RNZ - HALSA - GREMLIN Contacts

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RNZ - Ribonuclease Z

UniProt:	Q9HN60	Sequences: MTLEVTFLGTSGAVPTTERNPSSVFVRRNGDAFLFDAGEATQRQMMRYKTGFGVSDVFITHGHGDHVFGLPGLVHTWDFNDRTDPLTIHVPRGLRGDIEDLVFSAGGDVGYPVRITEATPGAVVRSHDDYEVRAFETAHSTASVGYALVEDDRTGRFDRARAEELGVPVGPKFSTLHDGQPVELDDGTVVSPEQVVGDPRPGRTLVYTGDTRPHDPVVSAAEDADLLIHDATFANDASERAAETGHSTAGEAADVATEAGAKALALTHVSSRYAGDASEISAGASGFDGEAFVAHDGLTHEIPFPDAD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	308 (295)
Sequences:	2365 (1709)
Seq/√Len:	99.5

ECOLI - RBN
BACSU - RNZ YHFI
HALSA - RNZ Q9HPR7
SULSO - RNZ Q981E1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
87_T	116_T	4.590	1.00
175_T	180_Q	3.818	1.00
95_R	99_E	3.526	1.00
206_V	224_A	3.512	1.00
133_R	149_V	3.174	1.00
96_G	103_F	3.115	1.00
126_S	151_D	2.941	1.00
225_D	262_K	2.809	1.00
138_A	212_R	2.591	1.00
223_D	260_G	2.579	1.00
31_D	55_S	2.576	1.00
181_P	192_P	2.513	1.00
235_N	250_G	2.504	1.00
85_P	112_P	2.456	1.00
204_T	224_A	2.407	1.00
150_E	203_R	2.398	1.00
87_T	114_R	2.372	1.00
147_A	204_T	2.287	1.00
233_F	244_T	2.266	1.00
97_D	101_L	2.222	1.00
263_A	292_F	2.170	1.00
254_D	258_E	2.140	1.00
93_G	117_E	2.124	1.00
35_F	148_L	2.054	1.00
131_E	149_V	2.051	1.00
74_V	86_L	2.051	1.00
165_L	195_V	2.045	1.00
149_V	204_T	2.030	1.00
265_A	294_A	2.026	1.00
174_S	178_D	2.009	1.00
40_A	43_R	1.988	1.00
58_F	132_V	1.983	1.00
265_A	300_H	1.962	1.00
250_G	286_G	1.961	1.00
219_S	222_E	1.946	1.00
23_S	34_L	1.934	1.00
25_F	34_L	1.895	1.00
123_V	133_R	1.886	1.00
190_V	195_V	1.884	1.00
89_H	116_T	1.881	1.00
158_D	161_R	1.860	1.00
71_P	101_L	1.860	1.00
295_H	298_L	1.848	1.00
229_H	247_S	1.846	1.00
161_R	164_E	1.835	1.00
44_Q	47_R	1.828	1.00
5_V	228_I	1.818	1.00
191_S	194_Q	1.787	1.00
4_E	27_R	1.773	1.00
24_V	267_T	1.768	1.00
181_P	191_S	1.758	1.00
85_P	114_R	1.756	1.00
126_S	131_E	1.750	1.00
184_L	188_T	1.750	1.00
292_F	298_L	1.724	1.00
284_A	288_D	1.695	1.00
25_F	32_A	1.690	1.00
4_E	299_T	1.684	1.00
48_Y	297_G	1.667	1.00
294_A	298_L	1.664	1.00
56_D	89_H	1.663	1.00
183_E	189_V	1.635	1.00
11_S	16_T	1.632	1.00
263_A	290_E	1.620	1.00
235_N	238_S	1.619	1.00
231_A	266_L	1.617	1.00
23_S	41_T	1.617	1.00
218_V	258_E	1.599	1.00
78_D	110_G	1.595	1.00
212_R	251_E	1.593	1.00
