Q9HN59 - HALSA - GREMLIN Contacts

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Q9HN59 - Replication factor C small subunit

UniProt:	Q9HN59	Sequences: MDEPLWIDEHAPSLADLPQASVRDRLRDAVDEPVNLVVYGPSGAGKTAAVRALAAAAHDDPETDLVEVNVADVFGMTKTEISEDPRFASFIDAKRRRNSSKADLVNHVLKETASYSPVSGGYNTILLDNAEAIREDFQQALRRVMERHHEATQFIIATRQPSKLIPPIHSRCFPVSVRAPTDNEVVDVLREIVAAEGVDYEPDGLEFVAGYAEGDLREAVLGAQTTAEQEGEVTMNAAYEALQDVGSDAAVESMLDDAEAGAFTDARSTLDDLLVDEGMSGGEVLDDLLEVARSRYSGDDVAELYALAGDVEFDLTRGTSDRVQLGRLLAELGR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	334 (285)
Sequences:	21197 (13328)
Seq/√Len:	789.5

ECOLI - DPO3X HOLB RARA
BACSU - DPO3X HOLB YRVN
HALSA - Q9HN59 RFCS RFCL
SULSO - RFCS RFCL

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
186_V	206_E	4.120	1.00
8_D	12_P	3.942	1.00
20_A	184_E	3.439	1.00
186_V	190_R	3.142	1.00
181_T	184_E	3.125	1.00
190_R	205_L	2.579	1.00
190_R	202_P	2.471	1.00
182_D	210_G	2.414	1.00
185_V	209_A	2.325	1.00
262_A	265_D	2.280	1.00
313_F	317_R	2.238	1.00
182_D	209_A	2.205	1.00
302_A	306_A	2.197	1.00
49_A	177_V	2.189	1.00
310_D	314_D	2.131	1.00
186_V	205_L	2.125	1.00
267_R	270_L	2.087	1.00
305_Y	309_G	1.991	1.00
239_Y	242_L	1.983	1.00
268_S	272_D	1.963	1.00
191_E	195_A	1.932	1.00
201_E	204_G	1.901	1.00
234_T	237_A	1.897	1.00
312_E	316_T	1.875	1.00
278_G	282_G	1.859	1.00
187_D	190_R	1.830	1.00
291_V	294_S	1.793	1.00
318_G	321_D	1.774	1.00
278_G	281_G	1.769	1.00
68_V	71_A	1.759	1.00
67_E	74_F	1.757	1.00
64_D	67_E	1.741	1.00
199_D	232_E	1.724	1.00
309_G	313_F	1.719	1.00
133_I	136_D	1.703	1.00
309_G	312_E	1.651	1.00
65_L	74_F	1.631	1.00
38_V	177_V	1.619	1.00
252_E	256_D	1.612	1.00
69_N	74_F	1.600	1.00
206_E	210_G	1.588	1.00
15_A	27_R	1.584	1.00
248_D	252_E	1.582	1.00
301_V	305_Y	1.553	1.00
179_A	216_L	1.549	1.00
193_V	205_L	1.542	1.00
39_Y	174_P	1.521	1.00
297_S	300_D	1.521	1.00
189_L	219_A	1.494	1.00
250_A	254_M	1.486	1.00
182_D	206_E	1.482	1.00
37_V	130_A	1.479	1.00
102_A	106_N	1.472	1.00
256_D	260_A	1.468	1.00
289_L	293_R	1.467	1.00
275_V	278_G	1.467	1.00
212_A	219_A	1.464	1.00
261_G	265_D	1.461	1.00
73_V	76_M	1.454	1.00
269_T	273_L	1.450	1.00
188_V	216_L	1.443	1.00
253_S	257_D	1.442	1.00
303_E	307_L	1.422	1.00
259_E	262_A	1.418	1.00
240_E	244_D	1.412	1.00
308_A	312_E	1.409	1.00
65_L	70_V	1.408	1.00
65_L	69_N	1.405	1.00
288_L	292_A	1.395	1.00
114_S	118_V	1.394	1.00
290_E	294_S	1.393	1.00
306_A	310_D	1.382	1.00
186_V	209_A	1.371	1.00
20_A	187_D	1.360	1.00
249_A	253_S	1.359	1.00
302_A	305_Y	1.351	1.00
272_D	276_D	1.349	1.00
258_A	291_V	1.337	1.00
277_E	281_G	1.328	1.00
66_V	69_N	1.324	1.00
126_L	157_A	1.321	1.00
184_E	187_D	1.321	1.00
22_V	175_V	1.320	1.00
287_D	291_V	1.310	1.00
289_L	292_A	1.303	1.00
188_V	191_E	1.301	1.00
115_Y	119_S	1.298	1.00
281_G	284_V	1.296	1.00
