YQHD - ECOLI - GREMLIN Contacts

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YQHD - Alcohol dehydrogenase YqhD

UniProt:	Q46856	Sequences: MNNFNLHTPTRILFGKGAIAGLREQIPHDARVLITYGGGSVKKTGVLDQVLDALKGMDVLEFGGIEPNPAYETLMNAVKLVREQKVTFLLAVGGGSVLDGTKFIAAAANYPENIDPWHILQTGGKEIKSAIPMGCVLTLPATGSESNAGAVISRKTTGDKQAFHSAHVQPVFAVLDPVYTYTLPPRQVANGVVDAFVHTVEQYVTKPVDAKIQDRFAEGILLTLIEDGPKALKEPENYDVRANVMWAATQALNGLIGAGVPQDWATHMLGHELTAMHGLDHAQTLAIVLPALWNEKRDTKRAKLLQYAERVWNITEGSDDERIDAAIAATRNFFEQLGVPTHLSDYGLDGSSIPALLKKLEEHGMTQLGENHDITLDVSRRIYEAAR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13014
Length:	387 (361)
Sequences:	10233 (6953)
Seq/√Len:	365.9

ECOLI - YQHD ADHE ADH2 EUTG FUCO GLDA YBDH
BACSU - YUGK YUGJ GBSB G1PDH
HALSA - Q9HNB5 Q9HHR2 G1PDH
SULSO - G1PDH Q97VW4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
358_K	376_L	3.858	1.00
354_P	380_R	3.822	1.00
229_P	336_Q	3.582	1.00
294_N	331_R	3.201	1.00
350_G	384_E	3.178	1.00
79_K	83_E	3.124	1.00
72_E	155_K	2.888	1.00
234_E	237_N	2.815	1.00
77_A	104_I	2.717	1.00
230_K	237_N	2.685	1.00
227_D	243_N	2.583	1.00
375_T	378_V	2.547	1.00
181_Y	238_Y	2.525	1.00
48_D	52_D	2.514	1.00
31_R	58_D	2.488	1.00
16_K	178_V	2.435	1.00
353_I	380_R	2.383	1.00
269_L	383_Y	2.363	1.00
349_D	352_S	2.333	1.00
64_G	76_N	2.305	1.00
219_G	222_L	2.267	1.00
21_G	24_E	2.262	1.00
32_V	88_F	2.234	1.00
380_R	384_E	2.225	1.00
199_T	220_I	2.213	1.00
342_H	345_D	2.192	1.00
18_A	21_G	2.138	1.00
175_L	245_M	2.080	1.00
332_N	336_Q	2.035	1.00
214_D	303_K	2.032	1.00
17_G	178_V	2.031	1.00
195_A	224_L	1.932	1.00
81_V	131_I	1.930	1.00
98_L	135_C	1.916	1.00
196_F	221_L	1.915	1.00
116_P	119_I	1.897	1.00
357_L	380_R	1.893	1.00
376_L	380_R	1.872	1.00
60_L	84_Q	1.845	1.00
89_L	101_T	1.830	1.00
66_E	73_T	1.827	1.00
30_A	87_T	1.816	1.00
190_N	283_Q	1.791	1.00
188_V	241_R	1.780	1.00
81_V	108_A	1.753	1.00
296_K	370_E	1.742	1.00
356_L	383_Y	1.738	1.00
329_A	332_N	1.736	1.00
51_L	55_K	1.718	1.00
308_A	326_A	1.707	1.00
357_L	376_L	1.696	1.00
225_I	311_V	1.689	1.00
229_P	233_K	1.682	1.00
270_G	284_T	1.669	1.00
16_K	238_Y	1.660	1.00
287_I	346_Y	1.655	1.00
354_P	376_L	1.634	1.00
233_K	336_Q	1.619	1.00
48_D	51_L	1.616	1.00
302_A	319_D	1.611	1.00
221_L	307_Y	1.586	1.00
335_E	341_T	1.576	1.00
73_T	76_N	1.571	1.00
