URHG1 - BACSU - GREMLIN Contacts

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URHG1 - Unsaturated rhamnogalacturonyl hydrolase YesR

UniProt:	O31521	Sequences: MAQLIFDEEKVTSVIDRIVKRTFQMDFAWDWPGGVAFYGVAEAYEATENEEYINLLKTWVDEQLEDGLPPLSINGVSIGHTLLFLHKVTGDDVYLETAAEMAEYVLHKAPRFGEGILQHTVNAAEYVFPEQAWADTLMMAGLFMLRIGRVMEREDYFEDGLRQFHGHEDVLQDPVTNLYYHAWDNKAQNHLSGIYWGRANGWAALTMAKALPLIEVTHPSFMIIDGSLRDQLSALVRLQDESGLWHTILDDPDSYLEVSASAGIASALMSSGKLYTKYVQKSLAAILDAVEEDGRVSRVSAGTAVMKNAEGYKQVPYKRIQGWGQGLALTFLADVLKTKKRLYQ	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	344 (309)
Sequences:	1854 (1370)
Seq/√Len:	78.0

BACSU - URHG1 URHG2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
197_G	260_A	5.199	1.00
265_A	282_S	4.362	1.00
236_V	278_Y	3.925	1.00
232_L	268_L	3.921	1.00
50_E	54_N	3.519	1.00
95_L	99_A	3.209	1.00
228_L	271_S	3.204	1.00
244_L	261_S	3.093	1.00
238_L	249_L	2.918	1.00
273_K	334_D	2.861	1.00
242_S	256_L	2.823	1.00
204_A	267_A	2.800	1.00
221_F	225_D	2.718	1.00
272_G	279_V	2.697	1.00
54_N	58_T	2.656	1.00
310_E	314_Q	2.625	1.00
204_A	232_L	2.595	1.00
180_Y	195_Y	2.540	1.00
289_A	298_R	2.497	1.00
77_S	80_H	2.436	1.00
87_K	150_V	2.371	1.00
116_I	132_A	2.342	1.00
283_L	332_L	2.256	1.00
111_R	159_D	2.218	1.00
173_D	176_T	2.152	1.00
299_V	324_G	2.137	1.00
239_Q	282_S	2.047	1.00
276_T	280_Q	2.032	1.00
240_D	256_L	2.013	1.00
161_L	220_S	2.007	1.00
165_H	223_I	2.003	1.00
44_Y	53_I	1.997	1.00
197_G	249_L	1.982	1.00
103_E	107_H	1.977	1.00
204_A	231_Q	1.959	1.00
39_G	329_L	1.942	1.00
284_A	288_D	1.909	1.00
269_M	279_V	1.899	1.00
244_L	285_A	1.884	1.00
114_E	169_D	1.875	1.00
240_D	246_H	1.866	1.00
235_L	264_I	1.862	1.00
173_D	195_Y	1.828	1.00
168_E	230_D	1.815	1.00
243_G	281_K	1.810	1.00
262_A	286_I	1.791	1.00
216_V	221_F	1.779	1.00
148_G	157_F	1.777	1.00
269_M	335_V	1.744	1.00
205_L	263_G	1.712	1.00
57_K	91_D	1.709	1.00
233_S	275_Y	1.675	1.00
177_N	234_A	1.667	1.00
45_E	88_V	1.659	1.00
168_E	227_S	1.657	1.00
212_P	274_L	1.643	1.00
229_R	233_S	1.624	1.00
116_I	166_G	1.600	1.00
154_E	158_E	1.593	1.00
57_K	61_D	1.585	1.00
208_A	228_L	1.585	1.00
245_W	282_S	1.579	1.00
258_V	298_R	1.573	0.99
204_A	235_L	1.561	0.99
225_D	229_R	1.556	0.99
35_V	263_G	1.555	0.99
172_Q	230_D	1.554	0.99
172_Q	177_N	1.544	0.99
161_L	214_I	1.540	0.99
44_Y	47_T	1.533	0.99
215_E	221_F	1.527	0.99
300_S	303_T	1.516	0.99
84_F	146_R	1.497	0.99
