Q9HND0 - HALSA - GREMLIN Contacts

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Q9HND0 - Putative isopentenyl pyrophosphate isomerase

UniProt:	Q9HND0	Sequences: MEYVEARRAAIEQRITEAVGGVEPTELGDQLEHVVLAGGKRVRPTLTVLVCEAAGGAVWTGAAEAAAVRENAALSAGGEDALDYAVGVELVHNASLVVDDIIDRSELRRGSASAWAEYGYGPGIVASDGLLGEAFALFSRDPRAMECVTDSLVELGEGEAIELVARPETEREYMELARRKTGALFRAAAELGAIAADADGRAVERFGEYAERVGVAFQIRDDVLDATADSDALGKPAGVDEALDRPSIVQVTDRSPDALNRLAGEQSERALGALAELELPDGEAKDYLQYLAEFVVERDA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	300 (266)
Sequences:	9711 (6453)
Seq/√Len:	395.7

ECOLI - ISPB ISPA
BACSU - HEPS2 ISPA COMQ
HALSA - Q9HND0 Q9HQI3
SULSO - GGPS HEXPP

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_C	81_A	3.423	1.00
199_D	202_A	3.252	1.00
190_E	207_G	3.131	1.00
106_E	116_A	2.987	1.00
186_R	207_G	2.846	1.00
169_T	172_E	2.484	1.00
186_R	211_E	2.393	1.00
107_L	112_A	2.363	1.00
178_R	211_E	2.352	1.00
236_P	239_V	2.335	1.00
147_C	190_E	2.291	1.00
190_E	203_V	2.278	1.00
133_E	136_A	2.232	1.00
229_D	232_A	2.146	1.00
262_L	273_A	2.111	1.00
147_C	194_I	2.110	1.00
291_L	294_F	2.104	1.00
102_I	159_E	2.050	1.00
256_P	287_Y	2.045	1.00
50_V	206_F	2.034	1.00
193_A	206_F	2.031	1.00
212_R	295_V	2.026	1.00
262_L	265_E	1.975	1.00
144_A	191_L	1.951	1.00
189_A	210_A	1.889	1.00
50_V	189_A	1.889	1.00
119_G	122_P	1.882	1.00
175_E	179_R	1.871	1.00
143_R	203_V	1.837	1.00
276_E	281_D	1.837	1.00
14_R	83_D	1.824	1.00
14_R	86_V	1.762	1.00
252_T	287_Y	1.756	1.00
259_L	281_D	1.727	1.00
54_A	202_A	1.725	1.00
252_T	284_A	1.711	1.00
204_E	208_E	1.708	1.00
98_V	127_S	1.676	1.00
208_E	212_R	1.634	1.00
170_E	252_T	1.627	1.00
98_V	128_D	1.598	1.00
136_A	150_D	1.572	1.00
187_A	191_L	1.568	1.00
159_E	162_E	1.557	1.00
122_P	160_A	1.549	1.00
261_R	265_E	1.538	1.00
140_R	146_E	1.533	1.00
223_V	288_L	1.516	1.00
239_V	243_L	1.512	1.00
139_S	145_M	1.502	1.00
283_E	286_D	1.500	1.00
168_E	172_E	1.500	1.00
14_R	17_E	1.498	1.00
51_C	56_G	1.492	1.00
83_D	140_R	1.485	1.00
105_S	239_V	1.479	1.00
286_D	289_Q	1.478	1.00
193_A	198_A	1.453	1.00
49_L	52_E	1.451	1.00
32_E	36_L	1.439	1.00
97_V	114_A	1.438	1.00
198_A	202_A	1.433	1.00
161_I	175_E	1.430	1.00
16_T	32_E	1.420	1.00
143_R	146_E	1.420	1.00
262_L	266_Q	1.418	1.00
12_E	41_R	1.404	1.00
186_R	190_E	1.372	1.00
265_E	269_R	1.364	1.00
95_S	155_L	1.361	1.00
228_A	233_L	1.355	1.00
257_D	260_N	1.352	1.00
173_Y	177_A	1.350	1.00
230_S	237_A	1.347	1.00
286_D	290_Y	1.346	1.00
264_G	268_E	1.340	1.00
192_G	196_A	1.325	1.00
146_E	150_D	1.318	1.00
258_A	262_L	1.307	1.00
219_I	288_L	1.301	1.00
273_A	276_E	1.292	1.00