60_L	86_V	1.535	1.00
192_V	228_G	1.522	1.00
185_P	189_A	1.522	1.00
91_A	133_M	1.512	1.00
11_R	25_Q	1.508	1.00
309_E	322_R	1.498	1.00
180_T	241_R	1.495	1.00
76_N	79_K	1.494	1.00
80_L	84_Q	1.493	1.00
381_R	384_E	1.479	1.00
60_L	80_L	1.478	1.00
293_W	330_T	1.470	1.00
294_N	324_D	1.469	1.00
23_R	53_A	1.462	1.00
239_D	243_N	1.460	1.00
16_K	242_A	1.458	1.00
276_M	355_A	1.457	1.00
154_R	157_T	1.456	1.00
328_A	332_N	1.453	1.00
32_V	90_L	1.453	1.00
20_A	49_Q	1.448	1.00
26_I	88_F	1.442	1.00
218_E	306_Q	1.429	1.00
74_L	152_I	1.419	1.00
39_G	44_T	1.418	1.00
186_R	283_Q	1.418	1.00
25_Q	28_H	1.402	1.00
55_K	59_V	1.397	1.00
178_V	238_Y	1.382	1.00
78_V	107_A	1.372	1.00
355_A	359_K	1.372	1.00
192_V	244_V	1.371	1.00
35_T	104_I	1.369	1.00
269_L	288_V	1.358	1.00
218_E	310_R	1.346	1.00
279_L	284_T	1.342	1.00
193_V	334_F	1.340	1.00
180_T	245_M	1.336	1.00
80_L	83_E	1.329	1.00
91_A	101_T	1.323	1.00
352_S	355_A	1.319	1.00
75_M	115_D	1.318	1.00
185_P	232_L	1.310	1.00
71_Y	75_M	1.310	1.00
49_Q	178_V	1.304	1.00
31_R	60_L	1.297	1.00
13_L	25_Q	1.289	1.00
51_L	59_V	1.289	1.00
237_N	240_V	1.284	1.00
109_N	129_S	1.280	1.00
81_V	86_V	1.271	1.00
188_V	235_P	1.265	1.00
358_K	362_E	1.263	1.00
227_D	230_K	1.257	1.00
89_L	105_A	1.252	1.00
378_V	381_R	1.251	1.00
230_K	234_E	1.248	1.00
12_I	249_T	1.245	1.00
297_R	324_D	1.242	1.00
105_A	130_A	1.241	1.00
75_M	79_K	1.238	1.00
25_Q	172_F	1.234	1.00
33_L	86_V	1.232	1.00
134_G	172_F	1.229	1.00
66_E	70_A	1.228	1.00
227_D	240_V	1.226	1.00
226_E	243_N	1.224	1.00
295_E	378_V	1.223	1.00
193_V	339_V	1.217	1.00
116_P	120_L	1.211	1.00
35_T	65_I	1.208	1.00
353_I	384_E	1.208	1.00
218_E	222_L	1.198	1.00
79_K	82_R	1.198	1.00
305_L	322_R	1.196	1.00
74_L	100_G	1.193	1.00
265_A	374_I	1.189	1.00
324_D	328_A	1.187	1.00
88_F	134_G	1.185	1.00
224_L	244_V	1.184	1.00
377_D	380_R	1.183	1.00
18_A	174_V	1.179	1.00
13_L	21_G	1.178	1.00
35_T	101_T	1.168	1.00
81_V	104_I	1.166	1.00
116_P	121_Q	1.164	1.00
101_T	133_M	1.162	1.00
355_A	358_K	1.154	1.00
70_A	73_T	1.145	1.00
178_V	181_Y	1.145	1.00
33_L	80_L	1.127	1.00
140_P	188_V	1.125	1.00
78_V	82_R	1.119	1.00
307_Y	326_A	1.115	1.00
202_Q	254_G	1.114	1.00
177_P	242_A	1.106	1.00
361_E	376_L	1.098	1.00
219_G	223_T	1.097	1.00
34_I	59_V	1.093	1.00
31_R	84_Q	1.092	1.00
188_V	231_A	1.091	1.00