54_N	57_K	1.492	0.99
61_D	94_Y	1.474	0.99
86_H	95_L	1.472	0.99
168_E	179_Y	1.468	0.99
133_W	139_M	1.456	0.99
114_E	170_V	1.456	0.99
207_M	224_I	1.438	0.99
158_E	218_H	1.434	0.99
236_V	268_L	1.432	0.99
200_N	231_Q	1.416	0.99
42_E	45_E	1.413	0.99
261_S	282_S	1.401	0.99
144_M	159_D	1.399	0.99
239_Q	285_A	1.368	0.99
137_L	164_F	1.336	0.98
73_I	109_A	1.312	0.98
159_D	162_R	1.309	0.98
53_I	57_K	1.305	0.98
205_L	266_S	1.293	0.98
149_R	213_L	1.280	0.98
232_L	236_V	1.269	0.98
226_G	230_D	1.268	0.98
215_E	218_H	1.264	0.98
73_I	140_A	1.260	0.98
232_L	271_S	1.253	0.97
173_D	180_Y	1.253	0.97
234_A	237_R	1.252	0.97
272_G	277_K	1.248	0.97
247_T	300_S	1.245	0.97
41_A	56_L	1.240	0.97
161_L	224_I	1.238	0.97
259_S	299_V	1.214	0.97
176_T	234_A	1.207	0.97
145_L	213_L	1.206	0.97
280_Q	284_A	1.206	0.97
194_I	248_I	1.203	0.97
143_F	147_I	1.191	0.97
246_H	256_L	1.191	0.97
162_R	166_G	1.186	0.96
291_E	295_R	1.180	0.96
162_R	165_H	1.176	0.96
298_R	317_Y	1.175	0.96
165_H	227_S	1.173	0.96
211_L	221_F	1.171	0.96
61_D	93_V	1.163	0.96
73_I	117_L	1.163	0.96
277_K	280_Q	1.160	0.96
214_I	218_H	1.144	0.96
149_R	157_F	1.138	0.95
270_S	274_L	1.134	0.95
182_A	185_N	1.117	0.95
200_N	249_L	1.114	0.95
60_V	81_T	1.110	0.95
164_F	224_I	1.107	0.95
92_D	96_E	1.104	0.95
223_I	226_G	1.095	0.94
309_A	313_K	1.091	0.94
167_H	171_L	1.077	0.94
46_A	333_A	1.074	0.94
35_V	326_G	1.073	0.94
134_A	199_A	1.071	0.94
102_A	144_M	1.066	0.94
148_G	160_G	1.060	0.93
57_K	85_L	1.057	0.93
92_D	95_L	1.049	0.93
279_V	335_V	1.046	0.93
201_G	327_L	1.044	0.93
228_L	232_L	1.043	0.93
42_E	330_T	1.042	0.93
232_L	275_Y	1.042	0.93
244_L	256_L	1.040	0.93
174_P	222_M	1.038	0.93
246_H	254_S	1.033	0.92
212_P	270_S	1.025	0.92
239_Q	278_Y	1.023	0.92
86_H	89_T	1.020	0.92
247_T	303_T	1.019	0.92
291_E	297_S	1.018	0.92
106_L	159_D	1.014	0.92
265_A	279_V	1.007	0.92
244_L	289_A	1.002	0.91
239_Q	281_K	0.997	0.91
89_T	94_Y	0.996	0.91
130_E	186_K	0.990	0.91
79_G	143_F	0.984	0.91
146_R	213_L	0.980	0.90
301_A	316_P	0.979	0.90
177_N	237_R	0.978	0.90
177_N	230_D	0.978	0.90
302_G	323_W	0.971	0.90
222_M	226_G	0.969	0.90
91_D	94_Y	0.953	0.89
96_E	100_E	0.952	0.89
76_V	105_V	0.950	0.89
201_G	263_G	0.949	0.89
233_S	236_V	0.948	0.89
134_A	203_A	0.947	0.89
83_L	150_V	0.946	0.89
165_H	220_S	0.944	0.89
268_L	278_Y	0.940	0.88
239_Q	261_S	0.939	0.88
79_G	101_M	0.927	0.88
283_L	335_V	0.921	0.87