5_V	26_V	1.591	1.00
206_V	221_A	1.548	1.00
218_V	255_V	1.546	1.00
222_E	260_G	1.527	1.00
238_S	251_E	1.523	1.00
4_E	301_E	1.513	1.00
7_F	10_T	1.509	1.00
25_F	50_T	1.502	1.00
288_D	291_A	1.458	1.00
135_F	220_A	1.453	1.00
216_P	219_S	1.449	1.00
253_A	287_F	1.439	1.00
285_S	291_A	1.378	0.99
284_A	287_F	1.359	0.99
179_G	192_P	1.356	0.99
64_G	68_F	1.346	0.99
157_F	162_A	1.335	0.99
6_T	299_T	1.335	0.99
44_Q	297_G	1.330	0.99
221_A	259_A	1.325	0.99
215_D	258_E	1.323	0.99
54_V	73_L	1.316	0.99
145_G	208_T	1.289	0.99
20_N	43_R	1.288	0.99
137_T	145_G	1.287	0.99
56_D	87_T	1.270	0.99
137_T	208_T	1.253	0.99
183_E	187_G	1.238	0.99
60_T	146_Y	1.233	0.99
140_S	245_G	1.231	0.99
249_A	253_A	1.223	0.99
218_V	259_A	1.217	0.99
88_I	98_I	1.204	0.99
254_D	257_T	1.199	0.98
239_E	243_E	1.199	0.98
147_A	224_A	1.199	0.98
26_V	148_L	1.197	0.98
221_A	224_A	1.191	0.98
35_F	58_F	1.182	0.98
7_F	294_A	1.180	0.98
159_R	163_E	1.177	0.98
137_T	143_S	1.171	0.98
57_V	73_L	1.163	0.98
192_P	195_V	1.153	0.98
176_L	195_V	1.152	0.98
227_L	261_A	1.140	0.98
286_G	289_G	1.139	0.98
57_V	70_L	1.139	0.98
158_D	197_G	1.138	0.98
248_T	252_A	1.138	0.98
147_A	206_V	1.134	0.98
138_A	245_G	1.131	0.98
136_E	142_A	1.121	0.98
280_I	291_A	1.117	0.98
284_A	291_A	1.109	0.97
292_F	300_H	1.103	0.97
95_R	115_I	1.100	0.97
33_F	130_Y	1.097	0.97
22_S	267_T	1.096	0.97
250_G	254_D	1.095	0.97
95_R	117_E	1.088	0.97
10_T	19_R	1.084	0.97
192_P	196_V	1.079	0.97
167_V	173_F	1.059	0.97
22_S	207_Y	1.059	0.97
256_A	264_L	1.052	0.97
242_A	251_E	1.051	0.97
131_E	151_D	1.051	0.97
42_Q	72_G	1.044	0.96
212_R	245_G	1.042	0.96
250_G	287_F	1.041	0.96
75_H	107_G	1.037	0.96
124_V	146_Y	1.033	0.96
162_A	195_V	1.029	0.96
59_I	94_L	1.020	0.96
285_S	288_D	1.017	0.96
213_P	251_E	1.014	0.96
287_F	291_A	1.014	0.96
5_V	226_L	0.995	0.95
90_V	94_L	0.980	0.95
33_F	148_L	0.966	0.94
64_G	232_T	0.959	0.94
20_N	41_T	0.952	0.94
181_P	193_E	0.948	0.94
26_V	35_F	0.944	0.94
226_L	265_A	0.939	0.94
136_E	144_V	0.934	0.93
224_A	261_A	0.932	0.93
223_D	262_K	0.932	0.93
171_P	175_T	0.927	0.93
216_P	220_A	0.927	0.93
61_H	66_H	0.924	0.93
98_I	115_I	0.924	0.93
90_V	117_E	0.921	0.93
98_I	102_V	0.919	0.93
280_I	285_S	0.918	0.93
7_F	24_V	0.918	0.93
99_E	103_F	0.912	0.93
231_A	249_A	0.897	0.92
63_H	66_H	0.897	0.92