297_R	323_I	1.090	1.00
183_L	187_Q	1.080	1.00
222_L	310_R	1.079	1.00
19_I	136_V	1.075	1.00
269_L	379_S	1.073	1.00
215_R	219_G	1.072	1.00
16_K	181_Y	1.070	1.00
377_D	381_R	1.067	1.00
15_G	18_A	1.064	1.00
298_D	372_H	1.063	1.00
301_R	320_D	1.063	1.00
17_G	20_A	1.061	1.00
305_L	319_D	1.060	1.00
203_Y	306_Q	1.059	1.00
19_I	49_Q	1.056	1.00
33_L	81_V	1.053	1.00
38_G	64_G	1.050	1.00
146_S	249_T	1.050	1.00
299_T	372_H	1.043	1.00
50_V	92_V	1.042	1.00
71_Y	155_K	1.037	1.00
295_E	372_H	1.027	1.00
266_T	289_L	1.023	1.00
306_Q	309_E	1.021	1.00
31_R	85_K	1.019	1.00
196_F	224_L	1.016	1.00
214_D	217_A	1.012	1.00
72_E	156_T	1.011	1.00
185_P	233_K	1.010	1.00
305_L	323_I	1.003	1.00
309_E	319_D	1.003	1.00
193_V	286_A	1.000	1.00
189_A	232_L	0.997	1.00
38_G	63_G	0.993	1.00
199_T	251_A	0.992	1.00
276_M	359_K	0.990	1.00
52_D	55_K	0.987	1.00
36_Y	63_G	0.986	1.00
268_M	367_Q	0.985	1.00
305_L	309_E	0.982	1.00
266_T	285_L	0.981	1.00
135_C	170_P	0.975	1.00
41_V	47_L	0.972	1.00
22_L	50_V	0.972	1.00
225_I	329_A	0.971	1.00
149_G	164_H	0.967	1.00
68_N	278_G	0.963	1.00
186_R	190_N	0.961	1.00
321_E	325_A	0.958	1.00
34_I	47_L	0.958	1.00
230_K	239_D	0.952	1.00
70_A	155_K	0.952	1.00
181_Y	236_E	0.950	1.00
341_T	345_D	0.950	1.00
231_A	235_P	0.945	1.00
146_S	173_A	0.944	1.00
117_W	121_Q	0.942	1.00
91_A	135_C	0.940	1.00
306_Q	310_R	0.934	1.00
117_W	120_L	0.933	1.00
26_I	134_G	0.926	1.00
65_I	100_G	0.923	1.00
78_V	104_I	0.922	1.00
270_G	274_T	0.919	1.00
223_T	243_N	0.918	1.00
325_A	328_A	0.913	1.00
235_P	241_R	0.913	1.00
230_K	240_V	0.912	1.00
47_L	51_L	0.908	1.00
66_E	76_N	0.908	1.00
202_Q	214_D	0.907	1.00
224_L	247_A	0.905	1.00
17_G	176_D	0.902	1.00
32_V	87_T	0.902	1.00
132_P	171_V	0.896	1.00
319_D	322_R	0.893	1.00
220_I	251_A	0.890	1.00
98_L	137_L	0.890	1.00
62_F	77_A	0.889	1.00
34_I	51_L	0.886	1.00
232_L	338_G	0.883	1.00
78_V	108_A	0.880	1.00
265_A	292_L	0.878	1.00
110_Y	128_K	0.877	1.00
223_T	247_A	0.875	1.00
32_V	57_M	0.873	1.00
20_A	53_A	0.870	1.00
232_L	337_L	0.870	1.00
190_N	280_D	0.865	1.00
246_W	250_Q	0.861	1.00
35_T	97_V	0.861	1.00
15_G	21_G	0.859	1.00
108_A	131_I	0.854	1.00
354_P	358_K	0.854	1.00
19_I	178_V	0.851	1.00
197_V	289_L	0.849	1.00
222_L	226_E	0.848	1.00
200_V	307_Y	0.847	1.00
272_E	383_Y	0.845	1.00
45_G	48_D	0.844	1.00
49_Q	52_D	0.843	1.00
