YITU - BACSU - GREMLIN Contacts

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YITU - Putative phosphatase YitU

UniProt:	P70947	Sequences: METKPYLIALDLDGTLLKDDKTISENTLHTIQRLKDDGHYVCISTGRPYRSSSMYYQQMELTTPIVNFNGAFVHHPQDDSWGRYHTSLPLDVVKQLVDISESYNVHNVLAEVIDDVYFHYHDEHLIDAFNMNTTNVTVGDLRENLGEDVTSVLIHAKEEDVPAIRSYLSDVHAEVIDHRRWAAPWHVIEIIKSGMNKAVGLQKISDYYGVPRERIIAFGDEDNDLEMLEFAGCGVAMGNGIDAVKQIANRTTATNEEDGVARFLKEYFSL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	270 (254)
Sequences:	10981 (9096)
Seq/√Len:	570.7

ECOLI - COF SUPH YIDA YBHA YBJI YIGL MPGP
BACSU - YITU YWPJ YHAX YXEH YWTE YKRA YCSE NTDB
HALSA - PGP
SULSO - PGP1 PGP2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
253_A	262_R	4.444	1.00
19_D	256_E	3.551	1.00
217_A	231_A	3.162	1.00
254_T	257_E	2.998	1.00
228_L	234_G	2.916	1.00
6_Y	214_R	2.868	1.00
24_S	258_D	2.780	1.00
205_S	215_I	2.610	1.00
26_N	258_D	2.608	1.00
26_N	265_K	2.514	1.00
10_L	41_V	2.437	1.00
18_K	22_T	2.419	1.00
242_D	246_Q	2.406	1.00
45_T	52_S	2.404	1.00
229_E	247_I	2.308	1.00
202_Q	230_F	2.250	1.00
253_A	257_E	2.111	1.00
212_R	230_F	2.058	1.00
196_N	226_E	1.969	1.00
25_E	29_H	1.928	1.00
225_L	244_V	1.915	1.00
5_P	216_I	1.882	1.00
33_R	36_D	1.861	1.00
225_L	247_I	1.841	1.00
222_D	243_A	1.840	1.00
236_A	248_A	1.830	1.00
222_D	241_I	1.824	1.00
84_Y	203_K	1.822	1.00
33_R	265_K	1.802	1.00
234_G	249_N	1.782	1.00
7_L	42_C	1.776	1.00
242_D	245_K	1.752	1.00
31_I	41_V	1.750	1.00
34_L	39_H	1.744	1.00
28_L	58_Q	1.741	1.00
211_P	214_R	1.740	1.00
89_P	92_V	1.718	1.00
9_A	201_L	1.705	1.00
202_Q	206_D	1.689	1.00
33_R	37_D	1.682	1.00
235_V	263_F	1.627	1.00
233_C	249_N	1.617	1.00
203_K	206_D	1.609	1.00
12_L	17_L	1.590	1.00
203_K	207_Y	1.584	1.00
244_V	247_I	1.581	1.00
233_C	250_R	1.564	1.00
199_V	202_Q	1.548	1.00
24_S	27_T	1.544	1.00
10_L	218_F	1.536	1.00
198_A	230_F	1.531	1.00
250_R	267_Y	1.527	1.00
40_Y	208_Y	1.522	1.00
75_H	78_D	1.510	1.00
201_L	227_M	1.502	1.00
5_P	39_H	1.492	1.00
86_T	203_K	1.487	1.00
29_H	33_R	1.459	1.00
100_S	154_I	1.457	1.00
218_F	260_V	1.445	1.00
217_A	227_M	1.438	1.00
5_P	233_C	1.425	1.00
5_P	214_R	1.423	1.00
27_T	258_D	1.416	1.00
213_E	232_G	1.407	1.00
35_K	62_T	1.397	1.00
165_R	169_S	1.393	1.00
101_E	119_H	1.383	1.00
26_N	262_R	1.377	1.00
28_L	32_Q	1.374	1.00
236_A	240_G	1.355	1.00
250_R	263_F	1.336	1.00
218_F	263_F	1.326	1.00
228_L	244_V	1.323	1.00
85_H	148_D	1.321	1.00
30_T	261_A	1.305	1.00
205_S	212_R	1.294	1.00
238_G	254_T	1.294	1.00
