PMK - SULSO - GREMLIN Contacts

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PMK - Phosphomevalonate kinase

UniProt:	Q97UL6	Sequences: MIKVSAPGKILWIGSYSVVFGGISHVIAVNKRVSCSLREIKEKDSLIFHTSYGHFKNSGNELINSVLDTFRERLSQLPQGYEIDLYNDKEFIIDGKKTGLGSSSAATVSLTACLYYAIHGKLDLFEIHKLAQIANYKRQKGIGSGFDIASAVFGSIVYKRFTDLDKMDFYFEKLNLGNYDMMLGFTGKSSETVGLVRKFVEKSNLDDFKEIMRLIDEENYMAIKLIKLNKLDEAVEHIKLGRKYLNYIAERIVGVKLVSKMEEELIKIAEEEGALVALSPGAGGGDSIFALGNDLNRVREAWSKRGIFIIDVKEDEGLRLESN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	323 (289)
Sequences:	5099 (3811)
Seq/√Len:	224.2

ECOLI - GAL1 KHSE
BACSU - GAL1 KHSE
HALSA - Q9HQI6
SULSO - PMK MVK

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
5_S	32_R	5.033	1.00
239_K	270_E	4.629	1.00
230_K	233_E	3.659	1.00
38_R	84_D	3.625	1.00
46_L	84_D	3.565	1.00
123_D	126_E	3.521	1.00
35_C	109_S	3.237	1.00
277_A	290_A	3.083	1.00
222_A	234_A	3.021	1.00
33_V	105_A	2.962	1.00
235_V	276_V	2.681	1.00
40_I	84_D	2.586	1.00
115_Y	121_K	2.558	1.00
180_D	294_D	2.541	1.00
233_E	236_E	2.513	1.00
245_L	257_L	2.477	1.00
37_L	113_C	2.365	1.00
262_E	288_I	2.337	1.00
217_E	221_M	2.256	1.00
196_V	199_F	2.227	1.00
224_K	228_L	2.162	1.00
292_G	298_V	2.159	1.00
302_W	306_G	2.154	1.00
13_I	222_A	2.123	1.00
108_V	152_V	2.092	1.00
300_E	304_K	2.057	1.00
6_A	109_S	2.044	1.00
225_L	233_E	2.002	1.00
111_T	127_I	1.960	1.00
184_G	290_A	1.952	1.00
39_E	81_Y	1.877	1.00
77_L	80_G	1.867	1.00
267_K	271_E	1.860	1.00
4_V	116_Y	1.853	1.00
178_N	294_D	1.840	1.00
221_M	233_E	1.839	1.00
243_K	270_E	1.819	1.00
190_S	282_A	1.790	1.00
192_T	196_V	1.778	1.00
225_L	230_K	1.771	1.00
125_F	129_K	1.763	1.00
264_E	268_I	1.740	1.00
296_N	299_R	1.723	1.00
49_H	52_Y	1.671	1.00
243_K	247_Y	1.658	1.00
258_V	263_E	1.642	1.00
72_E	75_S	1.640	1.00
128_H	152_V	1.637	1.00
170_Y	227_K	1.629	1.00
115_Y	120_G	1.620	1.00
210_E	214_L	1.593	1.00
246_N	263_E	1.593	1.00
266_I	277_A	1.588	1.00
76_Q	133_I	1.572	1.00
133_I	137_K	1.572	1.00
182_M	298_V	1.565	1.00
296_N	300_E	1.554	1.00
108_V	131_A	1.551	1.00
87_N	106_A	1.542	1.00
51_S	88_D	1.476	1.00
236_E	240_L	1.468	1.00
188_K	259_S	1.465	1.00
65_S	68_D	1.453	1.00
297_R	301_A	1.449	1.00
223_I	227_K	1.438	1.00
156_I	160_R	1.409	1.00