90_V	93_G	0.895	0.92
167_V	176_L	0.883	0.91
213_P	255_V	0.881	0.91
180_Q	192_P	0.881	0.91
32_A	54_V	0.881	0.91
152_D	202_G	0.879	0.91
217_V	255_V	0.876	0.91
11_S	19_R	0.875	0.91
269_V	293_V	0.874	0.91
172_K	175_T	0.872	0.91
280_I	284_A	0.864	0.90
240_R	244_T	0.862	0.90
208_T	217_V	0.859	0.90
241_A	248_T	0.856	0.90
175_T	179_G	0.856	0.90
58_F	89_H	0.855	0.90
88_I	94_L	0.854	0.90
161_R	194_Q	0.851	0.90
191_S	195_V	0.849	0.90
176_L	182_V	0.841	0.89
152_D	201_P	0.841	0.89
222_E	258_E	0.837	0.89
68_F	75_H	0.835	0.89
70_L	74_V	0.822	0.88
251_E	254_D	0.822	0.88
34_L	54_V	0.821	0.88
183_E	186_D	0.819	0.88
165_L	190_V	0.815	0.88
18_E	274_A	0.813	0.87
228_I	267_T	0.813	0.87
17_T	47_R	0.812	0.87
145_G	217_V	0.808	0.87
257_T	287_F	0.806	0.87
101_L	105_A	0.804	0.87
106_G	142_A	0.802	0.87
20_N	44_Q	0.800	0.87
285_S	289_G	0.799	0.87
285_S	290_E	0.799	0.87
39_E	42_Q	0.796	0.86
161_R	165_L	0.794	0.86
253_A	256_A	0.794	0.86
226_L	263_A	0.793	0.86
267_T	294_A	0.791	0.86
168_P	172_K	0.790	0.86
92_R	117_E	0.789	0.86
82_R	111_Y	0.787	0.86
159_R	173_F	0.783	0.85
6_T	48_Y	0.781	0.85
172_K	182_V	0.780	0.85
223_D	261_A	0.774	0.85
276_D	293_V	0.773	0.85
60_T	209_G	0.772	0.85
67_V	105_A	0.771	0.85
61_H	65_D	0.764	0.84
118_A	144_V	0.764	0.84
34_L	45_M	0.763	0.84
197_G	202_G	0.763	0.84
119_T	222_E	0.761	0.84
55_S	84_D	0.760	0.84
176_L	192_P	0.760	0.84
5_V	265_A	0.759	0.84
252_A	261_A	0.759	0.84
143_S	209_G	0.758	0.84
207_Y	228_I	0.758	0.84
13_A	21_P	0.757	0.83
253_A	288_D	0.756	0.83
67_V	71_P	0.753	0.83
217_V	221_A	0.750	0.83
234_A	249_A	0.750	0.83
263_A	300_H	0.748	0.83
265_A	292_F	0.742	0.82
176_L	179_G	0.739	0.82
123_V	126_S	0.736	0.82
135_F	145_G	0.735	0.82
129_D	151_D	0.733	0.81
235_N	249_A	0.732	0.81
102_V	107_G	0.729	0.81
118_A	146_Y	0.726	0.81
45_M	48_Y	0.726	0.81
295_H	300_H	0.724	0.81
165_L	194_Q	0.723	0.81
68_F	105_A	0.722	0.81
204_T	225_D	0.722	0.81
143_S	146_Y	0.717	0.80
27_R	32_A	0.713	0.80
82_R	86_L	0.710	0.79
123_V	131_E	0.709	0.79
218_V	222_E	0.708	0.79
12_G	22_S	0.708	0.79
215_D	218_V	0.708	0.79
139_H	146_Y	0.707	0.79
74_V	88_I	0.705	0.79
214_H	220_A	0.703	0.79
155_G	197_G	0.703	0.79
27_R	205_L	0.702	0.79
179_G	182_V	0.699	0.78
52_F	73_L	0.699	0.78
235_N	282_A	0.699	0.78
135_F	219_S	0.698	0.78
39_E	72_G	0.694	0.78
