YDJE - BACSU - GREMLIN Contacts

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YDJE - Uncharacterized sugar kinase YdjE

UniProt:	O34768	Sequences: MRSHSVVCIGELLIDFFCTDVDVDLMEGRQFLKSAGGAPANVSAAIAKLGGDAAFSGKVGKDPFGYFLKRTLDAVHVDTSMLVMDEKAPTTLAFVSLKQNGERDFVFNRGADALFTLEDIDQEKLNEAKILHFGSATALLSDPFCSAYLRLMSIAKDNGQFISFDPNYREDLWRGRVSEFVSVAKKAIAVSDFVKVSDEELEIISGVKDHEKGVAILHEIGANIVAVTLGKSGTLLSNGKDREIIPSIPVTSIDSTGAGDAFVGAALYQLANTDQIQSVDADFVKLREIVAFANKVGALVCTKIGAIDALPSLDEIGVSL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	320 (278)
Sequences:	22369 (16462)
Seq/√Len:	987.3

ECOLI - YDJH RBSK KDGK SQUV YEGV YEII K1PF PSUK PFKB FRLD INGK HLDE
BACSU - YDJE IOLC KDGK RBSK K1PF FRLD
HALSA - Q9HSM7 Q9HMJ3 Q9HP13
SULSO - KDGK Q981E2 Q97W01 Q980X6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
51_G	268_Y	3.085	1.00
5_S	129_K	2.923	1.00
132_H	163_S	2.863	1.00
69_K	84_M	2.617	1.00
54_A	78_D	2.446	1.00
7_V	128_A	2.429	1.00
236_L	290_V	2.415	1.00
229_L	235_L	2.391	1.00
285_K	288_E	2.334	1.00
269_Q	284_V	2.308	1.00
234_T	262_F	2.249	1.00
153_S	190_V	2.182	1.00
5_S	52_D	2.157	1.00
66_Y	84_M	2.121	1.00
46_I	51_G	2.086	1.00
58_K	85_D	2.049	1.00
218_H	237_S	2.032	1.00
152_M	162_I	1.964	1.00
48_K	75_V	1.936	1.00
198_D	229_L	1.932	1.00
155_A	160_Q	1.931	1.00
8_C	43_S	1.931	1.00
163_S	267_L	1.882	1.00
269_Q	292_F	1.866	1.00
243_E	287_R	1.853	1.00
58_K	119_D	1.845	1.00
130_I	161_F	1.839	1.00
261_A	296_V	1.817	1.00
284_V	288_E	1.796	1.00
44_A	75_V	1.759	1.00
195_K	263_V	1.751	1.00
161_F	192_D	1.736	1.00
211_E	242_R	1.736	1.00
192_D	223_N	1.730	1.00
149_L	186_K	1.693	1.00
45_A	264_G	1.688	1.00
73_D	79_T	1.682	1.00
234_T	294_N	1.670	1.00
258_A	301_C	1.655	1.00
70_R	74_A	1.650	1.00
236_L	243_E	1.649	1.00
214_V	237_S	1.647	1.00
130_I	163_S	1.643	1.00
71_T	74_A	1.623	1.00
287_R	291_A	1.593	1.00
69_K	73_D	1.592	1.00
235_L	244_I	1.588	1.00
297_G	301_C	1.581	1.00
266_A	289_I	1.581	1.00
229_L	244_I	1.576	1.00
6_V	46_I	1.574	1.00
265_A	296_V	1.561	1.00
193_F	224_I	1.550	1.00
216_I	220_I	1.542	1.00
248_I	295_K	1.539	1.00
226_A	266_A	1.524	1.00
154_I	158_N	1.520	1.00
150_R	153_S	1.514	1.00
216_I	219_E	1.505	1.00
149_L	153_S	1.495	1.00
165_D	228_T	1.492	1.00
46_I	268_Y	1.478	1.00
130_I	267_L	1.469	1.00
254_D	305_G	1.468	1.00
66_Y	70_R	1.459	1.00
245_I	290_V	1.453	1.00
12_L	57_G	1.450	1.00
224_I	238_N	1.448	1.00
61_K	66_Y	1.446	1.00
236_L	286_L	1.440	1.00
265_A	292_F	1.412	1.00
154_I	157_D	1.381	1.00
35_A	68_L	1.378	1.00
150_R	154_I	1.367	1.00
166_P	196_V	1.366	1.00
209_D	212_K	1.363	1.00
229_L	232_S	1.362	1.00
156_K	192_D	1.352	1.00
191_S	194_V	1.351	1.00
238_N	241_D	1.346	1.00
125_L	128_A	1.345	1.00
207_V	216_I	1.345	1.00
88_A	114_L	1.339	1.00
