1.00
137_I	142_D	0.668	1.00
174_A	192_A	0.667	1.00
43_G	50_C	0.666	1.00
85_F	104_M	0.665	1.00
233_E	236_L	0.663	1.00
177_G	192_A	0.662	1.00
92_L	97_V	0.662	1.00
127_K	202_V	0.660	1.00
161_K	173_I	0.659	1.00
136_T	214_K	0.657	1.00
182_E	186_Q	0.655	1.00
106_K	116_F	0.651	1.00
59_T	260_W	0.651	1.00
44_T	50_C	0.648	1.00
87_N	90_V	0.647	1.00
92_L	230_N	0.645	1.00
117_N	227_F	0.645	1.00
131_L	212_K	0.644	1.00
105_E	110_R	0.643	1.00
184_A	213_E	0.640	1.00
116_F	226_Y	0.638	1.00
11_L	14_L	0.637	1.00
238_D	241_D	0.636	1.00
16_T	19_S	0.632	1.00
81_K	97_V	0.629	1.00
251_G	255_R	0.626	1.00
63_V	80_F	0.623	1.00
70_D	73_L	0.620	1.00
10_I	13_S	0.619	1.00
155_N	223_A	0.619	1.00
123_H	222_N	0.619	1.00
41_G	88_L	0.618	1.00
163_W	166_D	0.616	1.00
43_G	85_F	0.615	1.00
219_V	222_N	0.611	1.00
118_K	244_L	0.608	1.00
210_T	213_E	0.607	1.00
115_L	233_E	0.605	1.00
50_C	102_H	0.604	1.00
11_L	15_I	0.603	1.00
42_T	58_L	0.602	1.00
92_L	114_F	0.601	1.00
93_G	230_N	0.598	1.00
14_L	18_L	0.597	1.00
136_T	146_K	0.597	1.00
188_K	213_E	0.595	1.00
17_V	21_C	0.592	1.00
53_D	56_G	0.591	1.00
41_G	100_V	0.591	1.00
117_N	244_L	0.589	1.00
13_S	17_V	0.585	1.00
213_E	216_V	0.584	1.00
245_Q	248_I	0.579	1.00
160_L	196_I	0.577	1.00
46_F	103_Q	0.577	1.00
41_G	83_M	0.575	1.00
125_P	221_S	0.574	1.00
197_S	201_A	0.573	1.00
66_I	70_D	0.570	1.00
85_F	110_R	0.567	1.00
160_L	173_I	0.566	1.00
12_F	16_T	0.564	1.00
104_M	114_F	0.564	1.00
204_F	207_K	0.564	1.00
31_G	34_K	0.561	1.00
202_V	206_N	0.560	1.00
96_K	191_R	0.560	1.00
54_E	59_T	0.556	1.00
126_L	196_I	0.554	1.00
20_A	24_G	0.553	1.00
206_N	213_E	0.551	1.00
174_A	191_R	0.550	1.00
35_V	98_D	0.548	1.00
251_G	254_K	0.546	1.00
33_K	239_D	0.546	1.00
12_F	15_I	0.545	1.00
125_P	222_N	0.543	1.00
69_L	227_F	0.542	1.00
129_T	184_A	0.541	1.00
28_T	32_Q	0.540	1.00
160_L	164_N	0.539	1.00
229_F	233_E	0.537	1.00
166_D	171_F	0.537	1.00
105_E	155_N	0.534	1.00
117_N	237_S	0.532	1.00
71_K	252_T	0.532	1.00
151_S	180_A	0.531	1.00
148_V	160_L	0.530	1.00
128_I	143_L	0.527	1.00
133_N	190_G	0.527	1.00
47_P	208_T	0.524	1.00
202_V	215_T	0.524	1.00
129_T	206_N	0.524	1.00
28_T	230_N	0.523	1.00
70_D	76_Y	0.521	1.00
62_D	103_Q	0.521	1.00
111_E	115_L	0.519	1.00
206_N	215_T	0.518	1.00
43_G	102_H	0.518	1.00
44_T	52_I	0.513	1.00
46_F	85_F	0.510	1.00
29_G	76_Y	0.510	1.00
144_K	164_N	0.508	1.00
88_L	91_S	0.508	1.00
248_I	251_G	0.507	1.00
161_K	165_E	0.506	1.00
152_A	157_A	0.505	1.00
38_I	73_L	0.505	1.00
247_I	256_L	0.505	1.00
129_T	215_T	0.502	1.00
66_I	69_L	0.501	1.00
149_I	195_T	0.500	1.00
150_T	176_E	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
1xt8A	1	0.8778	100	0.251	Contact Map
2yjpA	1	0.8741	100	0.27	Contact Map
4ohnA	1	0.8926	100	0.273	Contact Map
2ylnA	1	0.863	100	0.275	Contact Map
1pb7A	1	0.9259	100	0.275	Contact Map
3hv1A	2	0.9185	100	0.279	Contact Map
2vhaA	2	0.9111	100	0.28	Contact Map
3kbrA	4	0.837	100	0.283	Contact Map
4ymxA	1	0.8074	100	0.284	Contact Map
2ieeA	1	0.8704	100	0.287	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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