YTAP - BACSU - GREMLIN Contacts

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YTAP - Putative hydrolase YtaP

UniProt:	O34973	Sequences: MRAERRKQLFRLLGDLPDRRPISVETLRIEEREENIVETLLLDLNGHEKAPAYFVKPKKTEGPCPAVLFQHSHGGQYDRGKSELIEGADYLKTPSFSDELTSLGYGVLAIDHWGFGDRRGKAESEIFKEMLLTGKVMWGMMIYDSLSALDYMQSRSDVQPDRIGTIGMSMGGLMAWWTAALDDRIKVCVDLCSQVDHHVLIKTQNLDRHGFYYYVPSLAKHFSASEIQSLIAPRPHLSLVGVHDRLTPAEGVDKIEKELTAVYAGQGAADCYRVVRSASGHFETAVIRHEAVRFLQKWL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	299 (240)
Sequences:	21406 (15281)
Seq/√Len:	986.4

ECOLI - FRSA YJFP DLHH PTRB YGHX YFHR YCJY
BACSU - YTAP CAH YUXL YITV YTMA YQKD
HALSA - Q9HS46 Q9HN07 Q9HPY2 Q9HP29
SULSO - Q97VD6 Q7LX61 Q97YB2 Q97VT8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
113_W	144_D	3.878	1.00
179_A	188_C	3.700	1.00
164_G	187_V	3.538	1.00
45_N	147_S	3.068	1.00
41_L	49_K	3.024	1.00
64_C	106_G	2.682	1.00
43_D	49_K	2.655	1.00
175_A	188_C	2.587	1.00
151_Y	155_R	2.486	1.00
105_Y	296_Q	2.377	1.00
38_E	56_K	2.341	1.00
103_L	292_V	2.328	1.00
66_A	158_V	2.224	1.00
159_Q	162_R	2.206	1.00
242_V	277_S	2.110	1.00
164_G	295_L	2.068	1.00
190_D	193_S	2.044	1.00
52_A	108_L	2.033	1.00
42_L	148_A	2.032	1.00
253_D	275_V	1.996	1.00
256_E	270_D	1.960	1.00
40_L	52_A	1.902	1.00
66_A	106_G	1.885	1.00
103_L	296_Q	1.863	1.00
189_V	291_A	1.861	1.00
271_C	290_E	1.848	1.00
189_V	295_L	1.803	1.00
99_E	103_L	1.774	1.00
149_L	185_I	1.767	1.00
57_P	106_G	1.760	1.00
72_S	169_S	1.751	1.00
56_K	106_G	1.730	1.00
176_W	190_D	1.722	1.00
249_A	275_V	1.715	1.00
272_Y	275_V	1.707	1.00
165_T	178_T	1.703	1.00
168_M	192_C	1.656	1.00
54_F	108_L	1.654	1.00
54_F	106_G	1.641	1.00
108_L	148_A	1.618	1.00
57_P	64_C	1.616	1.00
108_L	152_M	1.603	1.00
66_A	152_M	1.603	1.00
165_T	175_A	1.584	1.00
271_C	297_K	1.584	1.00
227_I	230_L	1.584	1.00
60_T	63_P	1.581	1.00
289_H	293_R	1.572	1.00
42_L	52_A	1.569	1.00
151_Y	154_S	1.564	1.00
168_M	191_L	1.545	1.00
162_R	186_K	1.522	1.00
149_L	163_I	1.509	1.00
242_V	275_V	1.477	1.00
60_T	64_C	1.457	1.00
70_Q	145_S	1.444	1.00
240_V	249_A	1.442	1.00
138_W	141_M	1.437	1.00
106_G	158_V	1.430	1.00
276_R	290_E	1.423	1.00
243_H	278_A	1.411	1.00
249_A	253_D	1.396	1.00
242_V	278_A	1.389	1.00
215_V	218_L	1.372	1.00
145_S	178_T	1.364	1.00
146_L	181_L	1.362	1.00
217_S	221_H	1.357	1.00
67_V	105_Y	1.337	1.00
290_E	293_R	1.333	1.00
150_D	184_R	1.330	1.00
236_H	259_L	1.319	1.00