40_A	72_L	1.321	1.00
5_S	54_A	1.319	1.00
61_K	84_M	1.306	1.00
248_I	291_A	1.301	1.00
161_F	193_F	1.292	1.00
126_N	158_N	1.288	1.00
14_I	67_F	1.286	1.00
211_E	215_A	1.283	1.00
268_Y	272_N	1.276	1.00
65_G	90_T	1.274	1.00
52_D	78_D	1.273	1.00
215_A	219_E	1.271	1.00
156_K	190_V	1.266	1.00
250_V	302_T	1.265	1.00
33_K	67_F	1.259	1.00
19_T	30_Q	1.259	1.00
16_F	31_F	1.248	1.00
245_I	294_N	1.247	1.00
69_K	82_L	1.219	1.00
185_K	220_I	1.216	1.00
266_A	270_L	1.213	1.00
117_L	150_R	1.204	1.00
265_A	293_A	1.201	1.00
161_F	223_N	1.194	1.00
218_H	239_G	1.191	1.00
116_T	119_D	1.189	1.00
215_A	242_R	1.184	1.00
234_T	290_V	1.177	1.00
224_I	270_L	1.175	1.00
229_L	233_G	1.173	1.00
252_S	301_C	1.169	1.00
224_I	266_A	1.167	1.00
228_T	262_F	1.166	1.00
35_A	71_T	1.163	1.00
224_I	286_L	1.161	1.00
49_L	265_A	1.157	1.00
195_K	228_T	1.149	1.00
21_V	29_R	1.148	1.00
71_T	75_V	1.146	1.00
47_A	77_V	1.145	1.00
269_Q	289_I	1.138	1.00
215_A	237_S	1.137	1.00
288_E	291_A	1.136	1.00
237_S	242_R	1.136	1.00
248_I	294_N	1.130	1.00
266_A	293_A	1.121	1.00
272_N	284_V	1.113	1.00
66_Y	69_K	1.112	1.00
299_L	303_K	1.110	1.00
67_F	70_R	1.106	1.00
70_R	73_D	1.106	1.00
153_S	157_D	1.105	1.00
42_V	132_H	1.101	1.00
131_L	155_A	1.101	1.00
250_V	301_C	1.098	1.00
51_G	271_A	1.095	1.00
16_F	33_K	1.094	1.00
133_F	162_I	1.083	1.00
61_K	87_K	1.083	1.00
207_V	212_K	1.082	1.00
85_D	88_A	1.078	1.00
299_L	302_T	1.073	1.00
201_L	227_V	1.064	1.00
46_I	53_A	1.060	1.00
248_I	298_A	1.055	1.00
212_K	215_A	1.048	1.00
43_S	53_A	1.047	1.00
193_F	266_A	1.041	1.00
252_S	255_S	1.040	1.00
198_D	232_S	1.039	1.00
104_D	107_F	1.033	1.00
63_P	66_Y	1.032	1.00
273_T	284_V	1.030	1.00
12_L	68_L	1.030	1.00
201_L	213_G	1.012	1.00
269_Q	272_N	1.011	1.00
106_V	109_R	1.008	1.00
294_N	297_G	1.005	1.00
214_V	227_V	1.001	1.00
247_S	294_N	0.999	1.00
45_A	261_A	0.997	1.00
132_H	267_L	0.994	1.00
224_I	236_L	0.993	1.00
273_T	285_K	0.986	1.00
44_A	48_K	0.980	1.00
51_G	272_N	0.978	1.00
121_D	150_R	0.976	1.00
261_A	300_V	0.975	1.00
85_D	114_L	0.975	1.00
9_I	131_L	0.972	1.00
193_F	270_L	0.972	1.00
19_T	32_L	0.966	1.00
54_A	124_K	0.965	1.00
195_K	266_A	0.965	1.00
223_N	239_G	0.962	1.00
164_F	191_S	0.956	1.00
47_A	76_H	0.955	1.00
16_F	92_L	0.953	1.00
59_V	65_G	0.949	1.00
131_L	160_Q	0.947	1.00
46_I	264_G	0.947	1.00
62_D	90_T	0.943	1.00
59_V	69_K	0.942	1.00
268_Y	292_F	0.938	1.00
146_S	150_R	0.937	1.00
291_A	295_K	0.936	1.00
132_H	263_V	0.935	1.00
54_A	128_A	0.933	1.00
60_G	90_T	0.933	1.00
205_S	213_G	0.932	1.00
17_F	34_S	0.930	1.00
54_A	81_M	0.927	1.00
12_L	55_F	0.925	1.00
8_C	39_P	0.923	1.00
266_A	286_L	0.921	1.00
241_D	287_R	0.914	1.00
289_I	293_A	0.912	1.00
49_L	296_V	0.896	1.00
103_R	107_F	0.892	1.00