249_L	264_I	0.917	0.87
76_V	101_M	0.908	0.87
217_T	221_F	0.906	0.87
39_G	326_G	0.905	0.86
180_Y	193_G	0.904	0.86
226_G	229_R	0.903	0.86
179_Y	227_S	0.903	0.86
161_L	165_H	0.897	0.86
220_S	223_I	0.896	0.86
179_Y	203_A	0.896	0.86
144_M	148_G	0.892	0.86
262_A	328_A	0.889	0.85
228_L	267_A	0.889	0.85
246_H	253_D	0.888	0.85
198_R	259_S	0.884	0.85
161_L	218_H	0.882	0.85
80_H	146_R	0.881	0.85
59_W	63_Q	0.877	0.85
119_H	133_W	0.874	0.85
164_F	207_M	0.867	0.84
109_A	117_L	0.865	0.84
98_A	143_F	0.859	0.83
205_L	209_K	0.856	0.83
239_Q	243_G	0.851	0.83
38_Y	42_E	0.850	0.83
86_H	151_M	0.850	0.83
90_G	94_Y	0.844	0.82
119_H	131_Q	0.833	0.82
211_L	225_D	0.830	0.81
266_S	330_T	0.827	0.81
296_V	328_A	0.827	0.81
57_K	94_Y	0.827	0.81
174_P	230_D	0.817	0.80
74_N	167_H	0.804	0.79
245_W	268_L	0.803	0.79
132_A	166_G	0.803	0.79
86_H	92_D	0.801	0.79
164_F	210_A	0.798	0.79
287_L	292_E	0.794	0.78
31_W	323_W	0.792	0.78
71_L	109_A	0.791	0.78
119_H	139_M	0.791	0.78
243_G	282_S	0.789	0.78
195_Y	250_D	0.788	0.78
141_G	164_F	0.786	0.78
45_E	84_F	0.783	0.77
172_Q	179_Y	0.783	0.77
233_S	237_R	0.782	0.77
96_E	99_A	0.782	0.77
137_L	224_I	0.782	0.77
95_L	151_M	0.780	0.77
31_W	247_T	0.779	0.77
244_L	258_V	0.777	0.77
278_Y	281_K	0.775	0.77
172_Q	176_T	0.775	0.77
146_R	150_V	0.774	0.77
280_Q	335_V	0.772	0.76
50_E	53_I	0.771	0.76
158_E	220_S	0.768	0.76
148_G	156_Y	0.767	0.76
299_V	302_G	0.764	0.76
271_S	275_Y	0.762	0.75
302_G	307_K	0.760	0.75
159_D	163_Q	0.754	0.75
47_T	52_Y	0.754	0.75
234_A	238_L	0.751	0.74
44_Y	88_V	0.745	0.74
152_E	156_Y	0.743	0.74
149_R	152_E	0.743	0.74
46_A	336_L	0.740	0.73
253_D	313_K	0.738	0.73
258_V	286_I	0.738	0.73
144_M	164_F	0.737	0.73
36_A	59_W	0.736	0.73
168_E	223_I	0.734	0.73
86_H	90_G	0.732	0.73
72_S	75_G	0.729	0.72
265_A	286_I	0.727	0.72
53_I	88_V	0.727	0.72
32_P	322_G	0.726	0.72
84_F	87_K	0.726	0.72
190_H	251_D	0.725	0.72
305_V	311_G	0.723	0.72
183_W	187_A	0.717	0.71
308_N	311_G	0.715	0.71
132_A	167_H	0.712	0.70
155_D	158_E	0.711	0.70
83_L	98_A	0.710	0.70
79_G	98_A	0.709	0.70
302_G	305_V	0.709	0.70
31_W	321_Q	0.707	0.70
247_T	323_W	0.705	0.70
275_Y	278_Y	0.704	0.70
106_L	224_I	0.704	0.70
246_H	252_P	0.701	0.69
47_T	336_L	0.699	0.69
112_F	116_I	0.698	0.69
43_A	52_Y	0.693	0.68
39_G	333_A	0.692	0.68
216_V	274_L	0.692	0.68
196_W	202_W	0.691	0.68
111_R	115_G	0.690	0.68
102_A	147_I	0.689	0.68
148_G	152_E	0.687	0.68
