OTC2 - ECOLI - GREMLIN Contacts

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OTC2 - Ornithine carbamoyltransferase chain F

UniProt:	P06960	Sequences: MSDLYKKHFLKLLDFTPAQFTSLLTLAAQLKADKKNGKEVQKLTGKNIALIFEKDSTRTRCSFEVAAFDQGARVTYLGPSGSQIGHKESIKDTARVLGRMYDGIQYRGHGQEVVETLAQYAGVPVWNGLTNEFHPTQLLADLMTMQEHLPGKAFNEMTLVYAGDARNNMGNSMLEAAALTGLDLRLLAPKACWPEESLVAECSALAEKHGGKITLTEDVAAGVKGADFIYTDVWVSMGEAKEKWAERIALLRGYQVNAQMMALTDNPNVKFLHCLPAFHDDQTTLGKQMAKEFDLHGGMEVTDEVFESAASIVFDQAENRMHTIKAVMMATLGE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10067
Length:	334 (297)
Sequences:	7174 (3677)
Seq/√Len:	213.4

ECOLI - OTC2 OTC1 YGEW PYRB
BACSU - OTC PYRB
HALSA - PYRB OTCC
SULSO - OTC PYRB

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
258_A	304_E	4.138	1.00
158_T	183_D	3.874	1.00
158_T	185_R	3.335	1.00
41_Q	44_T	3.296	1.00
271_F	301_V	3.160	1.00
160_V	226_A	3.101	1.00
220_A	263_L	3.063	1.00
31_K	147_E	2.827	1.00
145_M	228_F	2.795	1.00
26_L	329_M	2.766	1.00
98_G	122_G	2.721	1.00
99_R	315_D	2.653	1.00
227_D	266_N	2.642	1.00
218_D	221_A	2.596	1.00
148_H	312_I	2.581	1.00
270_K	312_I	2.563	1.00
28_A	146_Q	2.473	1.00
91_K	116_T	2.321	1.00
11_K	133_F	2.319	1.00
49_A	101_Y	2.315	1.00
25_T	146_Q	2.286	1.00
67_A	72_A	2.192	1.00
272_L	312_I	2.188	1.00
28_A	143_M	2.153	1.00
48_I	67_A	2.116	1.00
21_T	146_Q	2.108	1.00
103_G	328_M	2.091	1.00
196_E	200_A	2.037	1.00
138_L	176_A	2.032	1.00
190_K	217_E	2.006	1.00
149_L	268_N	1.954	1.00
187_L	222_G	1.951	1.00
193_W	217_E	1.934	1.00
142_L	176_A	1.910	1.00
223_V	229_I	1.896	1.00
278_F	299_M	1.873	1.00
69_D	325_K	1.853	1.00
261_M	269_V	1.850	1.00
148_H	315_D	1.843	1.00
177_A	184_L	1.828	1.00
99_R	318_E	1.805	1.00
17_P	21_T	1.795	1.00
258_A	262_A	1.767	1.00
68_F	73_R	1.760	1.00
183_D	214_T	1.759	1.00
105_Q	128_G	1.747	1.00
16_T	19_Q	1.682	1.00
216_T	221_A	1.681	1.00
22_S	330_A	1.677	1.00
61_C	97_L	1.659	1.00
110_G	113_V	1.640	1.00
185_R	216_T	1.623	1.00
30_L	329_M	1.578	1.00
136_T	327_V	1.577	1.00
259_Q	262_A	1.569	1.00
48_I	103_G	1.568	1.00
23_L	330_A	1.564	1.00
149_L	157_M	1.553	1.00
264_T	269_V	1.545	1.00
192_C	250_L	1.497	1.00
269_V	310_A	1.490	1.00
26_L	330_A	1.490	1.00
183_D	212_K	1.484	1.00
190_K	193_W	1.480	1.00
173_M	230_Y	1.479	1.00
78_G	81_G	1.478	1.00
53_E	113_V	1.475	1.00