209_K	248_I	1.407	1.00
81_Y	118_I	1.395	1.00
242_R	266_I	1.375	1.00
112_A	124_L	1.371	1.00
16_Y	19_V	1.369	1.00
37_L	83_I	1.365	1.00
23_I	220_Y	1.355	1.00
221_M	224_K	1.351	1.00
207_D	210_E	1.344	1.00
71_R	75_S	1.344	1.00
209_K	213_R	1.331	1.00
295_L	299_R	1.315	1.00
195_L	284_G	1.314	1.00
299_R	303_S	1.299	1.00
73_R	77_L	1.298	1.00
124_L	152_V	1.290	1.00
65_S	69_T	1.279	1.00
301_A	304_K	1.277	1.00
184_G	288_I	1.275	1.00
210_E	213_R	1.262	1.00
207_D	214_L	1.249	1.00
115_Y	122_L	1.233	1.00
45_S	83_I	1.224	1.00
259_S	262_E	1.224	1.00
262_E	279_S	1.223	1.00
265_L	288_I	1.218	1.00
234_A	291_L	1.214	1.00
37_L	117_A	1.202	1.00
225_L	237_H	1.201	1.00
156_I	161_F	1.199	1.00
39_E	117_A	1.194	1.00
115_Y	127_I	1.192	1.00
191_E	194_G	1.192	1.00
36_S	86_Y	1.184	1.00
186_T	265_L	1.180	1.00
301_A	305_R	1.179	1.00
240_L	243_K	1.176	1.00
188_K	261_M	1.172	1.00
214_L	217_E	1.171	1.00
125_F	153_F	1.162	1.00
232_D	293_N	1.160	1.00
69_T	73_R	1.156	1.00
297_R	300_E	1.154	1.00
85_L	110_L	1.154	1.00
214_L	240_L	1.151	1.00
64_N	67_L	1.149	1.00
26_V	150_S	1.145	1.00
169_F	172_E	1.141	1.00
197_R	200_V	1.140	1.00
166_K	169_F	1.140	1.00
219_N	222_A	1.129	1.00
268_I	272_E	1.127	1.00
40_I	82_E	1.126	1.00
180_D	295_L	1.117	1.00
18_V	144_S	1.115	1.00
258_V	279_S	1.113	1.00
268_I	271_E	1.107	1.00
62_L	65_S	1.105	1.00
42_E	82_E	1.105	1.00
150_S	154_G	1.104	1.00
217_E	220_Y	1.104	1.00
108_V	151_A	1.102	1.00
11_L	26_V	1.100	1.00
9_K	144_S	1.086	1.00
213_R	248_I	1.077	1.00
9_K	18_V	1.071	1.00
72_E	76_Q	1.068	1.00
277_A	288_I	1.062	1.00
139_Q	143_G	1.062	1.00
66_V	110_L	1.054	1.00
210_E	244_Y	1.049	1.00
184_G	269_A	1.048	1.00
142_I	198_K	1.047	1.00
15_S	245_L	1.027	1.00
8_G	91_F	1.024	1.00
192_T	195_L	1.023	1.00
157_V	160_R	1.022	1.00
17_S	216_D	1.020	1.00
35_C	85_L	1.020	1.00
243_K	246_N	1.004	1.00
260_K	264_E	0.997	1.00
135_N	286_D	0.995	1.00
35_C	87_N	0.995	1.00
65_S	73_R	0.995	1.00
50_T	86_Y	0.992	1.00
105_A	151_A	0.986	1.00
87_N	110_L	0.983	1.00
136_Y	143_G	0.983	1.00
11_L	15_S	0.977	1.00
222_A	226_I	0.975	1.00
66_V	69_T	0.971	1.00
112_A	127_I	0.963	1.00
24_S	146_F	0.954	1.00
5_S	34_S	0.952	1.00
302_W	307_I	0.950	1.00
17_S	20_F	0.947	1.00
264_E	305_R	0.946	1.00
34_S	88_D	0.943	1.00