72_D	76_M	1.296	1.00
101_K	104_L	1.292	1.00
207_F	210_G	1.291	1.00
269_T	272_D	1.288	1.00
70_V	75_G	1.286	1.00
182_D	186_V	1.285	1.00
180_P	216_L	1.279	1.00
189_L	205_L	1.273	1.00
72_D	75_G	1.272	1.00
192_I	220_V	1.269	1.00
239_Y	244_D	1.268	1.00
133_I	137_F	1.268	1.00
246_G	249_A	1.264	1.00
23_R	27_R	1.261	1.00
69_N	72_D	1.259	1.00
241_A	244_D	1.232	1.00
70_V	73_V	1.232	1.00
298_G	302_A	1.227	1.00
8_D	11_A	1.213	1.00
27_R	31_D	1.213	1.00
39_Y	176_S	1.202	1.00
187_D	191_E	1.201	1.00
235_M	239_Y	1.198	1.00
248_D	251_V	1.189	1.00
183_N	186_V	1.185	1.00
286_D	290_E	1.166	1.00
275_V	279_M	1.157	1.00
70_V	74_F	1.157	1.00
132_A	135_E	1.135	1.00
182_D	213_E	1.132	1.00
230_E	234_T	1.128	1.00
247_S	258_A	1.127	1.00
231_G	235_M	1.126	1.00
232_E	235_M	1.125	1.00
246_G	250_A	1.123	1.00
200_Y	205_L	1.119	1.00
300_D	303_E	1.112	1.00
280_S	283_E	1.107	1.00
288_L	291_V	1.106	1.00
279_M	282_G	1.104	1.00
267_R	271_D	1.101	1.00
261_G	264_T	1.098	1.00
247_S	250_A	1.096	1.00
305_Y	308_A	1.096	1.00
37_V	172_C	1.096	1.00
288_L	293_R	1.082	1.00
252_E	255_L	1.079	1.00
272_D	277_E	1.078	1.00
253_S	256_D	1.069	1.00
69_N	73_V	1.064	1.00
114_S	117_P	1.056	1.00
112_T	116_S	1.053	1.00
250_A	253_S	1.052	1.00
193_V	200_Y	1.051	1.00
71_A	74_F	1.048	1.00
247_S	254_M	1.045	1.00
263_F	266_A	1.039	1.00
230_E	237_A	1.032	1.00
19_Q	22_V	1.030	1.00
276_D	280_S	1.022	1.00
185_V	219_A	1.021	1.00
65_L	72_D	1.016	1.00
192_I	195_A	1.016	1.00
183_N	187_D	1.015	1.00
139_Q	142_R	1.014	1.00
67_E	70_V	1.014	1.00
134_R	137_F	1.013	1.00
281_G	285_L	1.010	1.00
255_L	258_A	1.009	1.00
113_A	117_P	1.007	1.00
205_L	209_A	1.007	1.00
236_N	239_Y	0.993	1.00
239_Y	243_Q	0.991	1.00
189_L	220_V	0.989	1.00
311_V	314_D	0.988	1.00
307_L	311_V	0.977	1.00
291_V	295_R	0.977	1.00
266_A	270_L	0.974	1.00
235_M	238_A	0.967	1.00
267_R	273_L	0.961	1.00
102_A	136_D	0.959	1.00
251_V	255_L	0.957	1.00
297_S	301_V	0.956	1.00
62_E	65_L	0.955	1.00
9_E	196_E	0.955	1.00
207_F	235_M	0.954	1.00
279_M	283_E	0.951	1.00
117_P	149_H	0.951	1.00
201_E	232_E	0.945	1.00
266_A	269_T	0.942	1.00
26_L	53_L	0.942	1.00
265_D	269_T	0.933	1.00
310_D	313_F	0.932	1.00
231_G	239_Y	0.925	1.00
21_S	178_R	0.925	1.00
228_E	237_A	0.924	1.00
275_V	282_G	0.922	1.00
313_F	316_T	0.922	1.00
13_S	55_A	0.922	1.00
50_V	155_I	0.921	1.00
307_L	310_D	0.919	1.00
66_V	70_V	0.917	1.00
299_D	303_E	0.916	1.00
306_A	309_G	0.916	1.00
169_H	174_P	0.914	1.00
233_V	238_A	0.913	1.00
132_A	136_D	0.911	1.00
14_L	55_A	0.908	1.00
47_T	128_D	0.908	1.00
103_D	107_H	0.907	1.00
248_D	255_L	0.902	1.00
112_T	115_Y	0.901	1.00
231_G	237_A	0.900	1.00
140_A	144_V	0.900	1.00
278_G	285_L	0.899	1.00
257_D	265_D	0.898	1.00
254_M	258_A	0.896	1.00
228_E	232_E	0.893	1.00
107_H	110_K	0.893	1.00
183_N	206_E	0.892	1.00