110_I	148_A	1.310	1.00
165_T	188_C	1.303	1.00
146_L	150_D	1.299	1.00
238_S	256_E	1.294	1.00
146_L	182_D	1.292	1.00
40_L	151_Y	1.286	1.00
216_P	219_A	1.275	1.00
143_Y	181_L	1.274	1.00
216_P	220_K	1.265	1.00
189_V	237_L	1.263	1.00
212_Y	216_P	1.257	1.00
45_N	143_Y	1.253	1.00
187_V	295_L	1.248	1.00
55_V	109_A	1.246	1.00
240_V	252_V	1.242	1.00
238_S	255_I	1.240	1.00
253_D	257_K	1.215	1.00
52_A	148_A	1.214	1.00
39_T	51_P	1.208	1.00
161_D	186_K	1.200	1.00
238_S	252_V	1.197	1.00
259_L	268_A	1.191	1.00
68_L	149_L	1.188	1.00
63_P	159_Q	1.174	1.00
71_H	112_H	1.171	1.00
66_A	108_L	1.167	1.00
150_D	154_S	1.165	1.00
136_V	139_G	1.154	1.00
97_S	101_T	1.148	1.00
38_E	155_R	1.138	1.00
256_E	272_Y	1.125	1.00
179_A	234_R	1.115	1.00
70_Q	110_I	1.113	1.00
150_D	182_D	1.111	1.00
41_L	51_P	1.104	1.00
66_A	163_I	1.095	1.00
67_V	100_L	1.082	1.00
65_P	162_R	1.070	1.00
188_C	236_H	1.063	1.00
274_V	290_E	1.055	1.00
69_F	166_I	1.047	1.00
36_I	58_K	1.045	1.00
190_D	238_S	1.045	1.00
67_V	166_I	1.039	1.00
212_Y	215_V	1.039	1.00
46_G	113_W	1.038	1.00
69_F	97_S	1.031	1.00
237_L	274_V	1.025	1.00
44_L	48_E	1.022	1.00
49_K	119_R	1.016	1.00
147_S	150_D	1.002	1.00
97_S	109_A	0.998	1.00
98_D	102_S	0.994	1.00
153_Q	184_R	0.993	1.00
191_L	239_L	0.988	1.00
142_I	177_W	0.980	1.00
36_I	56_K	0.980	1.00
256_E	260_T	0.979	1.00
192_C	283_E	0.975	1.00
242_V	249_A	0.972	1.00
292_V	296_Q	0.970	1.00
284_T	288_R	0.967	1.00
139_G	143_Y	0.964	1.00
217_S	220_K	0.960	1.00
176_W	255_I	0.957	1.00
218_L	221_H	0.956	1.00
99_E	292_V	0.956	1.00
213_Y	217_S	0.944	1.00
257_K	265_G	0.943	1.00
65_P	159_Q	0.938	1.00
139_G	181_L	0.927	1.00
68_L	185_I	0.918	1.00
51_P	111_D	0.915	1.00
276_R	279_S	0.914	1.00
166_I	189_V	0.913	1.00
213_Y	216_P	0.913	1.00
187_V	294_F	0.908	1.00
211_F	214_Y	0.906	1.00
285_A	288_R	0.905	1.00
253_D	272_Y	0.902	1.00
176_W	193_S	0.902	1.00
177_W	181_L	0.901	1.00
254_K	257_K	0.900	1.00
180_A	231_I	0.899	1.00
106_G	157_D	0.897	1.00
39_T	53_Y	0.896	1.00
146_L	185_I	0.896	1.00
37_V	55_V	0.890	1.00
143_Y	147_S	0.889	1.00
267_G	270_D	0.884	1.00
188_C	234_R	0.883	1.00
229_S	258_E	0.882	1.00
153_Q	158_V	0.876	1.00
271_C	274_V	0.872	1.00
55_V	101_T	0.872	1.00
223_S	226_E	0.869	1.00
52_A	110_I	0.862	1.00
172_G	190_D	0.855	1.00
239_L	274_V	0.855	1.00
195_V	255_I	0.855	1.00
276_R	286_V	0.853	1.00
187_V	235_P	0.848	1.00
166_I	191_L	0.846	1.00
153_Q	160_P	0.846	1.00