90_L	137_L	1.287	1.00
37_A	111_S	1.283	1.00
290_Y	294_F	1.281	1.00
101_I	120_Y	1.280	1.00
200_G	204_E	1.268	1.00
260_N	264_G	1.268	1.00
143_R	200_G	1.267	1.00
13_Q	17_E	1.261	1.00
230_S	236_P	1.259	1.00
280_P	285_K	1.235	1.00
48_V	85_A	1.235	1.00
26_E	164_V	1.224	1.00
184_L	188_A	1.213	1.00
290_Y	293_E	1.209	1.00
54_A	196_A	1.205	1.00
178_R	215_V	1.185	1.00
143_R	194_I	1.166	1.00
30_Q	114_A	1.164	1.00
270_A	273_A	1.163	1.00
26_E	119_G	1.160	1.00
258_A	261_R	1.155	1.00
144_A	195_A	1.153	1.00
34_V	114_A	1.149	1.00
279_L	284_A	1.147	1.00
87_G	138_F	1.145	1.00
252_T	255_S	1.140	1.00
165_A	176_L	1.137	1.00
50_V	54_A	1.133	1.00
224_L	233_L	1.125	1.00
84_Y	191_L	1.121	1.00
33_H	117_E	1.118	1.00
154_E	179_R	1.113	1.00
28_G	32_E	1.110	1.00
48_V	82_L	1.097	1.00
287_Y	290_Y	1.095	1.00
84_Y	144_A	1.094	1.00
255_S	287_Y	1.091	1.00
202_A	205_R	1.088	1.00
252_T	256_P	1.084	1.00
271_L	275_A	1.073	1.00
183_A	186_R	1.073	1.00
189_A	206_F	1.064	1.00
54_A	192_G	1.062	1.00
261_R	264_G	1.061	1.00
272_G	275_A	1.059	1.00
175_E	178_R	1.059	1.00
284_A	287_Y	1.053	1.00
170_E	255_S	1.050	1.00
161_I	176_L	1.049	1.00
223_V	227_T	1.046	1.00
147_C	187_A	1.041	1.00
47_T	88_V	1.038	1.00
253_D	279_L	1.037	1.00
223_V	254_R	1.035	1.00
161_I	179_R	1.024	1.00
177_A	215_V	1.024	1.00
38_G	41_R	1.021	1.00
46_L	189_A	1.021	1.00
12_E	15_I	1.020	1.00
10_A	78_G	1.014	1.00
223_V	289_Q	1.012	1.00
13_Q	16_T	1.011	1.00
112_A	116_A	1.007	1.00
26_E	29_D	1.007	1.00
51_C	196_A	1.004	1.00
10_A	82_L	1.002	1.00
226_A	249_V	0.998	1.00
201_R	205_R	0.992	1.00
190_E	194_I	0.990	1.00
115_W	120_Y	0.989	1.00
170_E	291_L	0.989	1.00
10_A	79_E	0.987	1.00
173_Y	251_V	0.983	1.00
193_A	203_V	0.982	1.00
57_A	78_G	0.980	1.00
14_R	18_A	0.978	1.00
9_A	12_E	0.974	1.00
102_I	125_V	0.974	1.00
84_Y	138_F	0.971	1.00
56_G	78_G	0.970	1.00
285_K	289_Q	0.969	1.00
48_V	81_A	0.967	1.00
16_T	36_L	0.966	1.00
275_A	280_P	0.965	1.00
174_M	178_R	0.956	1.00
151_S	187_A	0.955	1.00
170_E	174_M	0.954	1.00
57_A	80_D	0.949	1.00
223_V	285_K	0.946	1.00
291_L	295_V	0.944	1.00
47_T	81_A	0.940	1.00
54_A	198_A	0.935	1.00
188_A	192_G	0.934	1.00
226_A	241_E	0.930	1.00
272_G	276_E	0.918	1.00
113_S	116_A	0.917	1.00
107_L	230_S	0.913	1.00
57_A	79_E	0.909	1.00
18_A	83_D	0.907	1.00
138_F	144_A	0.906	1.00
101_I	124_I	0.906	1.00
282_G	285_K	0.904	1.00
136_A	153_V	0.903	1.00
215_V	295_V	0.902	1.00
220_R	292_A	0.898	1.00
165_A	172_E	0.898	1.00
166_R	246_P	0.895	1.00
167_P	244_D	0.894	1.00
176_L	245_R	0.887	1.00
41_R	44_P	0.882	1.00
90_L	133_E	0.879	1.00
279_L	282_G	0.872	1.00
9_A	13_Q	0.872	1.00
84_Y	195_A	0.871	1.00