160_V	187_L	1.468	1.00
7_K	19_Q	1.466	1.00
17_P	179_L	1.464	1.00
9_F	139_L	1.446	1.00
133_F	175_E	1.439	1.00
42_K	329_M	1.427	1.00
17_P	155_N	1.426	1.00
228_F	270_K	1.412	1.00
246_E	250_L	1.412	1.00
220_A	260_M	1.382	1.00
27_A	143_M	1.378	1.00
136_T	324_I	1.367	1.00
230_Y	316_Q	1.360	1.00
95_R	307_E	1.355	1.00
229_I	256_V	1.352	1.00
225_G	266_N	1.349	1.00
162_A	223_V	1.341	1.00
219_V	260_M	1.329	1.00
24_L	146_Q	1.321	1.00
188_A	193_W	1.320	1.00
160_V	185_R	1.317	1.00
115_E	119_Q	1.306	1.00
257_N	302_T	1.286	1.00
94_A	117_L	1.282	1.00
24_L	143_M	1.275	1.00
103_G	332_L	1.269	1.00
26_L	29_Q	1.263	1.00
29_Q	33_D	1.252	1.00
60_R	64_E	1.250	1.00
57_T	93_T	1.248	1.00
224_K	263_L	1.242	1.00
95_R	314_F	1.237	1.00
261_M	271_F	1.235	1.00
9_F	327_V	1.234	1.00
12_L	176_A	1.232	1.00
13_L	175_E	1.223	1.00
298_G	303_D	1.222	1.00
322_H	325_K	1.219	1.00
231_T	256_V	1.216	1.00
255_Q	302_T	1.216	1.00
277_A	306_F	1.216	1.00
143_M	323_T	1.208	1.00
153_A	157_M	1.206	1.00
13_L	201_E	1.205	1.00
48_I	105_Q	1.202	1.00
216_T	222_G	1.193	1.00
57_T	87_K	1.184	1.00
91_K	120_Y	1.177	1.00
21_T	180_T	1.167	1.00
297_G	307_E	1.166	1.00
177_A	182_L	1.152	1.00
8_H	118_A	1.144	1.00
185_R	214_T	1.138	1.00
68_F	74_V	1.137	1.00
34_K	69_D	1.135	1.00
57_T	83_Q	1.135	1.00
157_M	228_F	1.129	1.00
261_M	310_A	1.128	1.00
245_A	249_A	1.122	1.00
199_V	215_L	1.119	1.00
104_I	123_V	1.112	1.00
104_I	117_L	1.111	1.00
149_L	227_D	1.109	1.00
66_A	328_M	1.105	1.00
223_V	260_M	1.098	1.00
139_L	327_V	1.093	1.00
256_V	271_F	1.071	1.00
21_T	25_T	1.067	1.00
67_A	74_V	1.067	1.00
28_A	147_E	1.066	1.00
11_K	14_D	1.065	1.00
308_S	311_S	1.060	1.00
149_L	270_K	1.056	1.00
31_K	319_N	1.052	1.00
9_F	15_F	1.051	1.00
112_E	116_T	1.038	1.00
159_L	177_A	1.031	1.00
318_E	322_H	1.029	1.00
174_L	186_L	1.027	1.00
24_L	28_A	1.021	1.00
96_V	317_A	1.020	1.00
55_D	85_G	1.019	1.00
187_L	216_T	1.012	1.00
95_R	120_Y	0.993	1.00
138_L	173_M	0.988	1.00
138_L	169_M	0.983	1.00
142_L	180_T	0.979	1.00
20_F	180_T	0.977	1.00
69_D	321_M	0.964	1.00
306_F	313_V	0.964	1.00
24_L	323_T	0.964	1.00
64_E	76_Y	0.957	1.00
126_W	327_V	0.957	1.00
159_L	173_M	0.945	1.00
103_G	126_W	0.943	1.00
250_L	253_G	0.938	0.99
98_G	123_V	0.937	0.99
61_C	77_L	0.934	0.99
31_K	143_M	0.932	0.99
48_I	72_A	0.931	0.99