55_K	58_D	0.843	1.00
11_R	28_H	0.842	1.00
291_A	294_N	0.841	1.00
91_A	98_L	0.841	1.00
39_G	43_K	0.840	1.00
19_I	179_Y	0.837	1.00
100_G	104_I	0.836	1.00
359_K	362_E	0.835	1.00
49_Q	53_A	0.833	1.00
49_Q	179_Y	0.833	1.00
105_A	131_I	0.830	1.00
112_E	118_H	0.828	1.00
231_A	240_V	0.828	1.00
140_P	245_M	0.826	1.00
340_P	345_D	0.824	1.00
331_R	335_E	0.820	1.00
202_Q	217_A	0.820	1.00
27_P	57_M	0.819	1.00
38_G	43_K	0.817	1.00
215_R	222_L	0.816	1.00
293_W	304_L	0.814	1.00
227_D	244_V	0.814	1.00
295_E	374_I	0.813	1.00
31_R	87_T	0.811	1.00
204_V	293_W	0.808	1.00
325_A	329_A	0.806	1.00
112_E	119_I	0.804	1.00
200_V	221_L	0.791	1.00
105_A	133_M	0.790	1.00
98_L	144_S	0.783	1.00
272_E	359_K	0.783	1.00
70_A	278_G	0.782	1.00
196_F	200_V	0.780	1.00
216_F	250_Q	0.780	1.00
158_G	278_G	0.778	1.00
148_A	166_A	0.778	1.00
74_L	103_F	0.777	1.00
185_P	338_G	0.776	1.00
239_D	242_A	0.776	1.00
22_L	136_V	0.772	1.00
115_D	118_H	0.771	1.00
185_P	235_P	0.771	1.00
294_N	327_I	0.770	1.00
206_K	373_D	0.769	1.00
72_E	76_N	0.763	1.00
226_E	229_P	0.761	1.00
277_H	352_S	0.760	1.00
307_Y	330_T	0.759	1.00
357_L	361_E	0.758	1.00
19_I	176_D	0.757	1.00
21_G	25_Q	0.755	1.00
135_C	173_A	0.755	1.00
361_E	379_S	0.755	1.00
203_Y	218_E	0.753	1.00
13_L	18_A	0.750	1.00
199_T	217_A	0.750	1.00
353_I	383_Y	0.750	1.00
39_G	45_G	0.750	1.00
273_L	284_T	0.750	1.00
265_A	379_S	0.749	1.00
133_M	171_V	0.747	1.00
298_D	320_D	0.747	1.00
189_A	339_V	0.745	1.00
62_F	76_N	0.745	1.00
183_L	191_G	0.740	1.00
32_V	59_V	0.735	1.00
230_K	233_K	0.731	1.00
260_V	264_W	0.730	1.00
332_N	335_E	0.728	1.00
229_P	232_L	0.726	1.00
194_D	281_H	0.724	1.00
335_E	345_D	0.718	1.00
19_I	50_V	0.717	1.00
293_W	326_A	0.716	0.99
140_P	180_T	0.714	0.99
283_Q	340_P	0.713	0.99
180_T	188_V	0.712	0.99
106_A	168_V	0.711	0.99
225_I	229_P	0.711	0.99
109_N	131_I	0.708	0.99
267_H	281_H	0.708	0.99
74_L	104_I	0.708	0.99
301_R	319_D	0.707	0.99
354_P	357_L	0.707	0.99
36_Y	61_E	0.704	0.99
24_E	28_H	0.704	0.99
340_P	346_Y	0.704	0.99
219_G	250_Q	0.703	0.99
222_L	306_Q	0.701	0.99
33_L	62_F	0.700	0.99
14_F	242_A	0.699	0.99
75_M	107_A	0.698	0.99
290_P	334_F	0.695	0.99
30_A	58_D	0.694	0.99
286_A	334_F	0.694	0.99
288_V	382_I	0.693	0.99
297_R	301_R	0.691	0.99
37_G	43_K	0.689	0.99
308_A	312_W	0.688	0.99
75_M	78_V	0.688	0.99