92_V	95_Q	1.287	1.00
225_L	229_E	1.285	1.00
212_R	215_I	1.274	1.00
9_A	44_S	1.263	1.00
160_D	163_A	1.248	1.00
243_A	246_Q	1.240	1.00
75_H	79_D	1.231	1.00
90_L	94_K	1.229	1.00
99_I	103_Y	1.210	1.00
86_T	192_K	1.209	1.00
95_Q	171_V	1.198	1.00
32_Q	36_D	1.185	1.00
103_Y	167_Y	1.182	1.00
30_T	265_K	1.180	1.00
215_I	231_A	1.178	1.00
8_I	34_L	1.169	1.00
18_K	256_E	1.167	1.00
217_A	228_L	1.166	1.00
8_I	264_L	1.165	1.00
66_V	200_G	1.160	1.00
26_N	30_T	1.159	1.00
216_I	267_Y	1.155	1.00
245_K	251_T	1.146	1.00
7_L	210_V	1.145	1.00
260_V	264_L	1.142	1.00
250_R	266_E	1.128	1.00
85_H	150_T	1.121	1.00
239_N	255_N	1.120	1.00
42_C	204_I	1.103	1.00
253_A	259_G	1.103	1.00
252_T	263_F	1.102	1.00
237_M	259_G	1.098	1.00
7_L	205_S	1.092	1.00
231_A	234_G	1.092	1.00
151_S	189_E	1.086	1.00
162_P	166_S	1.083	1.00
9_A	215_I	1.082	1.00
192_K	195_M	1.078	1.00
212_R	232_G	1.076	1.00
263_F	267_Y	1.076	1.00
140_D	143_E	1.069	1.00
72_F	82_G	1.069	1.00
73_V	203_K	1.068	1.00
8_I	39_H	1.058	1.00
241_I	244_V	1.056	1.00
25_E	28_L	1.055	1.00
12_L	55_Y	1.039	1.00
252_T	259_G	1.034	1.00
238_G	253_A	1.030	1.00
205_S	230_F	1.029	1.00
16_L	27_T	1.023	1.00
196_N	199_V	1.022	1.00
7_L	215_I	1.022	1.00
181_W	191_I	1.020	1.00
163_A	166_S	1.014	1.00
32_Q	35_K	1.013	1.00
216_I	233_C	1.013	1.00
235_V	252_T	1.009	1.00
166_S	169_S	1.006	1.00
73_V	84_Y	1.003	1.00
19_D	255_N	1.002	1.00
221_E	241_I	0.998	1.00
35_K	63_T	0.996	1.00
201_L	231_A	0.993	1.00
123_E	127_D	0.992	1.00
235_V	250_R	0.989	1.00
216_I	235_V	0.977	1.00
64_P	208_Y	0.973	1.00
16_L	31_I	0.968	1.00
240_G	245_K	0.963	1.00
71_A	195_M	0.962	1.00
261_A	265_K	0.961	1.00
162_P	182_A	0.960	1.00
191_I	196_N	0.959	1.00
238_G	245_K	0.959	1.00
262_R	266_E	0.956	1.00
156_A	160_D	0.954	1.00
49_Y	67_N	0.950	1.00
216_I	263_F	0.950	1.00
32_Q	60_E	0.949	1.00
198_A	226_E	0.941	1.00
98_D	102_S	0.939	1.00
263_F	266_E	0.934	1.00
10_L	260_V	0.933	1.00
94_K	98_D	0.932	1.00
205_S	210_V	0.931	1.00
236_A	244_V	0.930	1.00
163_A	167_Y	0.927	1.00
204_I	208_Y	0.923	1.00
237_M	252_T	0.923	1.00
86_T	194_G	0.921	1.00
202_Q	212_R	0.912	1.00
205_S	232_G	0.908	1.00
222_D	225_L	0.907	1.00
29_H	32_Q	0.897	1.00
34_L	41_V	0.897	1.00
88_L	192_K	0.892	1.00
9_A	42_C	0.886	1.00
95_Q	98_D	0.884	1.00
87_S	148_D	0.880	1.00
99_I	102_S	0.877	1.00
45_T	67_N	0.875	1.00
67_N	72_F	0.874	1.00
215_I	232_G	0.868	1.00
238_G	257_E	0.865	1.00
73_V	200_G	0.865	1.00
27_T	261_A	0.864	1.00
165_R	182_A	0.862	1.00