217_E	254_Y	0.930	0.99
221_A	224_K	0.923	0.99
11_K	175_E	0.921	0.99
83_Q	93_T	0.920	0.99
32_A	36_N	0.919	0.99
114_V	130_T	0.918	0.99
20_F	179_L	0.917	0.99
153_A	156_E	0.916	0.99
194_P	215_L	0.914	0.99
147_E	319_N	0.914	0.99
165_A	188_A	0.912	0.99
108_G	130_T	0.908	0.99
171_N	198_L	0.901	0.99
111_Q	115_E	0.896	0.99
41_Q	71_G	0.889	0.99
91_K	307_E	0.888	0.99
64_E	68_F	0.888	0.99
149_L	312_I	0.888	0.99
145_M	157_M	0.881	0.99
91_K	95_R	0.880	0.99
47_N	73_R	0.875	0.99
245_A	248_I	0.873	0.99
214_T	221_A	0.872	0.99
8_H	98_G	0.871	0.99
187_L	226_A	0.869	0.99
297_G	306_F	0.869	0.99
246_E	249_A	0.869	0.99
67_A	328_M	0.867	0.99
83_Q	86_H	0.867	0.99
64_E	74_V	0.865	0.99
133_F	172_S	0.863	0.99
154_F	180_T	0.863	0.99
12_L	138_L	0.862	0.99
143_M	147_E	0.858	0.99
220_A	224_K	0.856	0.99
185_R	226_A	0.855	0.99
315_D	318_E	0.854	0.99
106_Y	117_L	0.853	0.99
258_A	308_S	0.852	0.99
47_N	69_D	0.848	0.99
8_H	121_A	0.847	0.99
139_L	323_T	0.844	0.99
25_T	29_Q	0.844	0.99
259_Q	263_L	0.836	0.99
33_D	36_N	0.836	0.99
63_F	136_T	0.831	0.99
132_E	195_E	0.827	0.99
158_T	225_G	0.821	0.99
162_A	229_I	0.820	0.99
297_G	303_D	0.819	0.99
165_A	170_G	0.816	0.99
145_M	154_F	0.815	0.99
83_Q	87_K	0.814	0.99
91_K	303_D	0.811	0.98
261_M	305_V	0.810	0.98
303_D	307_E	0.810	0.98
33_D	40_V	0.810	0.98
6_K	331_T	0.810	0.98
187_L	219_V	0.807	0.98
174_L	184_L	0.804	0.98
53_E	84_I	0.802	0.98
29_Q	32_A	0.801	0.98
261_M	264_T	0.799	0.98
305_V	308_S	0.795	0.98
185_R	225_G	0.793	0.98
28_A	32_A	0.784	0.98
106_Y	113_V	0.782	0.98
145_M	149_L	0.781	0.98
144_T	312_I	0.778	0.98
162_A	260_M	0.775	0.98
46_K	102_D	0.773	0.98
20_F	176_A	0.772	0.98
22_S	26_L	0.770	0.98
47_N	65_V	0.770	0.98
116_T	120_Y	0.767	0.98
10_L	118_A	0.760	0.98
23_L	323_T	0.757	0.98
158_T	226_A	0.755	0.98
303_D	306_F	0.752	0.98
12_L	20_F	0.751	0.98
144_T	319_N	0.751	0.98
49_A	104_I	0.750	0.97
108_G	113_V	0.747	0.97
115_E	118_A	0.746	0.97
95_R	98_G	0.745	0.97
62_S	100_M	0.745	0.97
220_A	259_Q	0.740	0.97
62_S	324_I	0.737	0.97
43_L	103_G	0.735	0.97
150_P	156_E	0.731	0.97
15_F	23_L	0.730	0.97
27_A	326_A	0.729	0.97
326_A	330_A	0.729	0.97
222_G	226_A	0.728	0.97
94_A	121_A	0.728	0.97
256_V	301_V	0.726	0.97
248_I	299_M	0.725	0.97
149_L	228_F	0.724	0.97
174_L	194_P	0.724	0.97
257_N	260_M	0.719	0.97
101_Y	123_V	0.717	0.97