172_E	223_I	0.939	1.00
263_E	267_K	0.934	1.00
35_C	113_C	0.934	1.00
132_Q	143_G	0.928	1.00
266_I	270_E	0.925	1.00
239_K	243_K	0.925	1.00
10_I	289_F	0.918	0.99
207_D	250_E	0.904	0.99
213_R	217_E	0.904	0.99
48_F	86_Y	0.903	0.99
68_D	71_R	0.898	0.99
172_E	227_K	0.897	0.99
195_L	199_F	0.893	0.99
184_G	265_L	0.889	0.99
295_L	298_V	0.885	0.99
45_S	82_E	0.885	0.99
193_V	196_V	0.883	0.99
238_I	276_V	0.882	0.99
141_G	192_T	0.880	0.99
158_Y	161_F	0.877	0.99
73_R	76_Q	0.876	0.99
272_E	298_V	0.876	0.99
232_D	236_E	0.871	0.99
205_L	209_K	0.864	0.99
10_I	27_I	0.861	0.99
149_A	153_F	0.856	0.99
242_R	246_N	0.854	0.99
107_T	134_A	0.853	0.99
73_R	78_P	0.852	0.99
26_V	146_F	0.850	0.99
105_A	109_S	0.849	0.99
196_V	200_V	0.849	0.99
169_F	174_L	0.845	0.99
304_K	308_F	0.841	0.99
22_G	213_R	0.840	0.99
37_L	85_L	0.837	0.99
56_K	60_N	0.836	0.99
184_G	302_W	0.835	0.99
128_H	132_Q	0.832	0.99
184_G	277_A	0.832	0.99
111_T	131_A	0.830	0.99
144_S	148_I	0.829	0.99
40_I	43_K	0.824	0.99
104_S	143_G	0.821	0.99
269_A	298_V	0.815	0.99
74_L	78_P	0.814	0.99
6_A	151_A	0.814	0.99
298_V	302_W	0.813	0.99
268_I	301_A	0.811	0.99
238_I	289_F	0.801	0.99
111_T	130_L	0.801	0.99
269_A	277_A	0.800	0.99
89_K	105_A	0.800	0.99
237_H	241_G	0.800	0.99
268_I	305_R	0.799	0.99
241_G	244_Y	0.796	0.99
69_T	72_E	0.790	0.98
136_Y	139_Q	0.789	0.98
22_G	216_D	0.787	0.98
186_T	285_G	0.784	0.98
60_N	63_I	0.783	0.98
11_L	146_F	0.781	0.98
36_S	88_D	0.778	0.98
10_I	280_P	0.777	0.98
157_V	161_F	0.772	0.98
9_K	101_G	0.771	0.98
126_E	129_K	0.768	0.98
124_L	127_I	0.764	0.98
127_I	152_V	0.764	0.98
126_E	130_L	0.762	0.98
38_R	86_Y	0.761	0.98
33_V	109_S	0.759	0.98
206_D	210_E	0.757	0.98
23_I	216_D	0.757	0.98
25_H	219_N	0.756	0.98
195_L	198_K	0.756	0.98
192_T	200_V	0.754	0.98
275_L	293_N	0.750	0.98
206_D	250_E	0.748	0.98
166_K	172_E	0.745	0.98
242_R	258_V	0.743	0.98
132_Q	136_Y	0.743	0.98
66_V	70_F	0.736	0.98
135_N	148_I	0.733	0.98
220_Y	224_K	0.733	0.98
274_A	293_N	0.732	0.98
11_L	16_Y	0.726	0.97
261_M	264_E	0.725	0.97
141_G	282_A	0.725	0.97
271_E	301_A	0.722	0.97
145_G	149_A	0.720	0.97
263_E	266_I	0.719	0.97
246_N	267_K	0.718	0.97
69_T	111_T	0.714	0.97
32_R	91_F	0.713	0.97
48_F	84_D	0.711	0.97
13_I	237_H	0.709	0.97
224_K	227_K	0.709	0.97