146_L	178_T	0.844	1.00
220_K	226_E	0.844	1.00
67_V	295_L	0.842	1.00
176_W	236_H	0.842	1.00
68_L	108_L	0.837	1.00
99_E	102_S	0.837	1.00
186_K	235_P	0.835	1.00
70_Q	165_T	0.830	1.00
70_Q	175_A	0.830	1.00
175_A	190_D	0.827	1.00
73_H	170_M	0.822	1.00
145_S	174_M	0.819	1.00
286_V	290_E	0.814	1.00
293_R	297_K	0.808	1.00
260_T	270_D	0.806	1.00
140_M	143_Y	0.801	1.00
229_S	266_Q	0.799	1.00
42_L	110_I	0.797	1.00
258_E	266_Q	0.794	1.00
150_D	153_Q	0.791	1.00
153_Q	156_S	0.789	1.00
172_G	193_S	0.789	1.00
206_L	209_H	0.787	1.00
237_L	290_E	0.786	1.00
101_T	107_V	0.784	1.00
165_T	185_I	0.779	1.00
63_P	157_D	0.778	1.00
159_Q	186_K	0.777	1.00
61_E	64_C	0.775	1.00
196_D	223_S	0.773	1.00
71_H	115_F	0.773	1.00
42_L	147_S	0.772	1.00
44_L	147_S	0.767	1.00
44_L	50_A	0.767	1.00
268_A	271_C	0.759	1.00
180_A	255_I	0.757	1.00
225_S	228_Q	0.753	1.00
200_L	203_T	0.749	1.00
193_S	247_T	0.748	1.00
240_V	247_T	0.747	1.00
169_S	281_H	0.739	1.00
48_E	119_R	0.739	1.00
56_K	157_D	0.732	1.00
196_D	254_K	0.727	1.00
214_Y	217_S	0.725	1.00
52_A	151_Y	0.718	1.00
136_V	140_M	0.718	1.00
199_V	254_K	0.713	1.00
51_P	118_R	0.712	1.00
164_G	186_K	0.712	1.00
239_L	276_R	0.711	1.00
111_D	116_G	0.707	1.00
192_C	241_G	0.706	1.00
141_M	170_M	0.706	1.00
46_G	143_Y	0.704	1.00
179_A	236_H	0.701	1.00
213_Y	219_A	0.698	1.00
94_P	98_D	0.697	1.00
212_Y	218_L	0.696	1.00
284_T	287_I	0.695	1.00
238_S	259_L	0.695	1.00
68_L	148_A	0.695	1.00
231_I	234_R	0.694	1.00
189_V	239_L	0.694	1.00
293_R	296_Q	0.691	1.00
199_V	202_K	0.690	1.00
55_V	97_S	0.689	1.00
250_E	253_D	0.686	1.00
69_F	109_A	0.685	1.00
212_Y	219_A	0.681	1.00
215_V	219_A	0.679	1.00
97_S	107_V	0.677	1.00
100_L	166_I	0.676	1.00
192_C	240_V	0.675	1.00
67_V	164_G	0.674	1.00
211_F	215_V	0.670	1.00
213_Y	218_L	0.664	1.00
181_L	227_I	0.663	1.00
69_F	107_V	0.661	1.00
240_V	275_V	0.659	1.00
191_L	291_A	0.655	1.00
40_L	54_F	0.655	1.00
55_V	107_V	0.654	1.00
73_H	112_H	0.651	1.00
142_I	146_L	0.650	1.00
175_A	179_A	0.649	1.00
180_A	227_I	0.647	1.00
153_Q	163_I	0.644	1.00
244_D	281_H	0.640	1.00
192_C	282_F	0.637	1.00
39_T	117_D	0.637	1.00
115_F	118_R	0.636	1.00
54_F	157_D	0.636	1.00
271_C	275_V	0.635	1.00
176_W	195_V	0.631	1.00
214_Y	218_L	0.631	1.00
59_K	64_C	0.629	1.00
56_K	64_C	0.627	1.00
173_L	177_W	0.625	1.00
70_Q	112_H	0.625	1.00
254_K	258_E	0.624	1.00
250_E	254_K	0.621	1.00
101_T	106_G	0.621	1.00
196_D	199_V	0.615	1.00