44_P	93_N	0.870	1.00
189_A	209_Y	0.869	1.00
233_L	237_A	0.866	1.00
11_I	86_V	0.862	1.00
259_L	282_G	0.859	1.00
8_R	12_E	0.858	1.00
94_A	131_L	0.856	1.00
273_A	277_L	0.855	1.00
114_A	117_E	0.854	1.00
31_L	130_L	0.854	1.00
253_D	284_A	0.853	1.00
190_E	204_E	0.853	1.00
112_A	117_E	0.851	1.00
10_A	13_Q	0.844	1.00
162_E	245_R	0.843	1.00
174_M	215_V	0.843	1.00
11_I	15_I	0.841	1.00
12_E	16_T	0.839	1.00
147_C	150_D	0.834	1.00
260_N	263_A	0.822	1.00
104_R	120_Y	0.821	1.00
161_I	165_A	0.819	1.00
170_E	287_Y	0.819	1.00
31_L	129_G	0.819	1.00
29_D	33_H	0.816	1.00
186_R	210_A	0.814	1.00
289_Q	293_E	0.814	1.00
97_V	123_G	0.813	1.00
248_I	288_L	0.810	1.00
52_E	78_G	0.806	1.00
208_E	211_E	0.806	1.00
111_S	117_E	0.801	1.00
136_A	140_R	0.792	1.00
227_T	260_N	0.791	1.00
56_G	81_A	0.789	1.00
46_L	213_V	0.787	1.00
18_A	140_R	0.785	1.00
164_V	168_E	0.782	1.00
139_S	146_E	0.782	1.00
205_R	209_Y	0.782	1.00
53_A	206_F	0.781	1.00
43_R	217_F	0.780	1.00
204_E	207_G	0.779	1.00
86_V	137_L	0.779	1.00
228_A	232_A	0.770	1.00
106_E	115_W	0.768	1.00
224_L	228_A	0.766	1.00
211_E	215_V	0.756	1.00
33_H	111_S	0.754	1.00
203_V	207_G	0.749	1.00
18_A	137_L	0.748	1.00
91_V	148_V	0.747	1.00
26_E	122_P	0.747	1.00
194_I	203_V	0.746	1.00
257_D	261_R	0.745	1.00
95_S	184_L	0.744	1.00
220_R	289_Q	0.744	1.00
47_T	85_A	0.743	1.00
253_D	282_G	0.742	1.00
114_A	118_Y	0.742	1.00
34_V	97_V	0.741	1.00
47_T	188_A	0.739	1.00
8_R	45_T	0.739	1.00
227_T	285_K	0.737	1.00
221_D	224_L	0.737	1.00
11_I	48_V	0.736	1.00
147_C	151_S	0.736	1.00
171_R	174_M	0.735	1.00
136_A	146_E	0.735	1.00
31_L	126_A	0.734	1.00
266_Q	269_R	0.730	1.00
248_I	291_L	0.725	1.00
36_L	111_S	0.725	1.00
263_A	266_Q	0.718	1.00
280_P	286_D	0.717	1.00
207_G	211_E	0.717	1.00
97_V	101_I	0.715	1.00
148_V	191_L	0.714	1.00
81_A	195_A	0.713	1.00
129_G	156_G	0.713	1.00
170_E	248_I	0.709	1.00
33_H	118_Y	0.709	1.00
135_F	149_T	0.706	1.00
259_L	262_L	0.701	1.00
212_R	269_R	0.700	1.00
225_D	239_V	0.700	1.00
82_L	86_V	0.699	1.00
257_D	264_G	0.698	1.00
20_G	28_G	0.695	1.00
121_G	163_L	0.680	0.99
274_L	279_L	0.678	0.99
284_A	288_L	0.673	0.99
131_L	156_G	0.671	0.99
185_F	213_V	0.670	0.99
34_V	93_N	0.665	0.99
217_F	221_D	0.661	0.99
191_L	195_A	0.658	0.99
233_L	236_P	0.658	0.99
285_K	288_L	0.658	0.99
220_R	223_V	0.656	0.99
199_D	204_E	0.653	0.99
83_D	137_L	0.653	0.99
155_L	185_F	0.653	0.99
173_Y	248_I	0.648	0.99
228_A	237_A	0.644	0.99
47_T	192_G	0.641	0.99
132_G	156_G	0.639	0.99
92_H	95_S	0.637	0.99
20_G	23_E	0.636	0.99
176_L	179_R	0.632	0.99
14_R	82_L	0.632	0.99
24_P	28_G	0.629	0.99
102_I	156_G	0.629	0.99
205_R	208_E	0.624	0.99