35_A	67_F	0.891	1.00
7_V	56_S	0.889	1.00
67_F	71_T	0.887	1.00
69_K	79_T	0.883	1.00
133_F	152_M	0.880	1.00
133_F	148_Y	0.879	1.00
16_F	64_F	0.873	1.00
165_D	195_K	0.872	1.00
128_A	160_Q	0.869	1.00
284_V	292_F	0.869	1.00
79_T	82_L	0.867	1.00
47_A	52_D	0.867	1.00
153_S	186_K	0.861	1.00
9_I	151_L	0.861	1.00
59_V	82_L	0.860	1.00
21_V	99_Q	0.859	1.00
83_V	119_D	0.859	1.00
18_C	94_F	0.858	1.00
252_S	302_T	0.858	1.00
125_L	160_Q	0.856	1.00
232_S	244_I	0.849	1.00
196_V	201_L	0.848	1.00
198_D	202_E	0.848	1.00
12_L	40_A	0.847	1.00
270_L	289_I	0.847	1.00
186_K	189_A	0.846	1.00
233_G	247_S	0.845	1.00
251_T	302_T	0.845	1.00
181_V	185_K	0.838	1.00
40_A	307_I	0.827	1.00
197_S	200_E	0.826	1.00
285_K	289_I	0.825	1.00
68_L	90_T	0.824	1.00
59_V	84_M	0.824	1.00
163_S	195_K	0.816	1.00
28_G	106_V	0.814	1.00
243_E	290_V	0.811	1.00
13_L	91_T	0.808	1.00
261_A	265_A	0.786	1.00
14_I	33_K	0.785	1.00
6_V	271_A	0.784	1.00
58_K	83_V	0.783	1.00
42_V	263_V	0.782	1.00
262_F	294_N	0.781	1.00
5_S	127_E	0.779	1.00
189_A	221_G	0.774	1.00
215_A	218_H	0.773	1.00
165_D	196_V	0.773	1.00
188_I	191_S	0.770	1.00
245_I	291_A	0.768	1.00
189_A	220_I	0.765	1.00
214_V	225_V	0.762	1.00
147_A	151_L	0.762	1.00
265_A	269_Q	0.761	1.00
105_F	109_R	0.759	1.00
47_A	53_A	0.757	1.00
245_I	287_R	0.754	1.00
15_D	36_G	0.754	1.00
6_V	130_I	0.754	1.00
238_N	286_L	0.751	1.00
295_K	299_L	0.749	1.00
69_K	83_V	0.749	1.00
261_A	297_G	0.748	1.00
130_I	271_A	0.747	1.00
152_M	190_V	0.747	1.00
7_V	124_K	0.746	1.00
253_I	304_I	0.745	1.00
7_V	54_A	0.745	1.00
250_V	298_A	0.743	1.00
231_K	249_P	0.740	1.00
149_L	190_V	0.739	1.00
124_K	128_A	0.738	1.00
14_I	64_F	0.734	1.00
104_D	108_N	0.732	1.00
218_H	238_N	0.732	1.00
135_S	164_F	0.725	1.00
294_N	298_A	0.724	1.00
212_K	216_I	0.710	1.00
214_V	218_H	0.709	1.00
105_F	108_N	0.707	1.00
297_G	300_V	0.707	1.00
49_L	268_Y	0.706	1.00
43_S	55_F	0.704	1.00
235_L	242_R	0.702	1.00
201_L	217_L	0.701	1.00
44_A	307_I	0.700	1.00
143_P	146_S	0.700	1.00
131_L	151_L	0.692	1.00
62_D	65_G	0.689	1.00
226_A	236_L	0.682	1.00
233_G	244_I	0.680	1.00
95_V	105_F	0.674	1.00
214_V	242_R	0.674	1.00
119_D	122_Q	0.669	1.00
211_E	244_I	0.669	1.00
118_E	121_D	0.668	1.00
146_S	149_L	0.666	1.00
145_C	183_V	0.654	1.00
95_V	256_T	0.650	1.00
64_F	92_L	0.650	1.00
262_F	290_V	0.646	1.00
49_L	292_F	0.644	1.00
102_E	105_F	0.642	1.00
71_T	307_I	0.642	1.00
238_N	243_E	0.640	1.00
262_F	293_A	0.640	1.00
75_V	312_S	0.635	1.00
88_A	111_A	0.634	1.00
98_K	102_E	0.631	1.00
211_E	235_L	0.631	1.00
163_S	193_F	0.630	1.00
284_V	289_I	0.626	1.00
207_V	213_G	0.626	1.00
210_H	229_L	0.624	1.00
36_G	41_N	0.622	1.00
6_V	51_G	0.621	1.00
103_R	109_R	0.619	1.00
43_S	77_V	0.614	1.00
211_E	214_V	0.614	1.00