228_Q	266_Q	0.613	1.00
245_R	280_G	0.612	1.00
231_I	255_I	0.611	1.00
100_L	105_Y	0.611	1.00
105_Y	295_L	0.610	1.00
236_H	268_A	0.609	1.00
31_E	34_E	0.608	1.00
266_Q	270_D	0.607	1.00
34_E	58_K	0.602	1.00
112_H	115_F	0.602	1.00
285_A	289_H	0.602	1.00
113_W	140_M	0.600	1.00
111_D	118_R	0.598	1.00
112_H	170_M	0.594	1.00
68_L	145_S	0.592	1.00
56_K	60_T	0.592	1.00
153_Q	186_K	0.591	1.00
141_M	174_M	0.590	1.00
169_S	244_D	0.587	1.00
231_I	259_L	0.586	1.00
139_G	222_F	0.586	1.00
193_S	240_V	0.585	1.00
228_Q	259_L	0.582	1.00
105_Y	164_G	0.582	1.00
228_Q	255_I	0.581	1.00
228_Q	258_E	0.578	1.00
205_N	246_L	0.577	1.00
177_W	227_I	0.577	1.00
75_G	173_L	0.577	1.00
211_F	219_A	0.575	1.00
194_Q	197_H	0.574	1.00
258_E	265_G	0.572	1.00
207_D	210_G	0.572	1.00
40_L	155_R	0.572	1.00
216_P	221_H	0.572	1.00
199_V	251_G	0.570	1.00
152_M	155_R	0.569	1.00
158_V	163_I	0.565	1.00
173_L	194_Q	0.563	1.00
200_L	204_Q	0.562	1.00
137_M	197_H	0.556	1.00
65_P	105_Y	0.556	1.00
249_A	272_Y	0.555	1.00
206_L	210_G	0.553	1.00
43_D	46_G	0.551	1.00
252_V	272_Y	0.551	1.00
146_L	149_L	0.549	1.00
44_L	113_W	0.547	1.00
259_L	270_D	0.545	1.00
177_W	180_A	0.543	1.00
100_L	292_V	0.543	1.00
44_L	143_Y	0.539	1.00
40_L	108_L	0.536	1.00
50_A	110_I	0.534	1.00
70_Q	174_M	0.534	1.00
199_V	203_T	0.534	1.00
228_Q	231_I	0.533	1.00
192_C	244_D	0.532	1.00
287_I	291_A	0.531	1.00
170_M	174_M	0.527	1.00
48_E	113_W	0.527	1.00
194_Q	247_T	0.525	1.00
44_L	47_H	0.524	1.00
286_V	289_H	0.522	1.00
183_D	233_P	0.520	1.00
100_L	107_V	0.519	1.00
236_H	255_I	0.517	1.00
198_H	202_K	0.517	1.00
142_I	174_M	0.515	1.00
241_G	281_H	0.514	1.00
50_A	118_R	0.512	1.00
198_H	220_K	0.509	1.00
196_D	251_G	0.509	1.00
58_K	102_S	0.507	1.00
211_F	216_P	0.504	1.00
168_M	282_F	0.503	1.00
240_V	272_Y	0.502	1.00
51_P	117_D	0.502	1.00
198_H	216_P	0.501	1.00
184_R	234_R	0.501	1.00
45_N	48_E	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
3nuzA	2	0.9666	100	0.358	Contact Map
2z3zA	2	0.893	100	0.369	Contact Map
1xfdA	2	0.9197	100	0.37	Contact Map
4q1vA	2	0.9331	100	0.372	Contact Map
1vlqA	5	0.9231	100	0.376	Contact Map
4wjlA	2	0.9231	100	0.38	Contact Map
1l7aA	5	0.9231	100	0.382	Contact Map
4hxfB	4	0.9097	100	0.384	Contact Map
2ecfA	2	0.9164	100	0.384	Contact Map
3g8yA	2	0.9732	100	0.387	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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