182_G	215_V	0.623	0.99
179_R	183_A	0.623	0.99
252_T	291_L	0.622	0.99
148_V	151_S	0.621	0.99
15_I	36_L	0.621	0.99
120_Y	124_I	0.619	0.99
20_G	32_E	0.616	0.99
10_A	14_R	0.615	0.99
83_D	86_V	0.614	0.99
230_S	233_L	0.612	0.99
118_Y	126_A	0.612	0.99
135_F	138_F	0.610	0.99
30_Q	126_A	0.602	0.99
147_C	207_G	0.599	0.99
157_E	179_R	0.599	0.99
225_D	233_L	0.598	0.99
150_D	190_E	0.598	0.99
181_T	217_F	0.596	0.99
143_R	147_C	0.595	0.99
94_A	132_G	0.594	0.99
274_L	277_L	0.593	0.99
174_M	295_V	0.591	0.98
47_T	51_C	0.589	0.98
56_G	192_G	0.589	0.98
238_G	271_L	0.588	0.98
105_S	236_P	0.587	0.98
265_E	270_A	0.586	0.98
249_V	252_T	0.585	0.98
97_V	130_L	0.585	0.98
287_Y	291_L	0.582	0.98
266_Q	270_A	0.580	0.98
30_Q	122_P	0.580	0.98
276_E	280_P	0.580	0.98
28_G	152_L	0.579	0.98
221_D	235_K	0.577	0.98
239_V	242_A	0.577	0.98
162_E	166_R	0.574	0.98
160_A	164_V	0.571	0.98
220_R	263_A	0.571	0.98
209_Y	212_R	0.569	0.98
259_L	263_A	0.568	0.98
178_R	183_A	0.568	0.98
248_I	252_T	0.566	0.98
88_V	191_L	0.563	0.98
253_D	277_L	0.563	0.98
140_R	150_D	0.561	0.98
101_I	121_G	0.561	0.98
254_R	264_G	0.560	0.98
105_S	225_D	0.558	0.98
51_C	195_A	0.557	0.98
88_V	188_A	0.556	0.98
133_E	153_V	0.555	0.98
90_L	130_L	0.551	0.98
171_R	175_E	0.548	0.98
11_I	82_L	0.546	0.97
43_R	92_H	0.545	0.97
181_T	185_F	0.544	0.97
137_L	140_R	0.543	0.97
232_A	237_A	0.542	0.97
102_I	163_L	0.542	0.97
165_A	168_E	0.541	0.97
132_G	135_F	0.540	0.97
79_E	83_D	0.539	0.97
154_E	157_E	0.538	0.97
156_G	163_L	0.536	0.97
162_E	176_L	0.536	0.97
40_K	217_F	0.535	0.97
212_R	215_V	0.535	0.97
183_A	211_E	0.534	0.97
37_A	93_N	0.532	0.97
263_A	274_L	0.530	0.97
166_R	243_L	0.527	0.97
94_A	102_I	0.525	0.97
170_E	251_V	0.524	0.97
54_A	206_F	0.522	0.97
176_L	246_P	0.521	0.97
35_V	93_N	0.520	0.97
227_T	289_Q	0.517	0.97
79_E	82_L	0.512	0.96
22_V	28_G	0.512	0.96
259_L	266_Q	0.510	0.96
47_T	191_L	0.509	0.96
34_V	247_S	0.508	0.96
42_V	185_F	0.507	0.96
200_G	203_V	0.506	0.96
225_D	236_P	0.506	0.96
220_R	227_T	0.504	0.96
180_K	218_Q	0.504	0.96
198_A	203_V	0.502	0.96
250_Q	267_S	0.500	0.96

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
3oyrA	2	0.9267	100	0.113	Contact Map
4jxyA	5	0.8633	100	0.115	Contact Map
1wy0A	2	0.93	100	0.118	Contact Map
3wjkA	2	0.9067	100	0.119	Contact Map
4lobA	2	0.8767	100	0.123	Contact Map
3aqbB	1	0.9233	100	0.126	Contact Map
3mzvA	2	0.9267	100	0.126	Contact Map
3lmdA	2	0.8633	100	0.127	Contact Map
4dhdA	2	0.9033	100	0.128	Contact Map
3nf2A	2	0.9267	100	0.128	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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