87_K	93_T	0.716	0.97
110_G	131_N	0.715	0.97
170_G	186_L	0.715	0.97
150_P	154_F	0.710	0.97
312_I	315_D	0.709	0.96
33_D	39_E	0.709	0.96
27_A	323_T	0.707	0.96
116_T	119_Q	0.700	0.96
229_I	269_V	0.698	0.96
145_M	177_A	0.696	0.96
66_A	324_I	0.693	0.96
23_L	326_A	0.691	0.96
173_M	177_A	0.689	0.96
223_V	263_L	0.684	0.96
26_L	30_L	0.683	0.96
17_P	209_H	0.682	0.96
18_A	21_T	0.682	0.96
145_M	270_K	0.681	0.96
252_R	255_Q	0.681	0.96
199_V	213_I	0.681	0.96
7_K	330_A	0.680	0.96
235_V	243_K	0.680	0.96
57_T	86_H	0.680	0.96
162_A	219_V	0.680	0.96
261_M	301_V	0.679	0.96
9_F	331_T	0.679	0.96
82_S	87_K	0.671	0.95
112_E	115_E	0.671	0.95
193_W	196_E	0.670	0.95
258_A	302_T	0.668	0.95
6_K	330_A	0.666	0.95
48_I	328_M	0.665	0.95
50_L	67_A	0.665	0.95
90_I	113_V	0.664	0.95
43_L	72_A	0.664	0.95
148_H	270_K	0.664	0.95
298_G	304_E	0.660	0.95
50_L	76_Y	0.659	0.95
50_L	74_V	0.659	0.95
249_A	252_R	0.654	0.95
260_M	263_L	0.653	0.94
193_W	215_L	0.645	0.94
103_G	331_T	0.644	0.94
262_A	310_A	0.644	0.94
159_L	230_Y	0.641	0.94
233_V	237_M	0.639	0.94
138_L	316_Q	0.638	0.94
308_S	313_V	0.636	0.94
20_F	139_L	0.636	0.94
277_A	301_V	0.635	0.94
142_L	146_Q	0.633	0.94
82_S	86_H	0.632	0.93
271_F	305_V	0.632	0.93
12_L	15_F	0.631	0.93
63_F	324_I	0.629	0.93
243_K	248_I	0.629	0.93
160_V	222_G	0.627	0.93
145_M	159_L	0.627	0.93
230_Y	233_V	0.627	0.93
98_G	121_A	0.627	0.93
62_S	136_T	0.626	0.93
229_I	261_M	0.625	0.93
47_N	68_F	0.623	0.93
219_V	223_V	0.621	0.93
65_V	75_T	0.621	0.93
55_D	83_Q	0.620	0.93
230_Y	272_L	0.614	0.92
93_T	97_L	0.612	0.92
162_A	231_T	0.612	0.92
241_K	246_E	0.606	0.92
89_S	307_E	0.606	0.92
175_E	201_E	0.604	0.92
258_A	310_A	0.602	0.92
178_A	209_H	0.602	0.92
129_L	168_N	0.600	0.92
30_L	33_D	0.600	0.92
233_V	278_F	0.598	0.91
126_W	331_T	0.597	0.91
57_T	82_S	0.596	0.91
12_L	133_F	0.595	0.91
39_E	44_T	0.593	0.91
54_K	238_G	0.591	0.91
126_W	328_M	0.590	0.91
194_P	199_V	0.590	0.91
176_A	180_T	0.589	0.91
30_L	39_E	0.589	0.91
142_L	154_F	0.588	0.91
30_L	42_K	0.588	0.91
69_D	102_D	0.587	0.91
10_L	115_E	0.586	0.91
23_L	327_V	0.586	0.91
251_L	302_T	0.586	0.91
112_E	130_T	0.584	0.90
188_A	194_P	0.582	0.90
39_E	42_K	0.581	0.90
138_L	142_L	0.580	0.90
55_D	87_K	0.579	0.90
175_E	198_L	0.576	0.90
178_A	184_L	0.576	0.90
150_P	270_K	0.574	0.90