262_R	265_K	0.862	1.00
53_S	57_Q	0.858	1.00
156_A	161_V	0.852	1.00
157_K	160_D	0.850	1.00
228_L	247_I	0.848	1.00
34_L	264_L	0.836	1.00
123_E	126_I	0.832	1.00
91_D	95_Q	0.831	1.00
49_Y	74_H	0.830	1.00
66_V	204_I	0.827	1.00
215_I	230_F	0.827	1.00
44_S	66_V	0.821	1.00
167_Y	171_V	0.818	1.00
30_T	33_R	0.818	1.00
27_T	30_T	0.816	1.00
243_A	247_I	0.815	1.00
8_I	216_I	0.814	1.00
126_I	130_N	0.812	1.00
95_Q	99_I	0.808	1.00
232_G	249_N	0.807	1.00
48_P	68_F	0.805	1.00
137_T	140_D	0.804	1.00
83_R	207_Y	0.798	1.00
16_L	23_I	0.793	1.00
18_K	24_S	0.788	1.00
162_P	165_R	0.787	1.00
228_L	248_A	0.786	1.00
97_V	101_E	0.780	1.00
217_A	234_G	0.779	1.00
39_H	216_I	0.779	1.00
10_L	16_L	0.770	1.00
74_H	82_G	0.769	1.00
85_H	113_I	0.761	1.00
99_I	167_Y	0.761	1.00
18_K	255_N	0.759	1.00
240_G	244_V	0.758	1.00
102_S	167_Y	0.756	1.00
12_L	43_I	0.755	1.00
26_N	261_A	0.753	1.00
220_D	240_G	0.744	1.00
201_L	217_A	0.744	1.00
67_N	74_H	0.742	1.00
214_R	232_G	0.741	1.00
82_G	85_H	0.740	1.00
20_D	256_E	0.725	1.00
42_C	64_P	0.725	1.00
253_A	263_F	0.722	1.00
127_D	130_N	0.719	1.00
87_S	150_T	0.717	1.00
153_L	189_E	0.714	1.00
220_D	237_M	0.714	1.00
14_G	237_M	0.713	1.00
16_L	255_N	0.709	1.00
250_R	262_R	0.708	1.00
72_F	150_T	0.708	1.00
180_R	190_I	0.708	1.00
237_M	240_G	0.704	1.00
141_L	144_N	0.704	1.00
112_V	117_Y	0.700	1.00
234_G	244_V	0.700	1.00
90_L	148_D	0.698	1.00
199_V	203_K	0.698	1.00
166_S	170_D	0.694	1.00
43_I	52_S	0.693	1.00
167_Y	170_D	0.692	1.00
71_A	192_K	0.689	1.00
91_D	94_K	0.688	1.00
52_S	67_N	0.686	1.00
69_N	189_E	0.681	1.00
103_Y	163_A	0.679	1.00
99_I	171_V	0.677	1.00
98_D	142_R	0.672	1.00
202_Q	205_S	0.672	1.00
195_M	199_V	0.672	1.00
226_E	229_E	0.667	1.00
132_N	135_N	0.664	1.00
252_T	262_R	0.661	1.00
112_V	115_D	0.661	1.00
218_F	235_V	0.657	1.00
52_S	65_I	0.657	1.00
26_N	29_H	0.653	1.00
44_S	227_M	0.648	1.00
136_V	139_G	0.646	1.00
158_E	162_P	0.639	1.00
101_E	107_N	0.636	1.00
239_N	245_K	0.635	1.00
233_C	263_F	0.634	1.00
161_V	165_R	0.632	1.00
7_L	204_I	0.630	1.00
64_P	204_I	0.628	1.00
234_G	248_A	0.625	1.00
12_L	16_L	0.625	1.00
42_C	63_T	0.621	1.00
93_V	149_V	0.621	1.00
49_Y	53_S	0.618	1.00
218_F	252_T	0.618	1.00
250_R	253_A	0.617	1.00
12_L	52_S	0.616	1.00
65_I	76_P	0.612	1.00
5_P	40_Y	0.612	1.00
222_D	244_V	0.612	1.00
236_A	247_I	0.611	1.00
104_N	160_D	0.610	1.00
64_P	75_H	0.608	1.00
17_L	255_N	0.607	1.00
93_V	97_V	0.607	1.00
6_Y	39_H	0.606	1.00
225_L	228_L	0.605	1.00
16_L	43_I	0.604	1.00