192_T	199_F	0.708	0.97
216_D	220_Y	0.707	0.97
280_P	287_S	0.707	0.97
160_R	170_Y	0.707	0.97
85_L	113_C	0.705	0.97
182_M	269_A	0.705	0.97
50_T	88_D	0.702	0.97
233_E	237_H	0.699	0.97
104_S	131_A	0.697	0.97
235_V	238_I	0.696	0.97
298_V	301_A	0.695	0.97
172_E	175_N	0.692	0.97
271_E	305_R	0.690	0.96
221_M	237_H	0.687	0.96
208_F	211_I	0.686	0.96
4_V	109_S	0.681	0.96
242_R	279_S	0.680	0.96
221_M	225_L	0.679	0.96
128_H	148_I	0.674	0.96
246_N	258_V	0.672	0.96
28_A	151_A	0.672	0.96
7_P	28_A	0.671	0.96
70_F	114_L	0.670	0.96
10_I	29_V	0.670	0.96
60_N	67_L	0.669	0.96
295_L	306_G	0.669	0.96
112_A	115_Y	0.666	0.96
40_I	45_S	0.665	0.96
211_I	244_Y	0.664	0.96
204_N	208_F	0.663	0.96
158_Y	223_I	0.662	0.96
157_V	223_I	0.662	0.96
160_R	223_I	0.658	0.95
272_E	275_L	0.658	0.95
68_D	73_R	0.658	0.95
59_G	63_I	0.658	0.95
25_H	222_A	0.657	0.95
107_T	131_A	0.653	0.95
237_H	240_L	0.648	0.95
280_P	289_F	0.648	0.95
65_S	74_L	0.647	0.95
108_V	127_I	0.644	0.95
218_E	237_H	0.644	0.95
299_R	302_W	0.643	0.95
27_I	181_M	0.641	0.95
143_G	148_I	0.641	0.95
235_V	239_K	0.637	0.94
74_L	77_L	0.636	0.94
74_L	79_Q	0.632	0.94
132_Q	145_G	0.631	0.94
221_M	240_L	0.630	0.94
264_E	267_K	0.629	0.94
106_A	110_L	0.628	0.94
40_I	46_L	0.627	0.94
158_Y	162_T	0.625	0.94
98_T	185_F	0.625	0.94
129_K	132_Q	0.624	0.94
178_N	293_N	0.624	0.94
101_G	144_S	0.623	0.94
269_A	290_A	0.617	0.93
25_H	223_I	0.617	0.93
182_M	292_G	0.616	0.93
238_I	291_L	0.616	0.93
198_K	284_G	0.607	0.93
9_K	148_I	0.607	0.93
11_L	280_P	0.607	0.93
258_V	262_E	0.605	0.93
131_A	152_V	0.603	0.93
69_T	134_A	0.602	0.93
41_K	81_Y	0.601	0.93
63_I	67_L	0.601	0.93
50_T	53_G	0.601	0.93
107_T	143_G	0.600	0.93
134_A	139_Q	0.597	0.92
260_K	263_E	0.596	0.92
115_Y	126_E	0.592	0.92
69_T	77_L	0.592	0.92
167_M	175_N	0.591	0.92
17_S	22_G	0.591	0.92
18_V	24_S	0.589	0.92
298_V	306_G	0.587	0.92
65_S	72_E	0.585	0.92
39_E	118_I	0.583	0.91
6_A	108_V	0.583	0.91
109_S	113_C	0.582	0.91
4_V	112_A	0.582	0.91
72_E	137_K	0.580	0.91
181_M	289_F	0.579	0.91
71_R	74_L	0.579	0.91
62_L	66_V	0.576	0.91
73_R	120_G	0.575	0.91
67_L	70_F	0.571	0.91
104_S	282_A	0.571	0.91
207_D	213_R	0.571	0.91
33_V	91_F	0.570	0.91
136_Y	142_I	0.570	0.91
135_N	144_S	0.570	0.91
62_L	68_D	0.569	0.90