87_K	146_R	0.687	0.68
83_L	87_K	0.685	0.67
33_G	322_G	0.677	0.67
176_T	195_Y	0.675	0.66
194_I	309_A	0.671	0.66
144_M	156_Y	0.671	0.66
225_D	228_L	0.670	0.66
144_M	160_G	0.669	0.66
158_E	161_L	0.667	0.65
235_L	268_L	0.667	0.65
182_A	186_K	0.666	0.65
232_L	267_A	0.665	0.65
154_E	217_T	0.665	0.65
265_A	331_F	0.663	0.65
148_G	154_E	0.663	0.65
36_A	40_V	0.658	0.64
112_F	185_N	0.658	0.64
227_S	230_D	0.656	0.64
198_R	323_W	0.656	0.64
204_A	228_L	0.656	0.64
225_D	274_L	0.655	0.64
180_Y	191_L	0.654	0.64
302_G	321_Q	0.654	0.64
81_T	90_G	0.650	0.63
268_L	272_G	0.649	0.63
223_I	227_S	0.649	0.63
86_H	91_D	0.647	0.63
184_D	189_N	0.647	0.63
209_K	270_S	0.646	0.63
253_D	256_L	0.646	0.63
245_W	264_I	0.641	0.62
99_A	103_E	0.639	0.62
49_N	296_V	0.638	0.62
65_E	93_V	0.637	0.62
171_L	199_A	0.636	0.62
303_T	315_V	0.633	0.61
244_L	288_D	0.632	0.61
332_L	336_L	0.626	0.61
118_Q	136_T	0.626	0.61
142_L	210_A	0.626	0.61
214_I	331_F	0.625	0.60
258_V	289_A	0.624	0.60
52_Y	180_Y	0.623	0.60
83_L	146_R	0.623	0.60
73_I	136_T	0.621	0.60
50_E	57_K	0.618	0.60
138_M	209_K	0.617	0.59
210_A	224_I	0.617	0.59
140_A	157_F	0.616	0.59
248_I	309_A	0.612	0.59
111_R	163_Q	0.611	0.59
61_D	64_L	0.610	0.59
102_A	153_R	0.609	0.58
117_L	144_M	0.609	0.58
57_K	89_T	0.607	0.58
285_A	299_V	0.607	0.58
286_I	290_V	0.607	0.58
56_L	85_L	0.605	0.58
286_I	328_A	0.602	0.58
102_A	156_Y	0.600	0.57
53_I	85_L	0.599	0.57
41_A	81_T	0.599	0.57
251_D	309_A	0.597	0.57
105_V	140_A	0.596	0.57
299_V	303_T	0.595	0.57
38_Y	138_M	0.595	0.57
99_A	147_I	0.592	0.56
211_L	215_E	0.591	0.56
182_A	322_G	0.591	0.56
110_P	133_W	0.591	0.56
300_S	323_W	0.589	0.56
158_E	222_M	0.587	0.56
156_Y	160_G	0.586	0.56
324_G	327_L	0.584	0.55
137_L	163_Q	0.583	0.55
329_L	333_A	0.583	0.55
30_D	33_G	0.583	0.55
278_Y	282_S	0.582	0.55
138_M	147_I	0.581	0.55
74_N	136_T	0.581	0.55
203_A	207_M	0.579	0.55
145_L	210_A	0.579	0.55
181_H	270_S	0.578	0.55
90_G	95_L	0.577	0.54
247_T	315_V	0.577	0.54
25_M	33_G	0.577	0.54
32_P	327_L	0.577	0.54
25_M	262_A	0.575	0.54
99_A	153_R	0.575	0.54
154_E	174_P	0.574	0.54
145_L	160_G	0.574	0.54
165_H	222_M	0.574	0.54
222_M	225_D	0.574	0.54
51_E	99_A	0.571	0.54
284_A	335_V	0.570	0.53
40_V	43_A	0.569	0.53
171_L	191_L	0.569	0.53
107_H	155_D	0.568	0.53
58_T	292_E	0.566	0.53
204_A	264_I	0.565	0.53
111_R	117_L	0.563	0.53
257_E	324_G	0.563	0.53
169_D	223_I	0.556	0.52