298_G	301_V	0.892	1.00
39_Y	161_P	0.885	1.00
190_R	194_A	0.877	1.00
280_S	284_V	0.874	1.00
54_A	124_T	0.873	1.00
231_G	234_T	0.870	1.00
101_K	105_V	0.868	1.00
282_G	285_L	0.865	1.00
275_V	281_G	0.859	1.00
103_D	106_N	0.857	1.00
179_A	213_E	0.856	1.00
67_E	71_A	0.854	1.00
202_P	206_E	0.852	1.00
232_E	237_A	0.852	1.00
204_G	207_F	0.852	1.00
303_E	306_A	0.852	1.00
208_V	223_A	0.851	1.00
254_M	257_D	0.851	1.00
200_Y	227_A	0.844	1.00
270_L	273_L	0.844	1.00
162_S	165_I	0.842	1.00
249_A	252_E	0.840	1.00
234_T	238_A	0.833	1.00
66_V	73_V	0.833	1.00
198_V	227_A	0.830	1.00
29_A	36_L	0.828	1.00
193_V	223_A	0.827	1.00
300_D	304_L	0.825	1.00
33_P	36_L	0.825	1.00
251_V	254_M	0.824	1.00
13_S	16_D	0.823	1.00
264_T	268_S	0.817	1.00
105_V	109_L	0.815	1.00
283_E	287_D	0.812	1.00
155_I	158_T	0.811	1.00
67_E	72_D	0.807	1.00
185_V	216_L	0.801	1.00
122_Y	153_Q	0.799	1.00
286_D	289_L	0.795	1.00
130_A	164_L	0.791	1.00
247_S	252_E	0.791	1.00
219_A	223_A	0.790	1.00
263_F	267_R	0.789	1.00
271_D	275_V	0.788	1.00
248_D	258_A	0.786	1.00
275_V	285_L	0.786	1.00
25_R	28_D	0.784	1.00
154_F	157_A	0.782	1.00
278_G	284_V	0.779	1.00
236_N	240_E	0.777	1.00
70_V	76_M	0.775	1.00
208_V	219_A	0.763	1.00
154_F	158_T	0.762	1.00
278_G	283_E	0.760	1.00
277_E	280_S	0.759	1.00
279_M	284_V	0.754	1.00
66_V	71_A	0.751	1.00
229_Q	235_M	0.750	1.00
304_L	307_L	0.748	1.00
252_E	257_D	0.747	1.00
209_A	219_A	0.747	1.00
116_S	119_S	0.746	1.00
57_A	153_Q	0.746	1.00
71_A	75_G	0.745	1.00
240_E	243_Q	0.745	1.00
203_D	235_M	0.745	1.00
71_A	140_A	0.744	1.00
10_H	196_E	0.743	1.00
212_A	215_D	0.740	1.00
67_E	75_G	0.739	1.00
63_T	66_V	0.736	1.00
66_V	74_F	0.732	1.00
316_T	319_T	0.727	1.00
140_A	146_E	0.721	1.00
250_A	255_L	0.717	1.00
229_Q	232_E	0.714	1.00
24_D	27_R	0.713	1.00
247_S	251_V	0.712	1.00
64_D	73_V	0.708	1.00
142_R	146_E	0.706	1.00
65_L	68_V	0.704	1.00
233_V	237_A	0.702	1.00
69_N	75_G	0.702	1.00
189_L	208_V	0.702	1.00
304_L	308_A	0.700	1.00
248_D	253_S	0.699	1.00
167_P	171_R	0.699	1.00
282_G	286_D	0.697	1.00
101_K	134_R	0.694	1.00
311_V	315_L	0.694	1.00
9_E	12_P	0.693	1.00
185_V	189_L	0.693	1.00
247_S	256_D	0.692	1.00
104_L	108_V	0.690	1.00
68_V	73_V	0.689	1.00
268_S	271_D	0.688	1.00
255_L	259_E	0.688	1.00
246_G	255_L	0.684	1.00
301_V	304_L	0.682	1.00
277_E	284_V	0.681	1.00
130_A	156_I	0.681	1.00
130_A	154_F	0.679	1.00
53_L	155_I	0.678	1.00
115_Y	118_V	0.671	1.00
247_S	253_S	0.670	1.00
152_T	158_T	0.669	1.00
314_D	319_T	0.667	1.00
228_E	231_G	0.667	1.00
64_D	69_N	0.665	1.00
22_V	25_R	0.663	1.00
65_L	126_L	0.663	1.00
207_F	211_Y	0.656	1.00
219_A	222_G	0.653	1.00
186_V	202_P	0.650	1.00
298_G	305_Y	0.650	1.00
243_Q	247_S	0.649	1.00
292_A	295_R	0.649	1.00
68_V	127_L	0.648	1.00
44_A	177_V	0.647	1.00
102_A	105_V	0.646	1.00
232_E	236_N	0.644	1.00