66_H	210_D	0.693	0.78
121_G	135_F	0.691	0.78
29_N	55_S	0.689	0.77
94_L	98_I	0.688	0.77
215_D	219_S	0.685	0.77
34_L	41_T	0.683	0.77
60_T	208_T	0.682	0.77
209_G	229_H	0.680	0.76
45_M	50_T	0.680	0.76
29_N	127_H	0.678	0.76
231_A	269_V	0.675	0.76
184_L	190_V	0.675	0.76
181_P	189_V	0.674	0.76
11_S	271_S	0.671	0.75
45_M	54_V	0.668	0.75
124_V	133_R	0.667	0.75
197_G	200_R	0.667	0.75
209_G	247_S	0.665	0.75
240_R	243_E	0.665	0.75
68_F	107_G	0.660	0.74
31_D	127_H	0.660	0.74
234_A	237_A	0.660	0.74
137_T	217_V	0.660	0.74
210_D	246_H	0.659	0.74
166_G	170_G	0.659	0.74
281_S	285_S	0.658	0.74
155_G	193_E	0.657	0.74
160_A	163_E	0.653	0.73
134_A	144_V	0.650	0.73
280_I	293_V	0.649	0.73
37_A	41_T	0.648	0.73
62_G	94_L	0.644	0.72
176_L	191_S	0.643	0.72
175_T	178_D	0.643	0.72
276_D	279_E	0.638	0.72
94_L	117_E	0.638	0.72
157_F	177_H	0.637	0.72
66_H	230_D	0.636	0.72
214_H	221_A	0.635	0.71
211_T	252_A	0.634	0.71
100_D	104_S	0.631	0.71
210_D	268_H	0.630	0.71
54_V	57_V	0.629	0.71
253_A	259_A	0.628	0.71
277_A	295_H	0.627	0.70
10_T	296_D	0.624	0.70
170_G	174_S	0.624	0.70
6_T	50_T	0.624	0.70
12_G	269_V	0.619	0.69
282_A	285_S	0.616	0.69
36_D	65_D	0.616	0.69
13_A	232_T	0.615	0.69
73_L	76_T	0.614	0.69
218_V	254_D	0.613	0.69
137_T	209_G	0.611	0.68
217_V	220_A	0.611	0.68
97_D	105_A	0.611	0.68
59_I	88_I	0.607	0.68
229_H	252_A	0.607	0.68
284_A	289_G	0.607	0.68
149_V	152_D	0.606	0.68
31_D	130_Y	0.603	0.67
13_A	271_S	0.603	0.67
238_S	249_A	0.602	0.67
23_S	37_A	0.602	0.67
62_G	97_D	0.602	0.67
203_R	302_I	0.599	0.67
269_V	294_A	0.598	0.67
248_T	256_A	0.595	0.66
90_V	101_L	0.595	0.66
231_A	279_E	0.592	0.66
63_H	230_D	0.590	0.66
77_W	111_Y	0.589	0.66
135_F	147_A	0.588	0.66
214_H	217_V	0.587	0.65
205_L	228_I	0.586	0.65
66_H	246_H	0.583	0.65
74_V	111_Y	0.582	0.65
160_A	164_E	0.582	0.65
36_D	66_H	0.581	0.65
184_L	187_G	0.580	0.64
163_E	168_P	0.579	0.64
36_D	61_H	0.578	0.64
123_V	127_H	0.576	0.64
168_P	173_F	0.573	0.64
229_H	255_V	0.573	0.64
37_A	59_I	0.573	0.64
99_E	115_I	0.571	0.63
19_R	296_D	0.571	0.63
59_I	70_L	0.571	0.63
63_H	210_D	0.568	0.63
26_V	205_L	0.568	0.63
292_F	295_H	0.568	0.63
24_V	228_I	0.565	0.62
61_H	246_H	0.564	0.62
137_T	230_D	0.563	0.62
250_G	282_A	0.562	0.62
246_H	268_H	0.562	0.62
20_N	296_D	0.562	0.62
43_R	47_R	0.561	0.62