126_I	129_F	0.603	1.00
43_I	56_Y	0.602	1.00
258_D	261_A	0.599	1.00
244_V	248_A	0.599	1.00
56_Y	65_I	0.598	1.00
73_V	207_Y	0.595	1.00
198_A	202_Q	0.594	1.00
108_V	153_L	0.592	1.00
39_H	214_R	0.592	1.00
194_G	199_V	0.591	1.00
54_M	57_Q	0.591	1.00
180_R	188_I	0.590	1.00
253_A	266_E	0.590	1.00
8_I	218_F	0.585	1.00
24_S	261_A	0.584	1.00
210_V	232_G	0.580	1.00
139_G	143_E	0.579	1.00
97_V	109_L	0.578	1.00
105_V	110_A	0.578	1.00
75_H	83_R	0.576	1.00
184_P	221_E	0.576	1.00
29_H	265_K	0.574	1.00
261_A	264_L	0.573	1.00
64_P	76_P	0.573	1.00
131_M	134_T	0.571	1.00
258_D	262_R	0.571	1.00
158_E	185_W	0.571	1.00
99_I	168_L	0.570	0.99
23_I	28_L	0.570	0.99
40_Y	63_T	0.567	0.99
23_I	47_R	0.567	0.99
151_S	183_A	0.566	0.99
34_L	261_A	0.565	0.99
100_S	107_N	0.564	0.99
156_A	164_I	0.563	0.99
247_I	250_R	0.563	0.99
30_T	34_L	0.562	0.99
237_M	255_N	0.562	0.99
94_K	145_L	0.562	0.99
112_V	147_E	0.560	0.99
154_I	190_I	0.558	0.99
10_L	34_L	0.557	0.99
218_F	264_L	0.555	0.99
90_L	146_G	0.555	0.99
73_V	204_I	0.552	0.99
136_V	141_L	0.550	0.99
233_C	267_Y	0.549	0.99
35_K	60_E	0.547	0.99
235_V	249_N	0.547	0.99
19_D	254_T	0.544	0.99
44_S	69_N	0.544	0.99
239_N	254_T	0.539	0.99
68_F	71_A	0.537	0.99
68_F	189_E	0.537	0.99
169_S	173_A	0.536	0.99
16_L	260_V	0.535	0.99
7_L	40_Y	0.535	0.99
31_I	264_L	0.535	0.99
27_T	31_I	0.535	0.99
93_V	152_V	0.532	0.99
153_L	187_V	0.532	0.99
113_I	150_T	0.532	0.99
49_Y	68_F	0.530	0.99
40_Y	64_P	0.530	0.99
31_I	35_K	0.528	0.99
18_K	258_D	0.528	0.99
212_R	231_A	0.527	0.99
105_V	164_I	0.527	0.99
201_L	205_S	0.526	0.99
9_A	205_S	0.525	0.99
158_E	182_A	0.525	0.99
68_F	187_V	0.524	0.99
105_V	154_I	0.523	0.99
122_D	125_L	0.517	0.99
68_F	150_T	0.516	0.99
154_I	164_I	0.513	0.99
99_I	172_H	0.512	0.99
198_A	215_I	0.511	0.99
54_M	58_Q	0.509	0.99
98_D	101_E	0.509	0.99
35_K	41_V	0.508	0.99
46_G	223_N	0.508	0.99
43_I	59_M	0.507	0.99
62_T	77_Q	0.505	0.99
210_V	215_I	0.505	0.99
11_D	15_T	0.500	0.99

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
3pgvA	3	0.9519	100	0.225	Contact Map
4qjbA	1	0.9815	100	0.231	Contact Map
1nrwA	1	0.9519	100	0.235	Contact Map
2b30A	2	0.9815	100	0.243	Contact Map
1rkqA	1	0.9815	100	0.246	Contact Map
3l7yA	1	0.9593	100	0.248	Contact Map
3daoA	1	0.9704	100	0.256	Contact Map
1nf2A	4	0.9667	100	0.259	Contact Map
4dw8A	1	0.963	100	0.262	Contact Map
3dnpA	2	0.963	100	0.267	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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