170_V	179_Y	0.556	0.52
130_E	185_N	0.555	0.52
31_W	300_S	0.555	0.52
251_D	313_K	0.555	0.52
153_R	156_Y	0.555	0.52
218_H	222_M	0.553	0.51
32_P	70_P	0.553	0.51
116_I	119_H	0.552	0.51
168_E	172_Q	0.550	0.51
138_M	279_V	0.549	0.51
162_R	329_L	0.548	0.51
147_I	151_M	0.547	0.51
64_L	82_L	0.547	0.51
141_G	171_L	0.547	0.51
230_D	234_A	0.545	0.50
258_V	290_V	0.544	0.50
303_T	323_W	0.544	0.50
72_S	255_Y	0.544	0.50
237_R	241_E	0.543	0.50
74_N	327_L	0.543	0.50
129_P	186_K	0.543	0.50
87_K	217_T	0.542	0.50
244_L	290_V	0.542	0.50
32_P	323_W	0.540	0.50
45_E	87_K	0.540	0.50
161_L	260_A	0.540	0.50
197_G	238_L	0.539	0.50
182_A	187_A	0.539	0.50
51_E	281_K	0.536	0.49
58_T	62_E	0.536	0.49
103_E	153_R	0.534	0.49
307_K	311_G	0.533	0.49
239_Q	245_W	0.533	0.49
164_F	206_T	0.532	0.49
67_G	97_T	0.532	0.49
159_D	164_F	0.531	0.49
135_D	202_W	0.530	0.48
229_R	261_S	0.530	0.48
112_F	166_G	0.529	0.48
283_L	287_L	0.529	0.48
51_E	58_T	0.529	0.48
205_L	208_A	0.529	0.48
113_G	188_Q	0.529	0.48
143_F	163_Q	0.528	0.48
235_L	249_L	0.527	0.48
244_L	286_I	0.526	0.48
98_A	106_L	0.525	0.48
48_E	278_Y	0.525	0.48
85_L	91_D	0.525	0.48
35_V	327_L	0.525	0.48
152_E	158_E	0.523	0.47
247_T	255_Y	0.522	0.47
261_S	286_I	0.520	0.47
203_A	227_S	0.518	0.47
138_M	330_T	0.517	0.47
41_A	88_V	0.516	0.47
55_L	59_W	0.516	0.47
42_E	334_D	0.516	0.47
89_T	96_E	0.516	0.47
85_L	94_Y	0.516	0.47
117_L	197_G	0.514	0.46
315_V	323_W	0.513	0.46
105_V	109_A	0.513	0.46
141_G	160_G	0.513	0.46
89_T	93_V	0.513	0.46
231_Q	267_A	0.511	0.46
97_T	115_G	0.509	0.46
300_S	304_A	0.508	0.46
324_G	329_L	0.508	0.46
272_G	276_T	0.508	0.46
95_L	208_A	0.508	0.46
232_L	278_Y	0.506	0.45
245_W	278_Y	0.505	0.45
58_T	280_Q	0.505	0.45
308_N	329_L	0.504	0.45
248_I	305_V	0.504	0.45
95_L	286_I	0.504	0.45
160_G	224_I	0.503	0.45
262_A	331_F	0.502	0.45
37_F	56_L	0.501	0.45
73_I	245_W	0.500	0.45

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
3k11A	3	0.9826	100	0.319	Contact Map
4ce7A	3	0.9448	100	0.334	Contact Map
4wu0A	1	0.9448	100	0.34	Contact Map
1nc5A	1	0.9651	100	0.344	Contact Map
4xuvA	2	0.9012	100	0.365	Contact Map
3pmmA	1	0.9797	100	0.377	Contact Map
4q88A	1	0.9186	100	0.395	Contact Map
3wiwA	1	0.9157	100	0.547	Contact Map
2zzrA	1	0.9477	100	0.588	Contact Map
2ahfA	1	0.9477	100	0.588	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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