135_F	217_V	0.560	0.62
98_I	113_V	0.559	0.62
138_A	214_H	0.556	0.61
24_V	207_Y	0.555	0.61
5_V	207_Y	0.555	0.61
155_G	198_D	0.554	0.61
11_S	17_T	0.554	0.61
127_H	151_D	0.552	0.61
91_P	146_Y	0.552	0.61
74_V	107_G	0.552	0.61
277_A	281_S	0.551	0.61
163_E	166_G	0.550	0.60
198_D	215_D	0.549	0.60
133_R	220_A	0.549	0.60
66_H	268_H	0.547	0.60
155_G	199_P	0.546	0.60
156_R	200_R	0.544	0.60
227_L	255_V	0.544	0.60
266_L	291_A	0.541	0.59
27_R	30_G	0.540	0.59
239_E	242_A	0.539	0.59
94_L	101_L	0.537	0.59
43_R	46_M	0.536	0.58
209_G	213_P	0.536	0.58
213_P	258_E	0.536	0.58
10_T	294_A	0.535	0.58
155_G	202_G	0.535	0.58
175_T	182_V	0.534	0.58
212_R	255_V	0.534	0.58
33_F	58_F	0.534	0.58
147_A	220_A	0.534	0.58
256_A	288_D	0.533	0.58
155_G	196_V	0.533	0.58
178_D	201_P	0.533	0.58
125_R	130_Y	0.532	0.58
209_G	232_T	0.529	0.57
143_S	208_T	0.526	0.57
211_T	214_H	0.526	0.57
213_P	259_A	0.526	0.57
17_T	48_Y	0.523	0.57
12_G	21_P	0.523	0.57
101_L	104_S	0.521	0.56
253_A	264_L	0.521	0.56
135_F	216_P	0.519	0.56
36_D	63_H	0.518	0.56
42_Q	76_T	0.518	0.56
208_T	229_H	0.517	0.56
184_L	189_V	0.516	0.56
57_V	88_I	0.516	0.56
183_E	260_G	0.515	0.56
287_F	290_E	0.514	0.55
281_S	286_G	0.513	0.55
237_A	273_Y	0.513	0.55
121_G	260_G	0.512	0.55
143_S	207_Y	0.511	0.55
61_H	210_D	0.509	0.55
44_Q	48_Y	0.508	0.54
157_F	167_V	0.508	0.54
209_G	269_V	0.508	0.54
282_A	293_V	0.506	0.54
127_H	130_Y	0.505	0.54
64_G	75_H	0.505	0.54
55_S	127_H	0.505	0.54
139_H	145_G	0.505	0.54
129_D	153_R	0.504	0.54
52_F	76_T	0.504	0.54
171_P	174_S	0.503	0.54
167_V	172_K	0.502	0.54
89_H	124_V	0.502	0.54
249_A	273_Y	0.500	0.53
119_T	123_V	0.500	0.53
147_A	221_A	0.500	0.53

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
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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
3zwfA	2	0.7695	100	0.306	Contact Map
1y44A	2	0.9805	100	0.367	Contact Map
2cbnA	2	0.9708	100	0.368	Contact Map
2e7yA	2	0.8474	100	0.53	Contact Map
3jxpA	2	0.8377	100	0.58	Contact Map
1zkpA	2	0.7857	100	0.585	Contact Map
3g1pA	2	0.7338	100	0.6	Contact Map
4ojvA	2	0.8084	100	0.604	Contact Map
3md7A	2	0.763	100	0.614	Contact Map
4jo0A	2	0.7468	100	0.693	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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