160_V	229_I	0.573	0.90
239_E	242_E	0.572	0.90
146_Q	153_A	0.567	0.89
306_F	311_S	0.567	0.89
55_D	81_G	0.567	0.89
18_A	22_S	0.566	0.89
242_E	247_R	0.564	0.89
112_E	132_E	0.564	0.89
228_F	272_L	0.563	0.89
147_E	315_D	0.561	0.89
197_S	200_A	0.561	0.89
65_V	321_M	0.560	0.89
8_H	122_G	0.558	0.88
160_V	216_T	0.557	0.88
24_L	27_A	0.555	0.88
328_M	332_L	0.554	0.88
169_M	230_Y	0.553	0.88
63_F	105_Q	0.553	0.88
55_D	82_S	0.551	0.88
104_I	121_A	0.550	0.88
94_A	104_I	0.548	0.88
62_S	96_V	0.547	0.87
63_F	128_G	0.546	0.87
54_K	237_M	0.545	0.87
306_F	314_F	0.544	0.87
41_Q	45_G	0.544	0.87
179_L	209_H	0.541	0.87
133_F	198_L	0.541	0.87
308_S	312_I	0.541	0.87
9_F	20_F	0.541	0.87
217_E	221_A	0.539	0.87
129_L	237_M	0.537	0.86
65_V	69_D	0.536	0.86
188_A	217_E	0.535	0.86
14_D	179_L	0.534	0.86
157_M	227_D	0.533	0.86
191_A	250_L	0.532	0.86
94_A	125_V	0.531	0.86
96_V	99_R	0.531	0.86
25_T	28_A	0.531	0.86
34_K	39_E	0.530	0.86
243_K	278_F	0.530	0.86
31_K	322_H	0.530	0.86
169_M	173_M	0.529	0.86
105_Q	126_W	0.528	0.86
149_L	153_A	0.527	0.85
88_E	92_D	0.527	0.85
13_L	133_F	0.526	0.85
271_F	311_S	0.526	0.85
22_S	25_T	0.525	0.85
154_F	182_L	0.522	0.85
186_L	213_I	0.521	0.85
247_R	251_L	0.521	0.85
166_R	192_C	0.520	0.85
256_V	261_M	0.518	0.84
96_V	314_F	0.517	0.84
60_R	76_Y	0.516	0.84
53_E	108_G	0.514	0.84
109_H	113_V	0.513	0.84
223_V	264_T	0.513	0.84
90_I	106_Y	0.512	0.84
19_Q	330_A	0.512	0.84
146_Q	149_L	0.512	0.84
19_Q	22_S	0.510	0.84
258_A	261_M	0.509	0.83
77_L	82_S	0.509	0.83
214_T	225_G	0.509	0.83
178_A	213_I	0.508	0.83
178_A	211_G	0.508	0.83
169_M	316_Q	0.507	0.83
43_L	328_M	0.505	0.83
191_A	249_A	0.505	0.83
275_L	314_F	0.504	0.83
81_G	84_I	0.503	0.83
195_E	200_A	0.502	0.83
20_F	142_L	0.502	0.83
36_N	40_V	0.501	0.82
187_L	217_E	0.500	0.82

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
4h31A	3	0.991	100	0.049	Contact Map
1duvG	3	0.994	100	0.053	Contact Map
2w37A	5	0.985	100	0.054	Contact Map
1dxhA	6	0.988	100	0.058	Contact Map
1pvvA	6	0.9311	100	0.06	Contact Map
4nf2A	3	0.9162	100	0.063	Contact Map
3gd5A	4	0.8533	100	0.066	Contact Map
4amuA	6	0.988	100	0.067	Contact Map
2i6uA	3	0.9162	100	0.069	Contact Map
1vlvA	6	0.9012	100	0.075	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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