20_A	24_D	0.643	1.00
112_T	117_P	0.640	1.00
25_R	175_V	0.637	1.00
199_D	202_P	0.637	1.00
277_E	285_L	0.631	1.00
263_F	269_T	0.629	1.00
161_P	174_P	0.628	1.00
71_A	76_M	0.626	1.00
65_L	71_A	0.626	1.00
65_L	73_V	0.624	1.00
284_V	288_L	0.621	1.00
26_L	175_V	0.621	1.00
113_A	116_S	0.620	1.00
109_L	113_A	0.617	1.00
64_D	70_V	0.616	1.00
250_A	257_D	0.616	1.00
105_V	108_V	0.616	1.00
216_L	219_A	0.615	1.00
314_D	317_R	0.614	1.00
247_S	255_L	0.610	1.00
36_L	175_V	0.608	1.00
50_V	126_L	0.607	1.00
212_A	222_G	0.606	1.00
57_A	63_T	0.605	1.00
286_D	293_R	0.604	1.00
66_V	75_G	0.603	1.00
296_Y	301_V	0.602	1.00
298_G	306_A	0.601	1.00
130_A	138_Q	0.598	1.00
62_E	66_V	0.598	1.00
64_D	74_F	0.593	1.00
11_A	64_D	0.592	1.00
275_V	284_V	0.591	1.00
25_R	225_T	0.591	1.00
262_A	267_R	0.589	1.00
239_Y	247_S	0.583	1.00
23_R	49_A	0.576	1.00
188_V	192_I	0.575	1.00
312_E	315_L	0.574	1.00
295_R	298_G	0.574	1.00
290_E	293_R	0.573	1.00
248_D	256_D	0.572	1.00
63_T	67_E	0.571	1.00
40_G	46_K	0.570	1.00
142_R	145_M	0.568	1.00
265_D	268_S	0.568	1.00
311_V	316_T	0.567	1.00
101_K	106_N	0.567	1.00
255_L	290_E	0.563	1.00
68_V	75_G	0.562	1.00
102_A	140_A	0.561	1.00
246_G	258_A	0.560	1.00
65_L	76_M	0.559	1.00
30_V	53_L	0.554	1.00
237_A	241_A	0.552	1.00
258_A	261_G	0.551	1.00
52_A	55_A	0.551	1.00
191_E	194_A	0.550	1.00
180_P	184_E	0.549	1.00
276_D	279_M	0.547	1.00
27_R	56_A	0.545	1.00
247_S	257_D	0.545	1.00
180_P	185_V	0.543	1.00
232_E	239_Y	0.543	1.00
192_I	196_E	0.543	1.00
38_V	49_A	0.542	1.00
224_Q	227_A	0.541	1.00
143_R	146_E	0.541	1.00
10_H	195_A	0.535	1.00
41_P	44_A	0.532	1.00
257_D	262_A	0.531	1.00
10_H	192_I	0.531	1.00
64_D	68_V	0.529	1.00
189_L	223_A	0.528	1.00
36_L	177_V	0.527	1.00
215_D	223_A	0.526	1.00
67_E	73_V	0.526	1.00
233_V	236_N	0.525	1.00
143_R	147_R	0.525	1.00
68_V	72_D	0.523	1.00
231_G	238_A	0.521	1.00
299_D	302_A	0.519	1.00
251_V	257_D	0.518	1.00
259_E	263_F	0.518	1.00
237_A	240_E	0.518	1.00
132_A	137_F	0.518	1.00
106_N	110_K	0.517	1.00
297_S	303_E	0.515	1.00
196_E	233_V	0.510	1.00
243_Q	258_A	0.509	1.00
65_L	75_G	0.508	1.00
208_V	222_G	0.507	1.00
68_V	74_F	0.506	1.00
28_D	31_D	0.505	1.00
113_A	125_I	0.505	1.00
103_D	110_K	0.503	1.00
67_E	76_M	0.503	1.00
300_D	307_L	0.501	1.00
286_D	292_A	0.500	1.00

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
1sxjD	1	0.9042	100	0.381	Contact Map
1iqpA	5	0.9192	100	0.383	Contact Map
2chqA	3	0.9072	100	0.389	Contact Map
1sxjC	1	0.9132	100	0.409	Contact Map
1sxjE	1	0.9012	100	0.434	Contact Map
1jr3A	3	0.9671	100	0.449	Contact Map
3u61B	3	0.8832	100	0.457	Contact Map
1sxjB	1	0.9042	100	0.476	Contact Map
3pvsA	4	0.8862	100	0.509	Contact Map
1a5tA	2	0.9012	100	0.518	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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