208_V	303_K	0.687	0.99
227_D	239_D	0.685	0.99
333_F	337_L	0.684	0.99
76_N	80_L	0.684	0.99
175_L	249_T	0.683	0.99
51_L	61_E	0.681	0.99
192_V	337_L	0.679	0.99
203_Y	303_K	0.678	0.99
27_P	30_A	0.677	0.99
91_A	97_V	0.677	0.99
238_Y	242_A	0.676	0.99
44_T	47_L	0.675	0.99
271_H	363_H	0.673	0.99
372_H	378_V	0.668	0.99
270_G	285_L	0.668	0.99
23_R	27_P	0.660	0.99
103_F	150_A	0.660	0.99
295_E	375_T	0.658	0.99
26_I	90_L	0.656	0.99
193_V	337_L	0.656	0.99
31_R	86_V	0.655	0.99
374_I	379_S	0.655	0.99
20_A	178_V	0.651	0.99
200_V	289_L	0.650	0.99
221_L	311_V	0.650	0.99
255_L	260_V	0.650	0.99
81_V	89_L	0.648	0.99
273_L	383_Y	0.645	0.99
194_D	267_H	0.644	0.99
343_L	348_L	0.644	0.99
48_D	55_K	0.643	0.99
68_N	96_S	0.642	0.99
46_V	92_V	0.631	0.99
320_D	324_D	0.630	0.99
226_E	230_K	0.629	0.99
177_P	238_Y	0.629	0.99
134_G	174_V	0.627	0.99
231_A	244_V	0.626	0.99
14_F	246_W	0.626	0.99
197_V	285_L	0.624	0.99
197_V	266_T	0.623	0.99
13_L	172_F	0.623	0.99
19_I	53_A	0.621	0.99
330_T	334_F	0.617	0.99
227_D	231_A	0.617	0.99
146_S	253_N	0.617	0.99
331_R	341_T	0.617	0.99
26_I	54_L	0.615	0.98
23_R	57_M	0.615	0.98
259_G	369_G	0.614	0.98
279_L	346_Y	0.614	0.98
374_I	378_V	0.613	0.98
33_L	84_Q	0.613	0.98
293_W	327_I	0.611	0.98
294_N	297_R	0.610	0.98
322_R	325_A	0.609	0.98
150_A	163_F	0.609	0.98
320_D	323_I	0.608	0.98
348_L	356_L	0.607	0.98
294_N	328_A	0.603	0.98
137_L	248_A	0.602	0.98
273_L	343_L	0.597	0.98
221_L	225_I	0.597	0.98
23_R	26_I	0.597	0.98
200_V	326_A	0.597	0.98
37_G	44_T	0.595	0.98
328_A	331_R	0.594	0.98
103_F	152_I	0.593	0.98
204_V	304_L	0.593	0.98
280_D	283_Q	0.590	0.98
206_K	369_G	0.587	0.98
115_D	119_I	0.586	0.98
110_Y	130_A	0.585	0.98
129_S	167_H	0.585	0.98
29_D	87_T	0.583	0.98
155_K	158_G	0.580	0.98
22_L	53_A	0.579	0.98
136_V	174_V	0.578	0.98
287_I	343_L	0.578	0.98
147_N	252_L	0.578	0.98
130_A	171_V	0.578	0.98
109_N	130_A	0.577	0.98
276_M	356_L	0.577	0.98
41_V	44_T	0.576	0.98
290_P	331_R	0.575	0.98
90_L	134_G	0.573	0.98
221_L	224_L	0.570	0.98
211_K	226_E	0.569	0.97
35_T	77_A	0.568	0.97
16_K	239_D	0.568	0.97
357_L	379_S	0.567	0.97
177_P	245_M	0.566	0.97
285_L	288_V	0.566	0.97
181_Y	241_R	0.566	0.97
283_Q	339_V	0.565	0.97
12_I	173_A	0.563	0.97
374_I	382_I	0.563	0.97
88_F	132_P	0.560	0.97
46_V	49_Q	0.558	0.97
301_R	305_L	0.558	0.97