267_K	270_E	0.569	0.90
56_K	59_G	0.568	0.90
281_G	285_G	0.568	0.90
266_I	288_I	0.568	0.90
58_S	228_L	0.567	0.90
272_E	297_R	0.566	0.90
272_E	301_A	0.565	0.90
29_V	100_L	0.564	0.90
76_Q	130_L	0.564	0.90
68_D	72_E	0.564	0.90
155_S	171_F	0.563	0.90
104_S	141_G	0.562	0.90
23_I	219_N	0.562	0.90
205_L	214_L	0.560	0.90
18_V	148_I	0.559	0.90
23_I	160_R	0.558	0.90
112_A	152_V	0.557	0.90
292_G	295_L	0.557	0.90
184_G	289_F	0.556	0.89
115_Y	130_L	0.556	0.89
128_H	149_A	0.554	0.89
66_V	72_E	0.552	0.89
49_H	53_G	0.551	0.89
72_E	133_I	0.550	0.89
240_L	247_Y	0.548	0.89
269_A	273_G	0.548	0.89
11_L	144_S	0.547	0.89
48_F	54_H	0.546	0.89
115_Y	118_I	0.545	0.88
160_R	172_E	0.542	0.88
11_L	18_V	0.541	0.88
219_N	223_I	0.541	0.88
47_I	66_V	0.539	0.88
16_Y	245_L	0.539	0.88
193_V	200_V	0.538	0.88
149_A	161_F	0.536	0.88
259_S	284_G	0.534	0.87
193_V	197_R	0.534	0.87
141_G	193_V	0.532	0.87
11_L	101_G	0.531	0.87
211_I	219_N	0.531	0.87
9_K	147_D	0.530	0.87
156_I	175_N	0.529	0.87
156_I	162_T	0.526	0.87
111_T	134_A	0.525	0.87
65_S	71_R	0.523	0.86
171_F	174_L	0.523	0.86
148_I	286_D	0.522	0.86
122_L	126_E	0.522	0.86
149_A	169_F	0.521	0.86
76_Q	126_E	0.521	0.86
242_R	245_L	0.519	0.86
270_E	274_A	0.519	0.86
239_K	266_I	0.518	0.86
129_K	133_I	0.517	0.86
263_E	276_V	0.516	0.86
222_A	238_I	0.516	0.86
263_E	279_S	0.515	0.86
42_E	45_S	0.515	0.86
10_I	287_S	0.515	0.86
92_I	286_D	0.514	0.85
13_I	234_A	0.513	0.85
194_G	197_R	0.512	0.85
190_S	195_L	0.509	0.85
60_N	64_N	0.508	0.85
186_T	288_I	0.508	0.85
8_G	16_Y	0.507	0.85
100_L	183_L	0.506	0.85
269_A	288_I	0.505	0.84
128_H	146_F	0.504	0.84
186_T	262_E	0.502	0.84
107_T	148_I	0.501	0.84
179_Y	275_L	0.501	0.84
83_I	114_L	0.500	0.84

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
1pieA	1	0.9536	100	0.298	Contact Map
2a2cA	1	0.9505	100	0.309	Contact Map
3v2uC	2	0.9474	100	0.316	Contact Map
1wuuA	2	0.9474	100	0.327	Contact Map
4n3oA	2	0.9226	100	0.331	Contact Map
3k85A	3	0.8669	100	0.337	Contact Map
2cz9A	1	0.9257	100	0.338	Contact Map
1kvkA	2	0.9319	100	0.338	Contact Map
4hacA	2	0.9164	100	0.343	Contact Map
1kkhA	1	0.904	100	0.357	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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