182_S	185_K	0.613	1.00
117_L	146_S	0.608	1.00
54_A	80_S	0.606	1.00
211_E	237_S	0.605	1.00
33_K	64_F	0.605	1.00
163_S	263_V	0.601	1.00
182_S	186_K	0.600	1.00
38_A	167_N	0.599	1.00
32_L	304_I	0.597	1.00
234_T	245_I	0.597	1.00
111_A	114_L	0.597	1.00
18_C	31_F	0.596	1.00
110_G	113_A	0.596	1.00
46_I	267_L	0.592	1.00
185_K	189_A	0.592	1.00
117_L	147_A	0.591	1.00
165_D	260_D	0.590	1.00
81_M	124_K	0.590	1.00
155_A	162_I	0.588	1.00
149_L	152_M	0.586	1.00
49_L	264_G	0.586	1.00
57_G	82_L	0.583	1.00
264_G	268_Y	0.582	1.00
11_E	136_A	0.580	1.00
226_A	262_F	0.577	1.00
194_V	225_V	0.577	1.00
81_M	84_M	0.574	1.00
63_P	67_F	0.571	1.00
273_T	289_I	0.570	1.00
85_D	119_D	0.567	1.00
286_L	290_V	0.567	1.00
112_D	115_F	0.566	1.00
96_S	104_D	0.565	1.00
262_F	297_G	0.565	1.00
96_S	106_V	0.565	1.00
8_C	46_I	0.564	1.00
151_L	154_I	0.560	1.00
218_H	240_K	0.559	1.00
245_I	248_I	0.558	1.00
290_V	294_N	0.558	1.00
210_H	213_G	0.557	1.00
40_A	55_F	0.557	1.00
104_D	109_R	0.554	1.00
38_A	136_A	0.552	1.00
222_A	225_V	0.552	1.00
8_C	53_A	0.550	1.00
130_I	193_F	0.550	1.00
162_I	191_S	0.547	1.00
115_F	119_D	0.545	1.00
66_Y	73_D	0.543	1.00
230_G	233_G	0.542	1.00
144_F	147_A	0.541	1.00
145_C	149_L	0.539	1.00
210_H	214_V	0.537	1.00
18_C	28_G	0.535	1.00
19_T	304_I	0.535	1.00
39_P	43_S	0.534	1.00
129_K	160_Q	0.534	1.00
35_A	307_I	0.533	1.00
91_T	112_D	0.533	1.00
16_F	94_F	0.532	1.00
256_T	306_A	0.530	1.00
288_E	292_F	0.529	1.00
213_G	217_L	0.529	1.00
63_P	70_R	0.528	1.00
218_H	222_A	0.527	1.00
230_G	255_S	0.526	1.00
102_E	108_N	0.526	1.00
118_E	122_Q	0.525	1.00
130_I	270_L	0.522	1.00
163_S	270_L	0.521	1.00
231_K	252_S	0.519	1.00
164_F	187_A	0.518	1.00
93_A	107_F	0.517	1.00
169_R	181_V	0.516	1.00
124_K	127_E	0.515	1.00
42_V	46_I	0.514	1.00
195_K	226_A	0.514	1.00
72_L	77_V	0.514	1.00
155_A	158_N	0.514	1.00
129_K	161_F	0.513	1.00
198_D	230_G	0.512	1.00
11_E	167_N	0.512	1.00
201_L	237_S	0.512	1.00
199_E	203_I	0.511	1.00
122_Q	154_I	0.510	1.00
221_G	225_V	0.508	1.00
202_E	208_K	0.508	1.00
286_L	289_I	0.507	1.00
218_H	221_G	0.505	1.00
218_H	225_V	0.505	1.00
47_A	75_V	0.504	1.00
168_Y	181_V	0.503	1.00
25_L	38_A	0.502	1.00
42_V	267_L	0.501	1.00
205_S	216_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
3hj6A	2	0.8688	100	0.188	Contact Map
3pl2A	2	0.9563	100	0.19	Contact Map
3iq0A	2	0.95	100	0.191	Contact Map
4du5A	2	0.9125	100	0.194	Contact Map
2rbcA	2	0.9125	100	0.196	Contact Map
3ljsA	2	0.975	100	0.196	Contact Map
4k8kA	2	0.9469	100	0.202	Contact Map
2qcvA	3	0.9469	100	0.205	Contact Map
3vasA	1	0.925	100	0.209	Contact Map
2v78A	5	0.9406	100	0.211	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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