110_Y	127_I	0.558	0.97
225_I	312_W	0.557	0.97
265_A	268_M	0.556	0.97
203_Y	214_D	0.556	0.97
137_L	175_L	0.555	0.97
360_L	383_Y	0.555	0.97
54_L	59_V	0.554	0.97
46_V	179_Y	0.553	0.97
50_V	53_A	0.553	0.97
229_P	333_F	0.551	0.97
211_K	243_N	0.551	0.97
198_H	251_A	0.551	0.97
160_K	281_H	0.551	0.97
205_T	369_G	0.551	0.97
225_I	333_F	0.549	0.97
307_Y	311_V	0.547	0.97
66_E	278_G	0.547	0.97
210_A	213_Q	0.545	0.97
334_F	339_V	0.545	0.97
229_P	329_A	0.545	0.97
200_V	293_W	0.543	0.97
26_I	57_M	0.542	0.97
273_L	356_L	0.542	0.97
107_A	111_P	0.540	0.97
264_W	369_G	0.538	0.96
207_P	259_G	0.538	0.96
300_K	304_L	0.537	0.96
106_A	126_E	0.536	0.96
157_T	161_Q	0.536	0.96
223_T	250_Q	0.535	0.96
323_I	326_A	0.534	0.96
112_E	115_D	0.533	0.96
274_T	284_T	0.533	0.96
327_I	331_R	0.532	0.96
197_V	264_W	0.532	0.96
350_G	353_I	0.532	0.96
192_V	224_L	0.531	0.96
291_A	382_I	0.531	0.96
304_L	326_A	0.531	0.96
62_F	73_T	0.530	0.96
33_L	60_L	0.529	0.96
6_L	250_Q	0.528	0.96
301_R	323_I	0.527	0.96
80_L	86_V	0.527	0.96
36_Y	97_V	0.527	0.96
334_F	337_L	0.526	0.96
348_L	353_I	0.525	0.96
13_L	174_V	0.524	0.96
271_H	365_M	0.524	0.96
307_Y	312_W	0.523	0.96
68_N	274_T	0.522	0.96
99_D	281_H	0.521	0.96
24_E	27_P	0.520	0.96
89_L	104_I	0.517	0.96
182_T	236_E	0.516	0.96
227_D	247_A	0.516	0.96
189_A	333_F	0.515	0.96
286_A	339_V	0.515	0.96
297_R	304_L	0.512	0.95
111_P	119_I	0.512	0.95
148_A	256_I	0.511	0.95
47_L	92_V	0.511	0.95
295_E	382_I	0.510	0.95
73_T	100_G	0.509	0.95
220_I	250_Q	0.509	0.95
56_G	59_V	0.508	0.95
82_R	111_P	0.508	0.95
34_I	92_V	0.507	0.95
268_M	365_M	0.506	0.95
304_L	308_A	0.504	0.95
223_T	227_D	0.504	0.95
30_A	57_M	0.503	0.95
242_A	246_W	0.502	0.95
192_V	232_L	0.502	0.95
297_R	320_D	0.501	0.95
81_V	84_Q	0.500	0.95
126_E	167_H	0.500	0.95

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
4qgsA	2	0.9819	100	0.108	Contact Map
1vljA	2	0.9845	100	0.113	Contact Map
3bfjA	5	0.9742	100	0.114	Contact Map
3ox4A	2	0.9742	100	0.116	Contact Map
1rrmA	2	0.9742	100	0.138	Contact Map
4fr2A	2	0.9716	100	0.143	Contact Map
3zdrA	2	0.9716	100	0.145	Contact Map
1o2dA	1	0.9199	100	0.18	Contact Map
3w5sA	2	0.8811	100	0.204	Contact Map
3iv7A	2	0.8786	100	0.206	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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